Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold98
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1546936
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 11 of 13
Found at i:1265000 original size:158 final size:158
Alignment explanation
Indices: 1264712--1265019 Score: 379
Period size: 158 Copynumber: 1.9 Consensus size: 158
1264702 CTTAATAGAA
* * * *
1264712 GATACTTCAACCCCGGTTTTATTTCTAAAACACCCATTTTTCATAATCGGGGATACTCTAACTCC
1 GATACTTCAACCCCGGTTTTATTTCCAAAACACCCATTTCTCACAATCAGGGATACTCTAACTCC
** * **
1264777 AATTTTATTTCCAAAATACCAATTTTTCACAATCGGGGATACTCCAACCCTGTTATTTTATTGGG
66 AACCTTATTTCCAAAATACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTATTGGG
*
1264842 GATACTCCAACCCCGTTATTTCTGAGGG
131 GATACTCAAACCCCGTTATTTCTGAGGG
* ***
1264870 GATAC-TCTAACCCCGGTTTTATTTCCAAAATATTGATTTCTCACAATCAGGGATACT-TCAACT
1 GATACTTC-AACCCCGGTTTTATTTCCAAAACACCCATTTCTCACAATCAGGGATACTCT-AACT
* * *** * *
1264933 CCAGCCTTATTTCTAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCCATTATTTTCA-T
64 CCAACCTTATTTCCAAAATACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTT-ATT
1264997 GGGGATACTCAAACCCCGTTATT
128 GGGGATACTCAAACCCCGTTATT
1265020 ATCTCCAAAA
Statistics
Matches: 126, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
157 3 0.02
158 122 0.97
159 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (158 bp):
GATACTTCAACCCCGGTTTTATTTCCAAAACACCCATTTCTCACAATCAGGGATACTCTAACTCC
AACCTTATTTCCAAAATACCAATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTATTGGG
GATACTCAAACCCCGTTATTTCTGAGGG
Found at i:1266180 original size:88 final size:88
Alignment explanation
Indices: 1265987--1266268 Score: 252
Period size: 88 Copynumber: 3.2 Consensus size: 88
1265977 GCTTCCTTCC
* * * * **
1265987 TGTCTAACGTATGGTTACCA-CC-AGGTTAGATTCTTTTCATT-CTGATTTAACGTATGATTATG
1 TGTCTGACGTAAGGTTACCACCCTA-GTTAGATTCTTTTCATTCCT-ATTTAACGTAAGGTTACC
* * * ***
1266049 ACCCTAGTCAAATCTGCCTCCTCCC
64 ACCCTAGCCAAATCTACCTCATTTT
* * * * * * *
1266074 TATGTGACAT-AGGATTACCACCCTGGTTGGATTCTTTTCATTCC-ATTTTAATGTATGGTTACC
1 TGTCTGACGTAAGG-TTACCACCCTAGTTAGATTCTTTTCATTCCTA-TTTAACGTAAGGTTACC
* * *
1266137 ACCCTGGTCAAATGC-GCCTCATTTT
64 ACCCTAGCCAAAT-CTACCTCATTTT
* *
1266162 TGTCTGATGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTGACGTAAGGTTACCAC
1 TGTCTGACGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTAACGTAAGGTTACCAC
*
1266227 CCTAGCCAAATCTACCTCCTTTT
66 CCTAGCCAAATCTACCTCATTTT
1266250 TGTCTGACGTAAGGTTACC
1 TGTCTGACGTAAGGTTACC
1266269 GCCTTGGCTA
Statistics
Matches: 156, Mismatches: 30, Indels: 17
0.77 0.15 0.08
Matches are distributed among these distances:
86 2 0.01
87 14 0.09
88 134 0.86
89 6 0.04
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (88 bp):
TGTCTGACGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTAACGTAAGGTTACCAC
CCTAGCCAAATCTACCTCATTTT
Found at i:1266368 original size:43 final size:43
Alignment explanation
Indices: 1266321--1266405 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
1266311 CATGCTGATT
**
1266321 AAATCTGCCTTTTTCCTATC-GACAAATGGTTACCACCATGGTC
1 AAATCTGCCTCCTTCCTATCTGACAAATGGTTACCACC-TGGTC
* **
1266364 AAATCTGCCTCCTTCCTGTCTGACGTATGGTTACCACCTGGT
1 AAATCTGCCTCCTTCCTATCTGACAAATGGTTACCACCTGGT
1266406 TAGATTCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 21 0.58
44 15 0.42
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.33
Consensus pattern (43 bp):
AAATCTGCCTCCTTCCTATCTGACAAATGGTTACCACCTGGTC
Found at i:1266524 original size:44 final size:44
Alignment explanation
Indices: 1266386--1266627 Score: 136
Period size: 44 Copynumber: 5.5 Consensus size: 44
1266376 TTCCTGTCTG
* * *
1266386 ACGTATGGTTACCA-CCTGGTTAGATTCTTTTCATTCCGATTTA
1 ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTA
* * ** * * * * * ** * *
1266429 ATGTATGATTATGACCCTAGTCAAATCCATATCTTTCCTGTCTG
1 ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTA
*
1266473 ACCTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTA
1 ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTA
* * * **
1266517 ACGTATGGTAACCACTCTAGTCAAATTCGCCTATTTTTTGTCCAA--T-
1 ACGTATGGTTACCACCCTAGTCAGATT---CT-TTTCAT-TCCAATTTA
* * * * *
1266563 --GTAAGGTTACCACCCTAGTTAGATTCATTTCATTCCTATTTG
1 ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTA
* *
1266605 ACGTAAGGTTACCACCGTAGTCA
1 ACGTATGGTTACCACCCTAGTCA
1266628 AATCTACCTC
Statistics
Matches: 142, Mismatches: 46, Indels: 21
0.68 0.22 0.10
Matches are distributed among these distances:
39 4 0.03
40 4 0.03
41 2 0.01
43 10 0.07
44 110 0.77
47 3 0.02
48 4 0.03
49 5 0.04
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.38
Consensus pattern (44 bp):
ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTA
Found at i:1266538 original size:88 final size:87
Alignment explanation
Indices: 1266376--1266663 Score: 285
Period size: 88 Copynumber: 3.3 Consensus size: 87
1266366 ATCTGCCTCC
* * * * * *
1266376 TTCCTGTCTGACGTATGGTTACCA-CCTGGTTAGATTCTTTTCATTCCGATTTAATGTATGATTA
1 TTCCTGTCTAACGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCAATTTAACGTATGGTTA
**
1266440 TGACCCTAGTCAAATCCATATCT
66 CCA-CCTAGTCAAATCCATATCT
* * * * *
1266463 TTCCTGTCTGACCTATGGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTAACGTATGGTAA
1 TTCCTGTCTAACGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCAATTTAACGTATGGTTA
*
1266528 CCACTCTAGTCAAATTCGCCTAT-T
66 CCAC-CTAGTCAAA-TC-CATATCT
* * * * * * *
1266552 TT-TTGTCCAATGTAAGGTTACCACCCTAGTTAGATTCATTTCATTCCTATTTGACGTAAGGTTA
1 TTCCTGTCTAACGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCAATTTAACGTATGGTTA
* ** *
1266616 CCACCGTAGTCAAATCTACCTCC
66 CCACC-TAGTCAAATCCATATCT
1266639 TTCCTGTCTAACGTAAGGTTACCAC
1 TTCCTGTCTAACGTAAGGTTACCAC
1266664 TCTGGTCTGT
Statistics
Matches: 164, Mismatches: 30, Indels: 13
0.79 0.14 0.06
Matches are distributed among these distances:
86 1 0.01
87 29 0.18
88 125 0.76
89 5 0.03
90 4 0.02
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (87 bp):
TTCCTGTCTAACGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCAATTTAACGTATGGTTA
CCACCTAGTCAAATCCATATCT
Found at i:1266687 original size:393 final size:391
Alignment explanation
Indices: 1265956--1267011 Score: 1323
Period size: 393 Copynumber: 2.7 Consensus size: 391
1265946 CGTCACGATA
* * *
1265956 GTTACCACCATGGTCAAAT-TCGCTTCCTTCCTGTCTAACGTATGGTTACCACCAGGTTAGATTC
1 GTTACCACCATGGTCAAATCT-GCCTCCTTCCTGTCTGACGTATGGTTACCACCTGGTTAGATTC
* * * * *
1266020 TTTTCATTCTGATTTAACGTATGATTATGACCCTAGTCAAATCTGCCTCCTCCCTATGTGACATA
65 TTTTCATTCTGATTTAATGTATGATTATGACCCTAGTCAAATCTGCCTCTTTCCTGTCTGACATA
** * *
1266085 -GGATTACCACCCTGGTTGGATTCTTTTCATTCCATTTTAATGTATGGTTACCACCCTGGTCAAA
130 TGG-TTACCACCCTGGTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCA-CCTGGTCAAA
* *
1266149 TGCGCCTCATTTTTGTCTGATGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTGAC
193 TTCGCCT-ATTTTTGTCTAATGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTGAC
** * *
1266214 GTAAGGTTACCACCCTAGCCAAATCTACCTCCTTTTTGTCTGACGTAAGGTTACCGCCTTGGCTA
257 GTAAGGTTACCACCCTAGCCAAATCTACCTCCTTCCTGTCTAACGTAAGGTTACCACCTTGGCTA
* ** * ** * ** *
1266279 GTTCTTTTTATTTTGATTTGATGTATGATTACCATGC-TGATTAAATCTGCCTTTTTCCTATCGA
322 GTTCTTTTCATTTTGATTTGACATATGACTA-CAACCTTGATCAAATCTGCCTCCTTCATATCGA
1266343 CAAATG
386 CAAATG
1266349 GTTACCACCATGGTCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTACCACCTGGTTAGATTCT
1 GTTACCACCATGGTCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTACCACCTGGTTAGATTCT
* **** *
1266414 TTTCATTCCGATTTAATGTATGATTATGACCCTAGTCAAATCCATATCTTTCCTGTCTGACCTAT
66 TTTCATTCTGATTTAATGTATGATTATGACCCTAGTCAAATCTGCCTCTTTCCTGTCTGACATAT
* * * *
1266479 GGTTACCACCCTAGTCAGATTCTTTTCATTCCAATTTAACGTATGGTAACCACTCTAGTCAAATT
131 GGTTACCACCCTGGTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCAC-CTGGTCAAATT
* *
1266544 CGCCTATTTTTTGTCCAATGTAAGGTTACCACCCTAGTTAGATTCATTTCATTCCTATTTGACGT
195 CGCCTA-TTTTTGTCTAATGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTGACGT
* *
1266609 AAGGTTACCACCGTAGTCAAATCTACCTCCTTCCTGTCTAACGTAAGGTTACCA-CTCTGGTCT-
259 AAGGTTACCACCCTAGCCAAATCTACCTCCTTCCTGTCTAACGTAAGGTTACCACCT-TGG-CTA
* * * *
1266672 GTTGTTTTCATTTTGATTTGACATATGGCTACAACCTTGGTCAAATCTGCCTCCTTCATGTCGAC
322 GTTCTTTTCATTTTGATTTGACATATGACTACAACCTTGATCAAATCTGCCTCCTTCATATCGAC
1266737 AAATG
387 AAATG
* * * * * * *
1266742 GTTACCGCCATGGTCAATTCTACCTCATTCCTATCTGATGTATGGTTACCACCTAGTTAGATTCT
1 GTTACCACCATGGTCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTACCACCTGGTTAGATTCT
* * * * * *
1266807 TTTCATTCTAATTTAATGTATGTTTATGACCTTAGTCAAATCTGCCTCTTTCTTGTCTAACGTAT
66 TTTCATTCTGATTTAATGTATGATTATGACCCTAGTCAAATCTGCCTCTTTCCTGTCTGACATAT
* *
1266872 AGTTACCACTCTGGTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCACCATGGTCAAATT
131 GGTTACCACCCTGGTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCACC-TGGTCAAATT
* * * * * * * * *
1266937 CGCTTCCTTCTTGTCTAATGTATGGTTACCACCATGGTCAAATTCTTTTCATT-CTGATTTGATG
195 CGCCT-ATTTTTGTCTAATGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCT-ATTTGACG
*
1267001 TATGGTTACCA
258 TAAGGTTACCA
1267012 TCCTGGTCAA
Statistics
Matches: 572, Mismatches: 81, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
392 10 0.02
393 557 0.97
394 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.39
Consensus pattern (391 bp):
GTTACCACCATGGTCAAATCTGCCTCCTTCCTGTCTGACGTATGGTTACCACCTGGTTAGATTCT
TTTCATTCTGATTTAATGTATGATTATGACCCTAGTCAAATCTGCCTCTTTCCTGTCTGACATAT
GGTTACCACCCTGGTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCACCTGGTCAAATTC
GCCTATTTTTGTCTAATGTAAGGTTACCACCCTAGTTAGATTCTTTTCATTCCTATTTGACGTAA
GGTTACCACCCTAGCCAAATCTACCTCCTTCCTGTCTAACGTAAGGTTACCACCTTGGCTAGTTC
TTTTCATTTTGATTTGACATATGACTACAACCTTGATCAAATCTGCCTCCTTCATATCGACAAAT
G
Found at i:1266908 original size:88 final size:88
Alignment explanation
Indices: 1266779--1268468 Score: 750
Period size: 88 Copynumber: 19.3 Consensus size: 88
1266769 TTCCTATCTG
* * ** * * **
1266779 ATGTATGGTTACCA-CCTAGTTAGATTCTTTTCATTCTAATTTAATGTATGTTTATGACCTTAGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
1266843 CAAATCTGCCTCTTTCTTGTCTA
66 CAAATCTGCCTCTTTCTTGTCTA
* * * * * * * *
1266866 ACGTATAGTTACCACTCTGGTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCACCATGGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
* *
1266931 CAAAT-TCGCTTCCTTCTTGTCTA
66 CAAATCT-GCCTCTTTCTTGTCTA
* * * *
1266954 ATGTATGGTTACCACCATGGTCAAATTCTTTTCATTCTGATTTGATGTATGGTTACCATCC-TGG
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCA-CCTTAG
* *
1267018 TCAAACTCT-CATCTTTCATGTCTA
65 TCAAA-TCTGCCTCTTTCTTGTCTA
* * * * * * ** * * *
1267042 AAGTTTGGTTACTACTCTAGTCA-AATCTACCTC-TCTCCTATTTGATGTATGGTTACTACCTTG
1 ATGTATGGTTACCACCCTGGTCAGATTCT-TTTCAT-TCCGATTTGATGTATGGTTACCACCTTA
* * *
1267105 GTCAGAT-T--CT-TTTCGTTTCGATTTG
64 GTCAAATCTGCCTCTTTC--TT-G-TCTA
* ** * * * * * * *
1267130 ATGTATGGTTACCACCCTGGTCA-AATCTGCCTCCTTCCTA-TCG-TCATATGGTTATCACCATG
1 ATGTATGGTTACCACCCTGGTCAGATTCT-TTTCATTCCGATTTGAT-GTATGGTTACCACCTTA
* ***
1267192 GTCAAATCTGCCTCCTTCTTGTAGG
64 GTCAAATCTGCCTCTTTCTTGTCTA
* * * * * * *
1267217 ATGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCTATTTGACT-TAAGGTTGCCA-TTCTG
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGA-TGTATGGTTACCACCT-TA
1267280 GTCAAATCTAG-CTCTTTCTTGTCTA
64 GTCAAATCT-GCCTCTTTCTTGTCTA
* * * * * * *
1267305 ACGTATGGTTACCACCCTGGTTAGATTTTTTTTATTCCAATTTTACGTATGGTTACCACCTTAGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
* *
1267370 CAAATTTGCCTCTCTT-TTATCTA
66 CAAATCTGCCTCT-TTCTTGTCTA
* * * ** * *
1267393 ATGTATGGTTACTACCTTGGTCATATTCTTTTCATTTTGATTT-A--TATAGTTACCACCCTAGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
* * * *
1267455 CAAATATGCCTCTCTCCTGTCTG
66 CAAATCTGCCTCTTTCTTGTCTA
* * * * * *
1267478 ATGTATGGTTACCACCTTGGTCAGATTCTTTTTATTTCGATTTGATGGATGGTTATCACCCTAGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
* * * *
1267543 CAAATCTACCTCTCTCCTGTCTG
66 CAAATCTGCCTCTTTCTTGTCTA
* * * *
1267566 ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGA-GTTATGGTTACCACCCTAG
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATG-TATGGTTACCACCTTAG
* * * *
1267630 TCAAATCTACCTCTCTCTTGTTTT
65 TCAAATCTGCCTCTTTCTTGTCTA
* * * * * * * *
1267654 ACGCAAGGTTACCACCCTGTTTAGATTCTTTTCATTTCGAATTGACT-TATGGTTACCATCC-TG
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGA-TGTATGGTTACCA-CCTTA
** * * *
1267717 GTCAAACTCT-TATATTTCTTGTTTG
64 GTCAAA-TCTGCCTCTTTCTTGTCTA
* * * * * ** * * *
1267742 ACGTATAGTCACCACCCTGGTCAAATT-TGCTTCACTTTTG-TGTGACT-TATTGTTACTACCTT
1 ATGTATGGTTACCACCCTGGTCAGATTCT-TTTCA-TTCCGATTTGA-TGTATGGTTACCACCTT
* * *
1267804 GGTCATATTCT-TCTCATTTC--GAT-TA
63 AGTCA-AATCTGCCTC-TTTCTTG-TCTA
* * * * **
1267829 GATATATGGTTACCACTCGGGTCA-AATCTGCCTC-TCTCCTG-TTTGACT-TATGGTTACCACC
1 -ATGTATGGTTACCACCCTGGTCAGATTCT-TTTCAT-TCC-GATTTGA-TGTATGGTTACCACC
* * * * *
1267890 CTAGTCAGAT-T--CTTTTTATTTTC-A
61 TTAGTCAAATCTGCCTCTTTCTTGTCTA
* * * *
1267914 ATTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCTC-TT--G-TGTGATGTATGGTTACC
1 A-TG---TATGGTTACCACCCTGGTCAGAT-T--CTTT-TCATTCCGATTTGATGTATGGTTACC
* * *** * * *
1267975 ACCCTAGTCAGAT-TTTTTTTGTTC-TGATTTG
58 ACCTTAGTCAAATCTGCCTCT-TTCTTG-TCTA
* * * * * ** * * *
1268006 ACGTATGGTTACTACCTTGGTCATATTCTTTTGATTTTGATTTGACGTATGGTTACCACCCTGGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
** *
1268071 CAAAGATGCCTCTCTCTTGTCTA
66 CAAATCTGCCTCTTTCTTGTCTA
* * * ** * * * *
1268094 ATGTATGGTTACCACCCTAGTTAGATTCTTTTTATTTTGATTTGATGTATGGTTATCGCCCTGGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
* * *
1268159 CAAATCTACCTCTCTTC-TATCTG
66 CAAATCTGCCTCT-TTCTTGTCTA
* * * * * * * * * * *
1268182 ATGTATGATTACCACACTAGTCAGATTATTTTCATTCTGGTTTTATGTGTGGTTATCACCCTGGT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
* * *
1268247 CAAATCT-AC-CTTTCTACTATCTG
66 CAAATCTGCCTCTTTCT--TGTCTA
* * * * *
1268270 ACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCC-ATTTGAGGTATGGTTACCACCCTAT
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCA-TTCCGATTTGATGTATGGTTACCACCTTAG
* * *
1268334 TCAAATCTGCCTCTCTCTTATCTG
65 TCAAATCTGCCTCTTTCTTGTCTA
* * * *
1268358 ATGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTCGATTTGACT-TATGCTGT-CCATCC-T
1 ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGA-TGTATGGT-TACCA-CCTT
** *
1268420 AGTCAAACTCT-TATTTTTCTTGTCTA
63 AGTCAAA-TCTGCCTCTTTCTTGTCTA
** *
1268446 GCGTATAGTTACCACCCTGGTCA
1 ATGTATGGTTACCACCCTGGTCA
1268469 AATTTGCTTC
Statistics
Matches: 1257, Mismatches: 263, Indels: 165
0.75 0.16 0.10
Matches are distributed among these distances:
84 10 0.01
85 86 0.07
86 8 0.01
87 94 0.07
88 989 0.79
89 42 0.03
90 14 0.01
91 8 0.01
92 6 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (88 bp):
ATGTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCGATTTGATGTATGGTTACCACCTTAGT
CAAATCTGCCTCTTTCTTGTCTA
Found at i:1267010 original size:132 final size:128
Alignment explanation
Indices: 1266868--1267288 Score: 333
Period size: 132 Copynumber: 3.2 Consensus size: 128
1266858 CTTGTCTAAC
* * **
1266868 GTATAGTTACCACTCTGGTCAGATTCTTTTCATTCCAAT-TTAAAGTATGGTTACCACCATGGTC
1 GTATGGTTACCACTCTGGTCA-AATCTCATC-TTCC-ATCTTAAAGTATGGTTACCACCATGGTC
*
1266932 AAATTCGCTTCCTTCTTGTCTAATGTATGGTTACCACCATGGTCAAATTCTTTTCATTCTGATTT
63 AAATTCGC-TCCTTCTTGT-TGATGTATGGTTACCACCATGGTCAAATTCTTTTCATTCTGATTT
1266997 GAT
126 GAT
* * * * *
1267000 GTATGGTTACCA-TCCTGGTCAAACTCTCATCTTTCATGTCTAAAGTTTGGTTACTACTC-TAGT
1 GTATGGTTACCACT-CTGGTCAAA-TCTCATCTTCCATCT-TAAAGTATGGTTACCAC-CATGGT
* * * * *
1267063 CAAATCTAC-CTCTCTCCTAT-TTGATGTATGGTTACTACCTTGGTCAGATTCTTTTCGTT-TCG
62 CAAAT-T-CGCTC-CTTCT-TGTTGATGTATGGTTACCACCATGGTCAAATTCTTTTCATTCT-G
1267125 ATTTGAT
122 ATTTGAT
* * * * *
1267132 GTATGGTTACCACCCTGGTCAAATCTGCCTCCTTCCTATCGT-CA-TATGGTTATCACCATGGTC
1 GTATGGTTACCACTCTGGTCAAATCT-CAT-CTTCC-ATCTTAAAGTATGGTTACCACCATGGTC
* * *
1267195 AAA-TCTGCCTCCTTCTTGTAGGATGTATGGTTACCACCCTAGTCAAATTCTTTTCATTCCT-AT
63 AAATTC-G-CTCCTTCTTGT-TGATGTATGGTTACCACCATGGTCAAATTCTTTTCATT-CTGAT
1267258 TTGACT
124 TTGA-T
* * *
1267264 -TAAGGTTGCCATTCTGGTCAAATCT
1 GTATGGTTACCACTCTGGTCAAATCT
1267289 AGCTCTTTCT
Statistics
Matches: 231, Mismatches: 35, Indels: 47
0.74 0.11 0.15
Matches are distributed among these distances:
128 1 0.00
129 2 0.01
130 8 0.03
131 88 0.38
132 114 0.49
133 14 0.06
134 4 0.02
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.40
Consensus pattern (128 bp):
GTATGGTTACCACTCTGGTCAAATCTCATCTTCCATCTTAAAGTATGGTTACCACCATGGTCAAA
TTCGCTCCTTCTTGTTGATGTATGGTTACCACCATGGTCAAATTCTTTTCATTCTGATTTGAT
Found at i:1267325 original size:44 final size:43
Alignment explanation
Indices: 1266841--1267325 Score: 187
Period size: 44 Copynumber: 11.0 Consensus size: 43
1266831 TATGACCTTA
* * *
1266841 GTCAAATCTGCCTCTTTCTTGTCTAACGTATAGTTACCACTCTG
1 GTCAAATCTG-CTCTTTCTTGTCTAATGTATGGTTACCACCCTG
* ** * *** * * *
1266885 GTCAGATTCTTTTCATTCCAATTTAAAGTATGGTTACCACCATG
1 GTCA-AATCTGCTCTTTCTTGTCTAATGTATGGTTACCACCCTG
* *
1266929 GTCAAAT-TCGCTTCCTTCTTGTCTAATGTATGGTTACCACCATG
1 GTCAAATCT-GC-TCTTTCTTGTCTAATGTATGGTTACCACCCTG
** * * * *
1266973 GTCAAATTCTTTTCATTC-TGATTTGATGTATGGTTACCATCCTG
1 GTCAAA-TCTGCTCTTTCTTG-TCTAATGTATGGTTACCACCCTG
* * * * * *
1267017 GTCAAACTCT-CATCTTTCATGTCTAAAGTTTGGTTACTACTCTA
1 GTCAAA-TCTGC-TCTTTCTTGTCTAATGTATGGTTACCACCCTG
* * * * * * * *
1267061 GTCAAATCTACCTCTCTCCTATTTGATGTATGGTTACTACCTTG
1 GTCAAATCT-GCTCTTTCTTGTCTAATGTATGGTTACCACCCTG
* * *
1267105 GTCAGAT-T-CT-TTTCGTTTCGATTTGATGTATGGTTACCACCCTG
1 GTCAAATCTGCTCTTTC--TT-G-TCTAATGTATGGTTACCACCCTG
* * * * * *
1267149 GTCAAATCTGCCTCCTTCCTATCGTCA--TATGGTTATCACCATG
1 GTCAAATCTG-CTCTTTCTTGTC-TAATGTATGGTTACCACCCTG
* *** *
1267192 GTCAAATCTGCCTCCTTCTTGTAGGATGTATGGTTACCACCCTA
1 GTCAAATCTG-CTCTTTCTTGTCTAATGTATGGTTACCACCCTG
** * * * * * * * **
1267236 GTCAAATTCTTTTCATTCCTATTTGACT-TAAGGTTGCCATTCTG
1 GTCAAA-TCTGCTCTTTCTTGTCT-AATGTATGGTTACCACCCTG
*
1267280 GTCAAATCTAGCTCTTTCTTGTCTAACGTATGGTTACCACCCTG
1 GTCAAATCT-GCTCTTTCTTGTCTAATGTATGGTTACCACCCTG
1267324 GT
1 GT
1267326 TAGATTTTTT
Statistics
Matches: 319, Mismatches: 97, Indels: 50
0.68 0.21 0.11
Matches are distributed among these distances:
40 3 0.01
41 2 0.01
42 3 0.01
43 46 0.14
44 243 0.76
45 15 0.05
46 2 0.01
47 2 0.01
48 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (43 bp):
GTCAAATCTGCTCTTTCTTGTCTAATGTATGGTTACCACCCTG
Found at i:1267399 original size:44 final size:43
Alignment explanation
Indices: 1267351--1267500 Score: 119
Period size: 44 Copynumber: 3.5 Consensus size: 43
1267341 CCAATTTTAC
1267351 GTATGGTTACCACCTTAGTCAAATTTGCCTCTCTTTTATCTAAT
1 GTATGGTTACCACCTTAGTCAAATTTGCCTCTCTTTTATCT-AT
* * * * *
1267395 GTATGGTTACTACCTTGGTCATA-TT-CTTTTCATTTTGAT-T-T
1 GTATGGTTACCACCTTAGTCAAATTTGCCTCTC-TTTT-ATCTAT
* * * * ** *
1267436 ATATAGTTACCACCCTAGTCAAATATGCCTCTCTCCTGTCTGAT
1 GTATGGTTACCACCTTAGTCAAATTTGCCTCTCTTTTATCT-AT
*
1267480 GTATGGTTACCACCTTGGTCA
1 GTATGGTTACCACCTTAGTCA
1267501 GATTCTTTTT
Statistics
Matches: 78, Mismatches: 21, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
41 19 0.24
42 8 0.10
43 11 0.14
44 40 0.51
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (43 bp):
GTATGGTTACCACCTTAGTCAAATTTGCCTCTCTTTTATCTAT
Found at i:1268015 original size:308 final size:308
Alignment explanation
Indices: 1267395--1268329 Score: 1005
Period size: 308 Copynumber: 3.0 Consensus size: 308
1267385 TTTATCTAAT
* * * * * * *
1267395 GTATGGTTACTACCTTGGTCATATTCTTTTCATTTTGATTT-A--TATAGTTACCACCCTAGTCA
1 GTATGGTTACCACCTTGGTCAAACTCTTATGATTTTGATTTGACGTATAGTCACCACCCTGGTCA
* * * *
1267457 AATATGCCTCTCTCCTGTCTGATGTATGGTTACCACCTTGGTCAGATTCTTTTTATTTCGATTTG
66 AAGATGCCTCACTCTTGTCTAATGTATGGTTACCACCTTGGTCAGATTCTTTTTATTTCGATTTG
* * *
1267522 ATGGATGGTTATCACCCTAGTCAAATCTACCTCTCTCCTGTCTGACGTATGGTTACCACCCTAGT
131 ATGTATGGTTATCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACTTATGGTTACCACCCTAGT
** * *
1267587 CAGATTCTTTTCA-TTTCGATTTGAGTTATGGTTACCACCCTAGTCAAATCTACCTCTCTCTTGT
196 CAGATTCTTTTCATTTTC-ATTTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCTCTTGT
* * * * * *
1267651 TTTACGCAAGGTTACCACCCT-GTTTAGATTCTTTTCATTTCGAATTGAC
260 CTGACGTATGGTTACCACCCTAG-TCAGATTCTTTTCATTTCGATTTGAC
*
1267700 TTATGGTTACCATCC-TGGTCAAACTCTTAT-ATTTCTTG-TTTGACGTATAGTCACCACCCTGG
1 GTATGGTTACCA-CCTTGGTCAAACTCTTATGA-TT-TTGATTTGACGTATAGTCACCACCCTGG
** * * * * * * * * *
1267762 TCAAATTTGCTTCACTTTTGTGTGACT-TATTGTTACTACCTTGGTCATATTCTTCTCATTTCGA
63 TCAAAGATGCCTCACTCTTGTCT-AATGTATGGTTACCACCTTGGTCAGATTCTTTTTATTTCGA
* * * * * * *
1267826 TTAGATATATGGTTACCACTCGGGTCAAATCTGCCTCTCTCCTGTTTGACTTATGGTTACCACCC
127 TTTGATGTATGGTTATCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACTTATGGTTACCACCC
* *
1267891 TAGTCAGATTCTTTTTATTTTCAATTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCTCT
192 TAGTCAGATTCTTTTCATTTTCATTTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCTCT
* * *
1267956 TGTGTGATGTATGGTTACCACCCTAGTCAGATT-TTTT-TTGTTCTGATTTGAC
257 TGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCAT-TTC-GATTTGAC
* * * * * *
1268008 GTATGGTTACTACCTTGGTCATATTCTTTTGATTTTGATTTGACGTATGGTTACCACCCTGGTCA
1 GTATGGTTACCACCTTGGTCAAACTCTTATGATTTTGATTTGACGTATAGTCACCACCCTGGTCA
* * * * *
1268073 AAGATGCCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTTAGATTCTTTTTATTTTGATTTG
66 AAGATGCCTCACTCTTGTCTAATGTATGGTTACCACCTTGGTCAGATTCTTTTTATTTCGATTTG
* * * * *
1268138 ATGTATGGTTATCGCCCTGGTCAAATCTACCTCTCTTCTATCTGA-TGTATGATTACCACACTAG
131 ATGTATGGTTATCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACT-TATGGTTACCACCCTAG
* * ** * ** * * *
1268202 TCAGATTATTTTCATTCTGGTTTTATGTGTGGTTATCACCCTGGTCAAATCTACCTTTCTAC-TA
195 TCAGATTCTTTTCATTTTCATTTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCT-CTTG
* *
1268266 TCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCCATTTGAG
259 TCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
1268316 GTATGGTTACCACC
1 GTATGGTTACCACC
1268330 CTATTCAAAT
Statistics
Matches: 514, Mismatches: 97, Indels: 35
0.80 0.15 0.05
Matches are distributed among these distances:
304 1 0.00
305 27 0.05
306 7 0.01
307 15 0.03
308 448 0.87
309 15 0.03
310 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (308 bp):
GTATGGTTACCACCTTGGTCAAACTCTTATGATTTTGATTTGACGTATAGTCACCACCCTGGTCA
AAGATGCCTCACTCTTGTCTAATGTATGGTTACCACCTTGGTCAGATTCTTTTTATTTCGATTTG
ATGTATGGTTATCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACTTATGGTTACCACCCTAGT
CAGATTCTTTTCATTTTCATTTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCTCTTGTC
TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAC
Found at i:1268073 original size:132 final size:132
Alignment explanation
Indices: 1267870--1268408 Score: 394
Period size: 132 Copynumber: 4.1 Consensus size: 132
1267860 CTCTCTCCTG
* * *
1267870 TTTGACTTATGGTTACCACCCTAGTCAGATTCTTTTTATTTTCAATTGACATATGGTTATCACCC
1 TTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTGATTTTCAATTGACATATGGTTACCACCC
** * * * * *
1267935 TAGTCAAATCTACCTTTCTCTTGTGTGATGTATGGTTACCACCCTAGTCAGATTTTTTTTGTTCT
66 TAGTCAAAGATACCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTCAGATTCTTTTTATTCT
1268000 GA
131 GA
* * * * * * *
1268002 TTTGACGTATGGTTACTACCTTGGTCATATTCTTTTGATTTTGATTTGACGTATGGTTACCACCC
1 TTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTGATTTTCAATTGACATATGGTTACCACCC
* * * *
1268067 TGGTCAAAGATGCCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTTAGATTCTTTTTATTTT
66 TAGTCAAAGATACCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTCAGATTCTTTTTATTCT
1268132 GA
131 GA
* * * * * ** * * * ** *
1268134 TTTGATGTATGGTTATCGCCCTGGTCA-AATCTACCT-CTCTTCTATCTGATGTATGATTACCAC
1 TTTGACGTATGGTTACCACCCTAGTCAGATTCT-TTTGATTTTCAAT-TGACATATGGTTACCAC
* * * * * * * * * *
1268197 ACTAGTC--AGATTA-TTTTCATTCTGGTTTTATGTGTGGTTATCACCCTGGTCAAATCTACCTT
64 CCTAGTCAAAGA-TACCTCTC--TCTTGTCTAATGTATGGTTACCACCCTAGTCAGAT-T--CTT
*
1268259 TCTA--CT-A
123 TTTATTCTGA
* * * * **
1268266 TCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCCATTTGAGGTATGGTTACCACCC
1 TTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTGATTTTCAATTGACATATGGTTACCACCC
* ** * * * * *
1268331 TATTCAAATCTGCCTCTCTCTTATCTGATGTATGGTTACCACCCTAGTTAGATTCTTTTCATT-T
66 TAGTCAAAGATACCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTCAGATTCTTTTTATTCT
1268395 CGA
131 -GA
*
1268398 TTTGACTTATG
1 TTTGACGTATG
1268409 CTGTCCATCC
Statistics
Matches: 304, Mismatches: 86, Indels: 34
0.72 0.20 0.08
Matches are distributed among these distances:
129 5 0.02
130 7 0.02
131 10 0.03
132 261 0.86
133 11 0.04
134 4 0.01
135 6 0.02
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (132 bp):
TTTGACGTATGGTTACCACCCTAGTCAGATTCTTTTGATTTTCAATTGACATATGGTTACCACCC
TAGTCAAAGATACCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTCAGATTCTTTTTATTCT
GA
Found at i:1268168 original size:220 final size:217
Alignment explanation
Indices: 1267559--1268213 Score: 665
Period size: 220 Copynumber: 3.0 Consensus size: 217
1267549 TACCTCTCTC
* * * * *
1267559 CTGTCTGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTGAGTTATGGTTACCA
1 CTGTGTGACGTATGGTTACTACCTTGGTCATATTCTTTTCATTTCGATTTGAG-TATGGTTACCA
* * * * * * *
1267624 CCCTAGTCAAATCTACCTCTCTCTTGTTTTACGCAAGGTTACCACCCT-GTTTAGATTCTTTTCA
65 CCCTGGTCAAATCTGCCTCTCTCTTGTTTAATGTATGGTTACCACCCTAG-TTAGATTCTTTTTA
* * * * * *
1267688 TTTCGAATTGACTTATGGTTACCATCCTGGTCAAACTCTTA--TATT-TCTTGTTTGACGTATAG
129 TTTTGAATTGA-TTATGGTTATCACCCTGGTCAAA-TC-TACCT-TTCTCTTGTCTGATGTATGG
* * * * *
1267750 TCACCACCCTGGTCAAATTTGCTTCACTT
190 TTACCACCCTAGTCAGATTT-TTTTACTT
* * * * * *
1267779 TTGTGTGACTTATTGTTACTACCTTGGTCATATTCTTCTCATTTCGATTAGATATATGGTTACCA
1 CTGTGTGACGTATGGTTACTACCTTGGTCATATTCTTTTCATTTCGATTTGA-GTATGGTTACCA
* * * * *
1267844 CTCGGGTCAAATCTGCCTCTCTCCTGTTTGACT-TATGGTTACCACCCTAGTCAGATTCTTTTTA
65 CCCTGGTCAAATCTGCCTCTCTCTTGTTT-AATGTATGGTTACCACCCTAGTTAGATTCTTTTTA
* * * *
1267908 TTTTCAATTGACATATGGTTATCACCCTAGTCAAATCTACCTTTCTCTTGTGTGATGTATGGTTA
129 TTTTGAATTGA-TTATGGTTATCACCCTGGTCAAATCTACCTTTCTCTTGTCTGATGTATGGTTA
**
1267973 CCACCCTAGTCAGATTTTTTTTGTT
193 CCACCCTAGTCAGATTTTTTTACTT
* * *
1267998 CTGATTTGACGTATGGTTACTACCTTGGTCATATTCTTTTGATTTTGATTTGACGTATGGTTACC
1 CTG-TGTGACGTATGGTTACTACCTTGGTCATATTCTTTTCATTTCGATTTGA-GTATGGTTACC
** *
1268063 ACCCTGGTCAAAGATGCCTCTCTCTTGTCTAATGTATGGTTACCACCCTAGTTAGATTCTTTTTA
64 ACCCTGGTCAAATCTGCCTCTCTCTTGTTTAATGTATGGTTACCACCCTAGTTAGATTCTTTTTA
* * * * *
1268128 TTTTGATTTGATGTATGGTTATCGCCCTGGTCAAATCTACCTCTCT-TCTATCTGATGTATGATT
129 TTTTGAATTGAT-TATGGTTATCACCCTGGTCAAATCTACCTTTCTCT-TGTCTGATGTATGGTT
* *
1268192 ACCACACTAGTCAGATTATTTT
192 ACCACCCTAGTCAGATTTTTTT
1268214 CATTCTGGTT
Statistics
Matches: 357, Mismatches: 68, Indels: 20
0.80 0.15 0.04
Matches are distributed among these distances:
218 2 0.01
219 13 0.04
220 341 0.96
221 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (217 bp):
CTGTGTGACGTATGGTTACTACCTTGGTCATATTCTTTTCATTTCGATTTGAGTATGGTTACCAC
CCTGGTCAAATCTGCCTCTCTCTTGTTTAATGTATGGTTACCACCCTAGTTAGATTCTTTTTATT
TTGAATTGATTATGGTTATCACCCTGGTCAAATCTACCTTTCTCTTGTCTGATGTATGGTTACCA
CCCTAGTCAGATTTTTTTACTT
Found at i:1268760 original size:44 final size:44
Alignment explanation
Indices: 1268707--1268832 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 44
1268697 CATTTCGATT
* **
1268707 TGACATATGGTTACCACCTTGGTCAAATCTGCCTCTTTCCTGTC
1 TGACGTATGGTTACCACCTTGGTCAAATCTGCCTCTTTCCAATC
* ** * *
1268751 TGACGTATGGTTACCACCTTGGTCAGATTCT-TTTCATTCCAATT
1 TGACGTATGGTTACCACCTTGGTCA-AATCTGCCTCTTTCCAATC
* *
1268795 TAACGTATGGTTACCACCCTGGTCAAAT-TCGCCTCTTT
1 TGACGTATGGTTACCACCTTGGTCAAATCT-GCCTCTTT
1268833 TTGTCCGATA
Statistics
Matches: 65, Mismatches: 14, Indels: 6
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.02
43 2 0.03
44 58 0.89
45 4 0.06
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (44 bp):
TGACGTATGGTTACCACCTTGGTCAAATCTGCCTCTTTCCAATC
Found at i:1268815 original size:176 final size:174
Alignment explanation
Indices: 1268447--1270702 Score: 608
Period size: 176 Copynumber: 12.9 Consensus size: 174
1268437 TCTTGTCTAG
* * * * ** *
1268447 CGTATAGTTACCACCCTGGTCAAATTTGCTTCTCTTTATGTGACAG-ATGGTTATTACCTTGGTC
1 CGTATGGTTACCACCCTGGTCAAA-TTGCCTCTCTTTGTGTGA-TGTATGGTTAACACCCTGGTC
* * * * * * * *
1268511 ATATTCTTTTCATTTCGATTTGACGTATGGTTACGACCCTAGTCAAATTTGCCTCTCTCCTTTTT
64 AGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTGTCT
* * * *
1268576 GACGTATCGTTACCACCTTAGTCAAATTCTTTTTATTTGGATATGA
129 GACGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTGGATTTGA
** * * *
1268622 CGTATCATTATCACCCTGGTCAAATCTACCTCTCTCTTGTGTGATGTATGGTTAACACCCTGGTT
1 CGTATGGTTACCACCCTGGTCAAAT-TGCCTCTCT-TTGTGTGATGTATGGTTAACACCCTGGTC
* *
1268687 AGATTATTTTCATTTCGATTTGACATATGGTTACCACCTTGGTCAAATCTGCCTCTTTCCTGTCT
64 AGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTGTCT
* *** *
1268752 GACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTCCAATTTAA
129 GACGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTGGATTTGA
* ** * * * *
1268798 CGTATGGTTACCACCCTGGTCAAATTCGCCTCTTTTTGTCCGATATATGGTGACCACCCTAGTCA
1 CGTATGGTTACCACCCTGGTCAAATT-GCCTCTCTTTGTGTGATGTATGGTTAACACCCTGGTCA
* * * * * *
1268863 GATTCTTTTCATTCCTATTTGACATAAGGTTAACACCCTGGT-ATAATCTACCTCATTCCTGTCT
65 GATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCA-AATCTGCCTCTTTCCTGTCT
* * * * * *
1268927 GACCTAAGGTTACCACCCTAATTAG-TTTTTTTCATTTGGATTTGA
129 GACGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTGGATTTGA
* * ** * ** * * *
1268972 CATATGGTTACCACCCTAGTCAAATTTGCCTC-CTTCCTATCGATAAATGGTTACCATCATGGTC
1 CGTATGGTTACCACCCTGGTCAAA-TTGCCTCTCTTTGTGT-GATGTATGGTTAACACCCTGGTC
* ** * * * * ** * * * ** ** *
1269036 A-ATTATGCCTCCTTTCTATCTAATGTTTGGTTACCA-CCTAGTTAGTTTCT-TATCATT-CTGA
64 AGATTCT-TTTCATTTCGATTTGACATATGGTTACCACCCTGGTCA-AATCTGCCTCTTTCCTG-
* * * * * * *** * *
1269097 TTTAACGTATGATTACAACCCTAGTCAAATTCACCTCCTTCCT-G-TCTGA
126 TCTGACGTATGGTTACCACCTTAGTCAGATTCTTTTCATT--TGGATTTGA
* ** * * * * * * * * * * *
1269146 TGTGCGGTTACTACCCTGGTTAGATT-CTTTTCATTCTAATTTAATGTATGGTTACCATCTTGGT
1 CGTATGGTTACCACCCTGGTCAAATTGCCTCTC-TT-T-GTGTGATGTATGGTTAACACCCTGGT
* ** * ** ** * * * *
1269210 CA-AGTCCACCTT--TTTCTGGTTTGATGTATGGTTACCACAATGGTTAGATTCTG-TTCATT-C
63 CAGA-TTC-TTTTCATTTC-GATTTGACATATGGTTACCACCCTGGTCA-AATCTGCCTCTTTCC
* ** * * ** ** * *
1269270 TGATTTGACGTATGGTTACCATCC-CGGTCAAACTCTCATC-TTTCTTATCTAA
124 TG-TCTGACGTATGGTTACCA-CCTTAGTCAGATTCTTTTCATTT-GGATTTGA
* * *** * * *
1269322 CGTATGCTTACCACCATGGTCAAATCTGCCTCTCTCCAATTTGATGTATGGTT-ACTACCATGCT
1 CGTATGGTTACCACCCTGGTCAAAT-TGCCTCTCT-TTGTGTGATGTATGGTTAAC-ACCCTGGT
* ** * *
1269386 CAGATTCTTTTCATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATATGCCTCGTT-CTGGT
63 CAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCT-GT
* ** * * * *** * * * *
1269450 -TGACATATGGTTACCGTCATGGTCA-AATCAGCCTCCTTCT-TATCTAA
127 CTGACGTATGGTTACCACCTTAGTCAGATTC-TTTTCATT-TGGATTTGA
* * * * * * * * * *
1269497 TGCATGGTTACCACACTAGTCAGATT-CCTTTCATTCTATTTGATGTAAGGTT-GCTACCCTGGT
1 CGTATGGTTACCACCCTGGTCAAATTGCCTCTC-TT-TGTGTGATGTATGGTTAAC-ACCCTGGT
* * *** * ** * * ***
1269560 TA-AATCTACCCCTTTCCTG-TTTGACATATGGTTACCACTTTGGTC-ATTTTTTTTCATTT-C-
63 CAGATTCTTTTCATTT-C-GATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTC-TTTCCT
* * * * * * **
1269620 GATTTAACGTATGGTTACCACCCT-GATCAAATTTGCTTCTC-TTT-TATACG-
125 G-TCTGACGTATGGTTACCACCTTAG-TCAGA-TT-CTTTTCATTTGGATTTGA
** * * * * * * * *
1269670 CGTATGGTTATTACCTTGGTCATATT-CTTTTCATTTCTATTTGAAGTATGGTTACCACCCTGGT
1 CGTATGGTTACCACCCTGGTCAAATTGCCTCTC--TT-TGTGTGATGTATGGTTAACACCCTGGT
* * * * * *
1269734 CAGATT-TTTATTATTTTGATTTGACATATGGTTATCACCCTGGTCAAATCTACCTCTCTCCTAT
63 CAGATTCTTT-TCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTGT
* * * * * *
1269798 TTGATGCATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGATTTGA
127 CTGACGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTGGATTTGA
* * * * * * * * *
1269846 -GTTATAGTTACCACCCTAGTTAAATCTACCTCTCTCTTATCTGACGTATGGTTACCACCCTAGT
1 CG-TATGGTTACCACCCTGGTCAAAT-TGCCTCTCT-TTGTGTGATGTATGGTTAACACCCTGGT
* * * * * ** * * *
1269910 TAGATTCTTTTCATTTCGATTTGACTTATGGCTACCATCTTGGTCAAACTCT-TATTTTTCTTGC
63 CAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAA-TCTGCCTCTTTCCTGT
* * * * *
1269974 CTGACGTATAGTTACCACCTTAGTCAAATT-TGTTTCTCTTTTG-TGTGA
127 CTGACGTATGGTTACCACCTTAGTCAGATTCT-TTTC-ATTTGGATTTGA
* * * * * * * * * *
1270022 CGTATGGTTACTACCTTGGTCATATT-CTTTTCATTTCGATTTCACGTATAGTTACCACCCTGGT
1 CGTATGGTTACCACCCTGGTCAAATTGCCTCTC-TTT-G-TGTGATGTATGGTTAACACCCTGGT
* * * * * * * * *** * *
1270086 CAAATCTGCCTCTC-TCTT--ATCTGACTTACGGTTACCACCTTGGTCAGAT-TATTTTTATTTC
63 CAGAT-T-CTTTTCAT-TTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCT-TTCC
* * * * * * * * * * * *
1270147 -GATTTAACATATTGTTATCACCCTGGTCAAATCTACCTCTC-TCCT-G-TGTGA
124 TG-TCTGACGTATGGTTACCACCTTAGTCAGAT-T-CTTTTCAT-TTGGATTTGA
* * * * *
1270198 TGTATGGTTACCACTCTGGTCAAATCTACCTCTCTCCTGTGTGATGTATGGTTACCACCCTGGTC
1 CGTATGGTTACCACCCTGGTCAAAT-TGCCTCTCT-TTGTGTGATGTATGGTTAACACCCTGGTC
* * * *
1270263 AGATTCTTTTCA-TTCTGATTTGACATATGGTTACCACCTTGGTCAAATCTACCTTTTTCTTGTC
64 AGATTCTTTTCATTTC-GATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTGTC
* * * * * **
1270327 TGACATATGGCTACCACCTTGGTAAGATTTTTTTCATTCTGTTTTTGA
128 TGACGTATGGTTACCACCTTAGTCAGATTCTTTTCATT-TGGATTTGA
* * * * *
1270375 TGTATGGTTACCACCTTGGTCAAAGTTGCCTCAT-TCCTGTCTGACT-TATGGTTACCACCCTGG
1 CGTATGGTTACCACCCTGGTCAAA-TTGCCTC-TCT-TTGTGTGA-TGTATGGTTAACACCCTGG
* * ** * * * *
1270438 TCAGATTCTTTTCATTCCAATTTGATGTATGGTTCCCATCCTGGTCAAATCCGCATCTTTCCTGT
62 TCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTGT
* * * * **
1270503 CTGACATATGGTTACCACCCTAGTTAGATTCTTATCATTTCAATTTGA
127 CTGACGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTGGATTTGA
* * * * * ** * ***
1270551 CATATGGTTACCACCCTAGTCAAATCTGCCTCT-TTCCTATCTAACATATGGTTACCTTTCTAGG
1 CGTATGGTTACCACCCTGGTCAAAT-TGCCTCTCTT--TGTGTGATGTATGGTTAACACCCT-GG
* * * * * * * *
1270615 T-AGATTCTTTTCATTCCAATTTGACGTATGGTTTCCACCTTAGTCAAATCTACCT-TCTTCTTG
62 TCAGATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCT-TTCCTG
*
1270678 TCTGACGTATGGTTACCAACTTAGT
126 TCTGACGTATGGTTACCACCTTAGT
1270703 TAAACGATTT
Statistics
Matches: 1552, Mismatches: 422, Indels: 213
0.71 0.19 0.10
Matches are distributed among these distances:
172 6 0.00
173 90 0.06
174 264 0.17
175 281 0.18
176 704 0.45
177 180 0.12
178 27 0.02
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (174 bp):
CGTATGGTTACCACCCTGGTCAAATTGCCTCTCTTTGTGTGATGTATGGTTAACACCCTGGTCAG
ATTCTTTTCATTTCGATTTGACATATGGTTACCACCCTGGTCAAATCTGCCTCTTTCCTGTCTGA
CGTATGGTTACCACCTTAGTCAGATTCTTTTCATTTGGATTTGA
Found at i:1268959 original size:87 final size:87
Alignment explanation
Indices: 1268453--1269027 Score: 433
Period size: 88 Copynumber: 6.6 Consensus size: 87
1268443 CTAGCGTATA
* * * * ** * * *
1268453 GTTACCACCCTGGTCAAATTTGCTTCTCTT--TATGTGACAGATGGTTATTACCTTGGTCATATT
1 GTTACCACCCTGGTCAAATCTGC--CTCTTCCTGTCTGACATATGGTTACCACCCTAGTCAGATT
* *
1268516 CTTTTCATTTCGATTTGACGTATG
64 CTTTTCATTCCGATTTGACATATG
* * * * * * * * *
1268540 GTTACGACCCTAGTCAAATTTGCCTCTCTCCTTTTTGACGTATCGTTACCACCTTAGTCAAATTC
1 GTTACCACCCTGGTCAAATCTGCCTCT-TCCTGTCTGACATATGGTTACCACCCTAGTCAGATTC
* ** * * *
1268605 TTTTTATTTGGATATGACGTATC
65 TTTTCATTCCGATTTGACATATG
* * * * * ** * * * *
1268628 ATTATCACCCTGGTCAAATCTACCTCTCTCTTGTGTGATGTATGGTTAACACCCTGGTTAGATTA
1 GTTACCACCCTGGTCAAATCTGCCTCT-TCCTGTCTGACATATGGTTACCACCCTAGTCAGATTC
*
1268693 TTTTCATTTCGATTTGACATATG
65 TTTTCATTCCGATTTGACATATG
* * * *
1268716 GTTACCACCTTGGTCAAATCTGCCTCTTTCCTGTCTGACGTATGGTTACCACCTTGGTCAGATTC
1 GTTACCACCCTGGTCAAATCTGCCTC-TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTC
* * *
1268781 TTTTCATTCCAATTTAACGTATG
65 TTTTCATTCCGATTTGACATATG
** * * *
1268804 GTTACCACCCTGGTCAAAT-TCGCCTCTTTTTGTCCGATATATGGTGACCACCCTAGTCAGATTC
1 GTTACCACCCTGGTCAAATCT-GCCTCTTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTC
* *
1268868 TTTTCATTCCTATTTGACATAAG
65 TTTTCATTCCGATTTGACATATG
* * * * * *
1268891 GTTAACACCCTGGT-ATAATCTACCTCATTCCTGTCTGACCTAAGGTTACCACCCTAATTAG-TT
1 GTTACCACCCTGGTCA-AATCTGCCTC-TTCCTGTCTGACATATGGTTACCACCCTAGTCAGATT
* **
1268954 TTTTTCATTTGGATTTGACATATG
64 CTTTTCATTCCGATTTGACATATG
* * * * *
1268978 GTTACCACCCTAGTCAAATTTGCCTCCTTCCTATC-GATAAATGGTTACCA
1 GTTACCACCCTGGTCAAATCTGCCT-CTTCCTGTCTGACATATGGTTACCA
1269028 TCATGGTCAA
Statistics
Matches: 388, Mismatches: 90, Indels: 21
0.78 0.18 0.04
Matches are distributed among these distances:
85 4 0.01
86 13 0.03
87 138 0.36
88 232 0.60
89 1 0.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (87 bp):
GTTACCACCCTGGTCAAATCTGCCTCTTCCTGTCTGACATATGGTTACCACCCTAGTCAGATTCT
TTTCATTCCGATTTGACATATG
Found at i:1269212 original size:88 final size:88
Alignment explanation
Indices: 1269018--1269301 Score: 270
Period size: 88 Copynumber: 3.2 Consensus size: 88
1269008 CTATCGATAA
* * * * *
1269018 ATGGTTACCATCATGGTC-AATT-ATGCCTCCTTTCTATCTAATGTTTGGTTACCA-CCTAGTTA
1 ATGGTTACCATCCTGGTCAAATTCA--CCTCCTTTCTGTCTGATGTATGGTTACCACCCTGGTTA
* *
1269080 GTTTCTTATCATTCTGATTTAACGT
64 GATTCTTTTCATTCTGATTTAACGT
* * * * * ** *
1269105 ATGATTACAACCCTAGTCAAATTCACCTCCTTCCTGTCTGATGTGCGGTTACTACCCTGGTTAGA
1 ATGGTTACCATCCTGGTCAAATTCACCTCCTTTCTGTCTGATGTATGGTTACCACCCTGGTTAGA
* *
1269170 TTCTTTTCATTCTAATTTAATGT
66 TTCTTTTCATTCTGATTTAACGT
* * * * * **
1269193 ATGGTTACCATCTTGGTCAAGTCCACCT-TTTTCTGGTTTGATGTATGGTTACCACAATGGTTAG
1 ATGGTTACCATCCTGGTCAAATTCACCTCCTTTCT-GTCTGATGTATGGTTACCACCCTGGTTAG
* *
1269257 ATTCTGTTCATTCTGATTTGACGT
65 ATTCTTTTCATTCTGATTTAACGT
*
1269281 ATGGTTACCATCCCGGTCAAA
1 ATGGTTACCATCCTGGTCAAA
1269302 CTCTCATCTT
Statistics
Matches: 155, Mismatches: 38, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
87 40 0.26
88 114 0.74
89 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (88 bp):
ATGGTTACCATCCTGGTCAAATTCACCTCCTTTCTGTCTGATGTATGGTTACCACCCTGGTTAGA
TTCTTTTCATTCTGATTTAACGT
Found at i:1269798 original size:88 final size:87
Alignment explanation
Indices: 1269706--1270695 Score: 312
Period size: 88 Copynumber: 11.2 Consensus size: 87
1269696 CTTTTCATTT
* * * *
1269706 CTATTTGAAGTATGGTTACCACCCTGGTCAGATTTTTATTATTTTGATTTGACATATGGTTATCA
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATTTTT-TTATTTCGATTTGACTTATGGTTACCA
*
1269771 CCCTGGTCAAATCTACCTCTCTC
65 CCCTAGTCAAATCTACCTCTCTC
* * * *
1269794 CTATTTGATGCATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGATTTGAGTTATAGTTACCA
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATTTTTTT-ATTTCGATTTGACTTATGGTTACCA
*
1269859 CCCTAGTTAAATCTACCTCTCTC
65 CCCTAGTCAAATCTACCTCTCTC
* * * * * *
1269882 TTATCTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTCGATTTGACTTATGGCTACCA
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATT-TTTTTATTTCGATTTGACTTATGGTTACCA
* * * * *
1269947 TCTTGGTCAAACTCTTA--TTTTTC
65 CCCTAGTCAAA-TC-TACCTCTCTC
* *** * * * * * * * * *
1269970 TTGCCTGACGTATAGTTACCACCTTAGTCAAATTTGTTTCTCTTTTG-TGTGACGTATGGTTACT
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATTT-TTT-TATTTCGATTTGACTTATGGTTACC
* * * * * *
1270034 ACCTTGGTCATAT-T-CTTTTCATTT
64 ACCCTAGTCAAATCTACCTCTC--TC
* * * * * * * *** * * * * *
1270058 CGATTTCACGTATAGTTACCACCCTGGTCAAATCTGCCTCTCTCTTATCTGACTTACGGTTACCA
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATTTTTTTATTTC-GATTTGACTTATGGTTACCA
* * * ** * * *
1270123 CCTTGGTCAGAT-TATTTTTATTT
65 CCCTAGTCAAATCTACCTCT-CTC
* * * * * * * *** * * *
1270146 CGATTT-AACATATTGTTATCACCCTGGTCAAATCTACCTCTCTCCTG-TGTGA-TGTATGGTTA
1 CTATTTGAA-GTATGGTTACCACCCTAGTCAGATTTTTTTAT-TTC-GATTTGACT-TATGGTTA
* *
1270208 CCACTCTGGTCAAATCTACCTCTCTC
62 CCACCCTAGTCAAATCTACCTCTCTC
* * * * * *
1270234 CTGTGTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCA-TTCTGATTTGACATATGGTTACC
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATT-TTTTTATTTC-GATTTGACTTATGGTTACC
* * * *
1270298 ACCTTGGTCAAATCTACCTTTTTC
64 ACCCTAGTCAAATCTACCTCTCTC
* * * * * * * *
1270322 TTGTCTGACA-TATGGCTACCACCTTGGTAAGATTTTTTTCA-TTCTGTTTTTGA-TGTATGGTT
1 CTATTTGA-AGTATGGTTACCACCCTAGTCAGATTTTTTT-ATTTC-G-ATTTGACT-TATGGTT
* * *
1270384 ACCACCTTGGTCAAAGT-TGCCTCAT-TC
61 ACCACCCTAGTCAAA-TCTACCTC-TCTC
* * ** * * * * *
1270411 CTGTCTGACTTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCAATTTGA-TGTATGGTTCCC
1 CTATTTGAAGTATGGTTACCACCCTAGTCAGATT-TTTTTATTTCGATTTGACT-TATGGTTACC
* * ** * *
1270475 ATCCTGGTCAAATCCGCATCTTTC
64 ACCCTAGTCAAATCTACCTCTCTC
* * * * * * *
1270499 CTGTCTGACA-TATGGTTACCACCCTAGTTAGATTCTTATCATTTCAATTTGACATATGGTTACC
1 CTATTTGA-AGTATGGTTACCACCCTAGTCAGATT-TTTTTATTTCGATTTGACTTATGGTTACC
* *
1270563 ACCCTAGTCAAATCTGCCTCTTTC
64 ACCCTAGTCAAATCTACCTCTCTC
* * *** * * * * *
1270587 CTATCT-AACATATGGTTACCTTTCTAGGT-AGATTCTTTTCATTCCAATTTGACGTATGGTTTC
1 CTATTTGAA-GTATGGTTACCACCCTA-GTCAGATT-TTTTTATTTCGATTTGACTTATGGTTAC
* *
1270650 CACCTTAGTCAAATCTACCT-TCTT
63 CACCCTAGTCAAATCTACCTCTCTC
*
1270674 CT-TGTCTGACGTATGGTTACCA
1 CTAT-T-TGAAGTATGGTTACCA
1270696 ACTTAGTTAA
Statistics
Matches: 706, Mismatches: 155, Indels: 82
0.75 0.16 0.09
Matches are distributed among these distances:
85 1 0.00
86 9 0.01
87 21 0.03
88 578 0.82
89 87 0.12
90 10 0.01
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (87 bp):
CTATTTGAAGTATGGTTACCACCCTAGTCAGATTTTTTTATTTCGATTTGACTTATGGTTACCAC
CCTAGTCAAATCTACCTCTCTC
Found at i:1269844 original size:44 final size:44
Alignment explanation
Indices: 1269579--1270572 Score: 203
Period size: 44 Copynumber: 22.6 Consensus size: 44
1269569 CCCTTTCCTG
* ** * *
1269579 TTTGACATATGGTTACCACTTTGGTCA-TTTTTTTTCATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
* * * *
1269622 TTTAACGTATGGTTACCACCCT-GATCAAATTTGCTTCTC-TTT-TA
1 TTTGACGTATGGTTACCACCCTAG-TCAGATTT--TTTTCATTTCGA
** ** * * * * *
1269666 TACG-CGTATGGTTATTACCTTGGTCATATTCTTTTCATTTCTA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
* * *
1269709 TTTGAAGTATGGTTACCACCCTGGTCAGATTTTTATT-ATTTTGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTT-TTCATTTCGA
* * * * * *** * *
1269753 TTTGACATATGGTTATCACCCTGGTCAAATCTACCTC-TCTCCTA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCAT-TTCGA
* *
1269797 TTTGATGCATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
* * * * *** * *
1269841 TTTGA-GTTATAGTTACCACCCTAGTTAAATCTACCTC-TCTCTTA
1 TTTGACG-TATGGTTACCACCCTAGTCAGATTTTTTTCATTTC-GA
* * *
1269885 TCTGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
* * * * * *
1269929 TTTGACTTATGGCTACCATCTTGGTCAAACTCTTATTTT--TCTT-G-
1 TTTGACGTATGGTTACCACCCTAGTCAGA-T-TT-TTTTCAT-TTCGA
** * * * *
1269973 CCTGACGTATAGTTACCACCTTAGTCAAATTTGTTTCTC-TTTTG-
1 TTTGACGTATGGTTACCACCCTAGTCAGATTT-TTT-TCATTTCGA
* * * * * *
1270017 TGTGACGTATGGTTACTACCTTGGTCATATTCTTTTCATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
* * * * * *** * *
1270061 TTTCACGTATAGTTACCACCCTGGTCAAATCTGCCTC-TCTCTTA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTC-GA
* * * * *
1270105 TCTGACTTACGGTTACCACCTTGGTCAGATTATTTTT-ATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATT-TTTTTCATTTCGA
* * * * * * * *** *
1270149 TTTAACATATTGTTATCACCCTGGTCAAATCTACCTC-TCTCCTG-
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCAT-TTC-GA
* * * * * * *** *
1270193 TGTGATGTATGGTTACCACTCTGGTCAAATCTACCTC-TCTCCTG-
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCAT-TTC-GA
* * * *
1270237 TGTGATGTATGGTTACCACCCTGGTCAGATTCTTTTCA-TTCTGA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTC-GA
* * * *
1270281 TTTGACATATGGTTACCACCTTGGTCAAATCTACCTTTTTC--TT-G-
1 TTTGACGTATGGTTACCACCCTAGTCAGAT-T---TTTTTCATTTCGA
* * * * * * *
1270325 TCTGACATATGGCTACCACCTTGGTAAGATTTTTTTCA-TTCTGTT
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTC-G-A
* * * * * *** *
1270370 TTTGATGTATGGTTACCACCTTGGTCAAAGTTGCCTCATTCCTG-
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTC-GA
* * * * * *
1270414 TCTGACTTATGGTTACCACCCTGGTCAGATTCTTTTCATTCCAA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
* * * * * *****
1270458 TTTGATGTATGGTTCCCATCCTGGTCAAATCCGCATC-TTTCCTG-
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTT-C-GA
* * * * * *
1270502 TCTGACATATGGTTACCACCCTAGTTAGATTCTTATCATTTCAA
1 TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
*
1270546 TTTGACATATGGTTACCACCCTAGTCA
1 TTTGACGTATGGTTACCACCCTAGTCA
1270573 AATCTGCCTC
Statistics
Matches: 697, Mismatches: 206, Indels: 95
0.70 0.21 0.10
Matches are distributed among these distances:
40 6 0.01
41 6 0.01
42 11 0.02
43 76 0.11
44 524 0.75
45 52 0.07
46 11 0.02
47 6 0.01
48 5 0.01
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (44 bp):
TTTGACGTATGGTTACCACCCTAGTCAGATTTTTTTCATTTCGA
Found at i:1269923 original size:220 final size:219
Alignment explanation
Indices: 1268231--1270440 Score: 980
Period size: 220 Copynumber: 10.1 Consensus size: 219
1268221 GTTTTATGTG
* * * * * *
1268231 TGGTTATCACCCTGGTCAAATCTACCTTTCTACTATCTGACGTATGGTTACCACCCTAGTCAGAT
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
* * * ** * *
1268296 TCTTTTCATTTCCATTTGAGGTATGGTTACCACCCTATTCAAATCTGCCTCTCTCTTATCTGATG
66 TCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTATCTGACG
* * * ** * * *
1268361 TATGGTTACCACCCTAGTTAGATTCTTTTCATTTCGATTTGACTTATGCTGT-CCATCCTAGTCA
131 TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGT-TACCACCCTGGTCA
* * *
1268425 AACTCTTATTTTTCTTGTCT-AGCGTA
195 AATTTTTATTATT-TTGTCTGA-CGTA
* * * * * * ** * *
1268451 TAGTTACCACCCTGGTCAAATTTGCTTCTCT-TTATGTGACAG-ATGGTTATTACCTTGGTCATA
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGAC-GTATGGTTACCACCCTGGTCAGA
* * * * * *
1268514 TTCTTTTCATTTCGATTTGACGTATGGTTACGACCCTAGTCAAATTTGCCTCTCTCCTT-TTTGA
65 TTCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCT-CTTATCTGA
* * * * * * * ** *
1268578 CGTATCGTTACCACCTTAGTCAAATTCTTTTTATTTGGATATGACGTATCATTATCACCCTGGTC
129 CGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTGGTC
* *** * * * *
1268643 AAATCTACCTCTCTCTTGTGTGATGTA
194 AAATTTTTAT-TATTTTGTCTGACGTA
* * * * * * * * *
1268670 TGGTTAACACCCTGGTTAGAT-TA-TTTTCAT-TTCGATTTGACATATGGTTACCACCTTGGTCA
1 TGGTTACCACCCTGGTCAAATCTACCTCTC-TCCT-G-TGTGACGTATGGTTACCACCCTGGTCA
* ** * * * * * * **
1268732 -AATCTGCCTC-TTTCCTG-TCTGACGTATGGTTACCACCTTGGTCAGAT-T-CTTTTCATTCCA
63 GATTCT-TTTCATTT-C-GATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTC--TCTT
* * * * *** * * ** *
1268792 ATTTAACGTATGGTTACCACCCTGGTCAAATTCGCCTCTTTTTG-TCCGATA-TATGGTGACCAC
123 ATCTGACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGA-AGTATGGTTACCAC
* * * * * * *
1268855 CCTAGTCAGATTCTTT-TCATTCCTATTTGACATA
187 CCTGGTCAAATT-TTTATTATT-TTGTCTGACGTA
* * * * * ** *
1268889 AGGTTAACACCCTGGT-ATAATCTACCTCAT-TCCTGTCTGACCTAAGGTTACCACCCTAATTAG
1 TGGTTACCACCCTGGTCA-AATCTACCTC-TCTCCTGTGTGACGTATGGTTACCACCCTGGTCAG
* * * * * * * *
1268952 -TTTTTTTCATTTGGATTTGACATATGGTTACCACCCTAGTCAAATTTGCCTC-CTTCCTATC-G
64 ATTCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTC-TCTTATCTG
*** * * * ** * * * * *
1269014 ATAAATGGTTACCATCATGGTCA-ATTATGCCTCCTTTCTATCT-AATGTTTGGTTACCA-CCTA
128 ACGTATGGTTACCACCTTGGTCAGATTCT-TTTCATTTCGATTTGAA-GTATGGTTACCACCCTG
* * * * * *
1269076 GT-TAGTTTCTTATCATTCTGATTTAACGTA
191 GTCAAATTT-TTATTATTTTG-TCTGACGTA
* * * * * ** * *
1269106 TGATTACAACCCTAGTCAAAT-TCACCTC-CTTCCTGTCTGATGTGCGGTTACTACCCTGGTTAG
1 TGGTTACCACCCTGGTCAAATCT-ACCTCTC-TCCTGTGTGACGTATGGTTACCACCCTGGTCAG
* * * * * * * * * * ** *
1269169 ATTCTTTTCA-TTCTAATTTAATGTATGGTTACCATCTTGGTCAAGTCCACCTTTTTCTGGTTTG
64 ATTCTTTTCATTTC-GATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTATCTG
* ** * * *
1269233 ATGTATGGTTACCACAATGGTTAGATTCTGTTCA-TTCTGATTTGACGTATGGTTACCATCCC-G
128 ACGTATGGTTACCACCTTGGTCAGATTCTTTTCATTTC-GATTTGAAGTATGGTTACCA-CCCTG
* * * * *
1269296 GTCAAACTCTCATCT-TTCTTATCTAACGTA
191 GTCAAATTTTTAT-TATT-TTGTCTGACGTA
* * * ** * * * * *
1269326 TGCTTACCACCATGGTCAAATCTGCCTCTCTCCAATTTGATGTATGGTTACTACCATGCTCAGAT
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
* * * * * **
1269391 TCTTTTCATTTTGATTTGATGTATGGTTACCACCCTGGTCAAATATGCCTCGT-TCTGGT-TGAC
66 TCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTC-TCTCTTATCTGAC
* ** * * *** * * * * * *
1269454 ATATGGTTACCGTCATGGTCA-AATCAGCCTC-CTTCTTATCT-AATGCATGGTTACCACACTAG
130 GTATGGTTACCACCTTGGTCAGATTC-TTTTCATTTC-GATTTGAA-GTATGGTTACCACCCTGG
* * * * * * *
1269516 TCAGATTCCTT-TCATTCTATTTGATGTA
192 TCAAATT-TTTATTATTTTGTCTGACGTA
* * * * * * * * ** *
1269544 AGGTTGCTACCCTGGTTAAATCTACCCCTTTCCTGTTTGACATATGGTTACCACTTTGGTCA-TT
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
* * * * * * * *
1269608 TTTTTTCATTTCGATTTAACGTATGGTTACCACCCTGATCAAATTTGCTTCTCTTTTATAC-G-C
66 TCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTAT-CTGAC
** * *
1269671 GTATGGTTATTACCTTGGTCATATTCTTTTCATTTCTATTTGAAGTATGGTTACCACCCTGGTCA
130 GTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTGGTCA
* * *
1269736 GATTTTTATTATTTTGATTTGACATA
195 AATTTTTATTATTTTG-TCTGACGTA
* * * * * *
1269762 TGGTTATCACCCTGGTCAAATCTACCTCTCTCCTATTTGATGCATGGTTACCACCCTAGTCAGAT
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
* * *
1269827 TTTTTTCATTTCGATTTGA-GTTATAGTTACCACCCTAGTTAAATCTACCTCTCTCTTATCTGAC
66 TCTTTTCATTTCGATTTGACG-TATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTATCTGAC
* * * ** * * *
1269891 GTATGGTTACCACCCTAGTTAGATTCTTTTCATTTCGATTTGACTTATGGCTACCATCTTGGTCA
130 GTATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTGGTCA
* * * *
1269956 AACTCTTATTTTTCTTGCCTGACGTA
195 AATTTTTATTATT-TTGTCTGACGTA
* * * * *** ** * * *
1269982 TAGTTACCACCTTAGTCAAATTTGTTTCTCTTTTGTGTGACGTATGGTTACTACCTTGGTCATAT
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
* * *
1270047 TCTTTTCATTTCGATTTCACGTATAGTTACCACCCTGGTCAAATCTGCCTCTCTCTTATCTGACT
66 TCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTATCTGACG
* * * * * *
1270112 TACGGTTACCACCTTGGTCAGATTATTTTTATTTCGATTT-AACATATTGTTATCACCCTGGTCA
131 TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGAA-GTATGGTTACCACCCTGGTCA
* *** * ** * *
1270176 AATCTACCTCTCTCCTGTGTGATGTA
195 AATTTTTAT-TATTTTGTCTGACGTA
* *
1270202 TGGTTACCACTCTGGTCAAATCTACCTCTCTCCTGTGTGATGTATGGTTACCACCCTGGTCAGAT
1 TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
* * * * * *
1270267 TCTTTTCA-TTCTGATTTGACATATGGTTACCACCTTGGTCAAATCTACCTTTTTCTTGTCTGAC
66 TCTTTTCATTTC-GATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTATCTGAC
* * * * * * *
1270331 ATATGGCTACCACCTTGGTAAGATTTTTTTCA-TTCTGTTTTTGATGTATGGTTACCACCTTGGT
130 GTATGGTTACCACCTTGGTCAGATTCTTTTCATTTC-G-ATTTGAAGTATGGTTACCACCCTGGT
* *** * * *
1270395 CAAAGTTGCCTCATTCCTGTCTGACTTA
193 CAAATTTTTATTATT-TTGTCTGACGTA
1270423 TGGTTACCACCCTGGTCA
1 TGGTTACCACCCTGGTCA
1270441 GATTCTTTTC
Statistics
Matches: 1480, Mismatches: 428, Indels: 163
0.71 0.21 0.08
Matches are distributed among these distances:
215 1 0.00
216 14 0.01
217 193 0.13
218 222 0.15
219 376 0.25
220 601 0.41
221 71 0.05
222 2 0.00
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (219 bp):
TGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTGACGTATGGTTACCACCCTGGTCAGAT
TCTTTTCATTTCGATTTGACGTATAGTTACCACCCTGGTCAAATCTACCTCTCTCTTATCTGACG
TATGGTTACCACCTTGGTCAGATTCTTTTCATTTCGATTTGAAGTATGGTTACCACCCTGGTCAA
ATTTTTATTATTTTGTCTGACGTA
Found at i:1270110 original size:132 final size:132
Alignment explanation
Indices: 1269887--1270131 Score: 285
Period size: 132 Copynumber: 1.9 Consensus size: 132
1269877 CTCTCTTATC
* * * * * *
1269887 TGACGTATGGTTACCACCCTAGTTAGATTCTTTTCATTTCGATTTGACTTATGGCTACCATCTTG
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTCACGTATAGCTACCACCCTG
* * * * *
1269952 GTCAAACTCTTATTTTTCTTGCCTGACGTATAGTTACCACCTTAGTCAAATTTGTTTCTCTTTTG
66 GTCAAACTCTCATCTCTCTTACCTGACGTACAGTTACCACCTTAGTCAAATTTGTTTCTCTTTTG
1270017 TG
131 TG
* * * * *
1270019 TGACGTATGGTTACTACCTTGGTCATATTCTTTTCATTTCGATTTCACGTATAGTTACCACCCTG
1 TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTCACGTATAGCTACCACCCTG
* * * * *
1270084 GTCAAA-TCTGCCTCTCTCTTATCTGACTTACGGTTACCACCTTGGTCA
66 GTCAAACTCT-CATCTCTCTTACCTGACGTACAGTTACCACCTTAGTCA
1270132 GATTATTTTT
Statistics
Matches: 91, Mismatches: 21, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
131 3 0.03
132 88 0.97
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.42
Consensus pattern (132 bp):
TGACGTATGGTTACCACCCTAGTCAGATTCTTTTCATTTCGATTTCACGTATAGCTACCACCCTG
GTCAAACTCTCATCTCTCTTACCTGACGTACAGTTACCACCTTAGTCAAATTTGTTTCTCTTTTG
TG
Found at i:1270232 original size:132 final size:132
Alignment explanation
Indices: 1270067--1270316 Score: 342
Period size: 132 Copynumber: 1.9 Consensus size: 132
1270057 TCGATTTCAC
* * *
1270067 GTATAGTTACCACCCTGGTCAAATCTGCCTCTCTCTTATCTGACT-TACGGTTACCACCTTGGTC
1 GTATAGTTACCACCCTGGTCAAATCTACCTCTCTCCTATCTGA-TGTACGGTTACCACCCTGGTC
* * *
1270131 AGATTATTTTTATT-TCGATTTAACATATTGTTATCACCCTGGTCAAATCTACCTCTCTCCTGTG
65 AGATTATTTTCATTCT-GATTTAACATATGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTG
1270195 TGAT
129 TGAT
* * * * *
1270199 GTATGGTTACCACTCTGGTCAAATCTACCTCTCTCCTGTGTGATGTATGGTTACCACCCTGGTCA
1 GTATAGTTACCACCCTGGTCAAATCTACCTCTCTCCTATCTGATGTACGGTTACCACCCTGGTCA
* * *
1270264 GATTCTTTTCATTCTGATTTGACATATGGTTACCACCTTGGTCAAATCTACCT
66 GATTATTTTCATTCTGATTTAACATATGGTTACCACCCTGGTCAAATCTACCT
1270317 TTTTCTTGTC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 1 0.01
132 100 0.98
133 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (132 bp):
GTATAGTTACCACCCTGGTCAAATCTACCTCTCTCCTATCTGATGTACGGTTACCACCCTGGTCA
GATTATTTTCATTCTGATTTAACATATGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTGTG
AT
Found at i:1270336 original size:132 final size:132
Alignment explanation
Indices: 1270072--1270349 Score: 335
Period size: 132 Copynumber: 2.1 Consensus size: 132
1270062 TTCACGTATA
* * *
1270072 GTTACCACCCTGGTCAAATCTGCCTCTCTCTTATCTGACTTACGGTTACCACCTTGGTCAGATTA
1 GTTACCACCCTGGTCAAATCTACCTCTCTCCTATCTGACTTACGGTTACCACCCTGGTCAGATTA
* * * * **
1270137 TTTTTATTTCGATTTAACATATTGTTATCACCCTGGTCAAATCTACCTCTCTCCTGTGTGATGTA
66 TTTTCATTTCGATTTAACATATGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACATA
1270202 TG
131 TG
* * * *
1270204 GTTACCACTCTGGTCAAATCTACCTCTCTCCTGTGTGA-TGTATGGTTACCACCCTGGTCAGATT
1 GTTACCACCCTGGTCAAATCTACCTCTCTCCTATCTGACT-TACGGTTACCACCCTGGTCAGATT
* * * * * *
1270268 CTTTTCA-TTCTGATTTGACATATGGTTACCACCTTGGTCAAATCTACCTTTTTCTTGTCTGACA
65 ATTTTCATTTC-GATTTAACATATGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACA
1270332 TATG
129 TATG
* *
1270336 GCTACCACCTTGGT
1 GTTACCACCCTGGT
1270350 AAGATTTTTT
Statistics
Matches: 122, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
131 4 0.03
132 118 0.97
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (132 bp):
GTTACCACCCTGGTCAAATCTACCTCTCTCCTATCTGACTTACGGTTACCACCCTGGTCAGATTA
TTTTCATTTCGATTTAACATATGGTTACCACCCTGGTCAAATCTACCTCTCTCCTGTCTGACATA
TG
Found at i:1270506 original size:177 final size:175
Alignment explanation
Indices: 1270195--1270695 Score: 528
Period size: 177 Copynumber: 2.8 Consensus size: 175
1270185 CTCTCCTGTG
* *
1270195 TGATGTATGGTTACCA-CTCTGGTCAAATCTACCTCTCTCCTGTGTGA-TGTATGGTTACCACCC
1 TGATGTATGGTTACCACCT-TGGTCAAATCTGCCTCT-TCCTGTCTGACT-TATGGTTACCACCC
** * * * * *
1270258 TGGTCAGATTCTTTTCATTCTGATTTGACATATGGTTACCACCTTGGTCAAATCTACCTTTTTCT
63 TGGTCAGATTCTTTTCATTCCAATTTGACGTATGGTTACCACCTTGGTCAAATCCACATCTTTCC
* * * * ***
1270323 TGTCTGACATATGGCTACCACCTTGGTAAGATTTTTTTCATTCTGTTTT
128 TGTCTGACATATGGCTACCACCCTAGTAAGATTCTTATCATT-TCAATT
1270372 TGATGTATGGTTACCACCTTGGTCAAAGT-TGCCTCATTCCTGTCTGACTTATGGTTACCACCCT
1 TGATGTATGGTTACCACCTTGGTCAAA-TCTGCCTC-TTCCTGTCTGACTTATGGTTACCACCCT
* * *
1270436 GGTCAGATTCTTTTCATTCCAATTTGATGTATGGTTCCCATCC-TGGTCAAATCCGCATCTTTCC
64 GGTCAGATTCTTTTCATTCCAATTTGACGTATGGTTACCA-CCTTGGTCAAATCCACATCTTTCC
* *
1270500 TGTCTGACATATGGTTACCACCCTAGTTAGATTCTTATCATTTCAATT
128 TGTCTGACATATGGCTACCACCCTAGTAAGATTCTTATCATTTCAATT
** * * * * * ***
1270548 TGACATATGGTTACCACCCTAGTCAAATCTGCCTCTTTCCTATCTAACATATGGTTACCTTTCTA
1 TGATGTATGGTTACCACCTTGGTCAAATCTGCCTC-TTCCTGTCTGACTTATGGTTACCACCCT-
* * * * *
1270613 GGT-AGATTCTTTTCATTCCAATTTGACGTATGGTTTCCACCTTAGTCAAATCTACCT-TCTTCT
64 GGTCAGATTCTTTTCATTCCAATTTGACGTATGGTTACCACCTTGGTCAAATCCACATCT-TTCC
* *
1270676 TGTCTGACGTATGGTTACCA
128 TGTCTGACATATGGCTACCA
1270696 ACTTAGTTAA
Statistics
Matches: 275, Mismatches: 40, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
175 4 0.01
176 121 0.44
177 143 0.52
178 7 0.03
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (175 bp):
TGATGTATGGTTACCACCTTGGTCAAATCTGCCTCTTCCTGTCTGACTTATGGTTACCACCCTGG
TCAGATTCTTTTCATTCCAATTTGACGTATGGTTACCACCTTGGTCAAATCCACATCTTTCCTGT
CTGACATATGGCTACCACCCTAGTAAGATTCTTATCATTTCAATT
Found at i:1270598 original size:44 final size:44
Alignment explanation
Indices: 1270072--1270606 Score: 204
Period size: 44 Copynumber: 12.1 Consensus size: 44
1270062 TTCACGTATA
* * * * *
1270072 GTTACCACCCTGGTCAAATCTGCCTCTCTCTTATCTGACTTACG
1 GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
* * *** * * * * * *
1270116 GTTACCACCTTGGTCAGAT-TATTTTTATTTCGATTTAACATATT
1 GTTACCACCCTGGTCAAATCTGCATCT-TTCCTATCTGACATATG
* * * * * * **
1270160 GTTATCACCCTGGTCAAATCTACCTCTCTCCTGTGTGATGTATG
1 GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
* * * * * * **
1270204 GTTACCACTCTGGTCAAATCTACCTCTCTCCTGTGTGATGTATG
1 GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
* ** * *
1270248 GTTACCACCCTGGTCAGATTCT-TTTCATT-CTGATTTGACATATG
1 GTTACCACCCTGGTCA-AATCTGCATCTTTCCT-ATCTGACATATG
* * * * * *
1270292 GTTACCACCTTGGTCAAATCTACCTTTTTCTTGTCTGACATATG
1 GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
* * * *** * * * * **
1270336 GCTACCACCTTGGT-AAGATTTTTTTCATTCTGTTTTTGATGTATG
1 GTTACCACCCTGGTCAA-ATCTGCATCTTTC-CTATCTGACATATG
* * * * *
1270381 GTTACCACCTTGGTCAAAGT-TGCCTCATTCCTGTCTGACTTATG
1 GTTACCACCCTGGTCAAA-TCTGCATCTTTCCTATCTGACATATG
* ** * * * **
1270425 GTTACCACCCTGGTCAGATTCT-TTTCATTCCAATTTGATGTATG
1 GTTACCACCCTGGTCA-AATCTGCATCTTTCCTATCTGACATATG
* * * *
1270469 GTTCCCATCCTGGTCAAATCCGCATCTTTCCTGTCTGACATATG
1 GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
* * * * * *
1270513 GTTACCACCCTAGTTAGATTCT-TATCATTT-CAATTTGACATATG
1 GTTACCACCCTGGTCA-AATCTGCATC-TTTCCTATCTGACATATG
* * *
1270557 GTTACCACCCTAGTCAAATCTGCCTCTTTCCTATCTAACATATG
1 GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
1270601 GTTACC
1 GTTACC
1270607 TTTCTAGGTA
Statistics
Matches: 364, Mismatches: 110, Indels: 34
0.72 0.22 0.07
Matches are distributed among these distances:
43 21 0.06
44 293 0.80
45 47 0.13
46 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.39
Consensus pattern (44 bp):
GTTACCACCCTGGTCAAATCTGCATCTTTCCTATCTGACATATG
Found at i:1270719 original size:88 final size:88
Alignment explanation
Indices: 1270199--1270704 Score: 491
Period size: 88 Copynumber: 5.7 Consensus size: 88
1270189 CCTGTGTGAT
* * ** * * *
1270199 GTATGGTTACCA-CTCTGGTCAAATCTACCTCTCTCCTGTGTGATGTATGGTTACCACCCTGGTC
1 GTATGGTTACCACCT-TGGTCAAATCTACCTCTTTCCTGTCTGACATATGGTTACCACCTTAGTT
**
1270263 AGATTCTTTTCATTCTGATTTGAC
65 AGATTCTTTTCATTCCAATTTGAC
* * * * * *
1270287 ATATGGTTACCACCTTGGTCAAATCTACCTTTTTCTTGTCTGACATATGGCTACCACCTTGGTAA
1 GTATGGTTACCACCTTGGTCAAATCTACCTCTTTCCTGTCTGACATATGGTTACCACCTTAGTTA
* *** *
1270352 GATTTTTTTCATTCTGTTTTTGAT
66 GATTCTTTTCATTC-CAATTTGAC
* * * * * *
1270376 GTATGGTTACCACCTTGGTCAAAGT-TGCCTCATTCCTGTCTGACTTATGGTTACCACCCTGGTC
1 GTATGGTTACCACCTTGGTCAAA-TCTACCTCTTTCCTGTCTGACATATGGTTACCACCTTAGTT
*
1270440 AGATTCTTTTCATTCCAATTTGAT
65 AGATTCTTTTCATTCCAATTTGAC
* ** * *
1270464 GTATGGTTCCCATCC-TGGTCAAATCCGCATCTTTCCTGTCTGACATATGGTTACCACCCTAGTT
1 GTATGGTTACCA-CCTTGGTCAAATCTACCTCTTTCCTGTCTGACATATGGTTACCACCTTAGTT
* *
1270528 AGATTCTTATCATTTCAATTTGAC
65 AGATTCTTTTCATTCCAATTTGAC
* * * * * * ** *
1270552 ATATGGTTACCACCCTAGTCAAATCTGCCTCTTTCCTATCTAACATATGGTTACC-TTTCTAGGT
1 GTATGGTTACCACCTTGGTCAAATCTACCTCTTTCCTGTCTGACATATGGTTACCACCT-TAGTT
1270616 AGATTCTTTTCATTCCAATTTGAC
65 AGATTCTTTTCATTCCAATTTGAC
* * * * *
1270640 GTATGGTTTCCACCTTAGTCAAATCTACCT-TCTTCTTGTCTGACGTATGGTTACCAACTTAGTT
1 GTATGGTTACCACCTTGGTCAAATCTACCTCT-TTCCTGTCTGACATATGGTTACCACCTTAGTT
1270704 A
65 A
1270705 AACGATTTGC
Statistics
Matches: 347, Mismatches: 62, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
87 4 0.01
88 265 0.76
89 77 0.22
90 1 0.00
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (88 bp):
GTATGGTTACCACCTTGGTCAAATCTACCTCTTTCCTGTCTGACATATGGTTACCACCTTAGTTA
GATTCTTTTCATTCCAATTTGAC
Found at i:1270932 original size:43 final size:43
Alignment explanation
Indices: 1270813--1270933 Score: 147
Period size: 43 Copynumber: 2.8 Consensus size: 43
1270803 CTCAAACTTG
* * *
1270813 GGAGACTTCTTTATCTTTTTGTCTACCCGTTGGCTTAGACCTT
1 GGAGACTTCTTTATCTCTTTGTCTGCCCGTTGGCTAAGACCTT
*
1270856 GGAGACGTTCTTTATC-CTTTGTCTGCTCGTTGGCTAAGACC-T
1 GGAGAC-TTCTTTATCTCTTTGTCTGCCCGTTGGCTAAGACCTT
* * *
1270898 GAGAGACTTCTTCATCTCTTTGTATGCCCATTGGCT
1 G-GAGACTTCTTTATCTCTTTGTCTGCCCGTTGGCT
1270934 CCATCCCGAG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 10 0.15
43 48 0.72
44 9 0.13
ACGTcount: A:0.15, C:0.24, G:0.21, T:0.40
Consensus pattern (43 bp):
GGAGACTTCTTTATCTCTTTGTCTGCCCGTTGGCTAAGACCTT
Found at i:1271326 original size:83 final size:83
Alignment explanation
Indices: 1271184--1271407 Score: 251
Period size: 83 Copynumber: 2.7 Consensus size: 83
1271174 AATCTTGGTT
* *
1271184 AACTTTTTAT-TCATTATTTACTTATTGGCTTAGTCTC-GTGTAAATCTTTTATCCTTTGTTGAC
1 AACTTTTTATCTC-TTGTTTACTTGTTGGCTTAGTCTCAG-GTAAATCTTTTATCCTTTGTTGA-
* *
1271247 TT-CTAGGTTCGATCCCGATC
63 TTCCTAGGTTCAATCCCAATC
*
1271267 AACTTTTTATCTCTTGTTTACTTGTTGGCTTAGTCCCAGGTAAATCTTTTAT-CTATTGTTGATT
1 AACTTTTTATCTCTTGTTTACTTGTTGGCTTAGTCTCAGGTAAATCTTTTATCCT-TTGTTGATT
*
1271331 CCTTGGTTCAATCCCAATC
65 CCTAGGTTCAATCCCAATC
* * * * * *
1271350 AA-TCTTTCATCCCTTGTTTACCTGTCGGCTTAGTCTTAGGTAAAACTTTTTATCCTTT
1 AACT-TTTTATCTCTTGTTTACTTGTTGGCTTAGTCTCAGGTAAATC-TTTTATCCTTT
1271408 ATTGGCTTGT
Statistics
Matches: 121, Mismatches: 13, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
82 5 0.04
83 103 0.85
84 11 0.09
85 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.13, T:0.47
Consensus pattern (83 bp):
AACTTTTTATCTCTTGTTTACTTGTTGGCTTAGTCTCAGGTAAATCTTTTATCCTTTGTTGATTC
CTAGGTTCAATCCCAATC
Found at i:1272054 original size:22 final size:22
Alignment explanation
Indices: 1272012--1272052 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1272002 GAACTTCCTA
* *
1272012 TTTTTGAGAATTTTTTGAAATG
1 TTTTTGAGAAATTTTGGAAATG
1272034 TTTTTGA-AAATTTTGGAAA
1 TTTTTGAGAAATTTTGGAAA
1272053 ATTAGCCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (22 bp):
TTTTTGAGAAATTTTGGAAATG
Found at i:1272917 original size:164 final size:166
Alignment explanation
Indices: 1272499--1273042 Score: 738
Period size: 164 Copynumber: 3.3 Consensus size: 166
1272489 TTTCTTTTGG
* * * * *
1272499 AATTCTCTTATTTTTGAAATATGAAGTTTTCTACTCCGTAAATTTTTTTTGAGGAATTGTTTCTT
1 AATTTTCTTATTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGA-T-TTTCTT
* * *
1272564 GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTTATAGTAAATCAATTTTTAAAAA
64 GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAA
* *
1272629 TTCTTTCATTTTCATGAGTTTTT-AATTTTTTCCTTGA
129 TTCATTCATTTTCATTAGTTTTTGAATTTTTTCCTTGA
* * * * * * * *
1272666 AATTCTT-TTGTTCTCAAAAAATGGAGTTTTTTACTCCATAAATTTTTTTGGAGGGATTTTATTG
1 AATT-TTCTTATTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGATTTTCTTG
1272730 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTA-TTCATAATAAATCAGTTTTTAAAAAT
65 GTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAAT
** *
1272794 TCATTCCCTTTCATTTGTTTTTGAATTTTTTCCTTGA
130 TCATTCATTTTCATTAGTTTTTGAATTTTTTCCTTGA
* * * *
1272831 AATTTTCTTATTTTTGAAATATGGAGTTTTCTACCCCGTAAA-TTTTTTCGAGGGCTTTTCTTAG
1 AATTTTCTTATTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGATTTTCTTGG
*
1272895 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATT
66 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAATT
*
1272960 CATTTATTTTCATTAGTTTTTGAA-TTTTTCCTTGA
131 CATTCATTTTCATTAGTTTTTGAATTTTTTCCTTGA
* * * **
1272995 AATTATCCTGTTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTT
1 AATTTTCTTATTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTT
1273043 CGGGAGAATT
Statistics
Matches: 328, Mismatches: 44, Indels: 12
0.85 0.11 0.03
Matches are distributed among these distances:
164 143 0.44
165 140 0.43
166 1 0.00
167 43 0.13
168 1 0.00
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.52
Consensus pattern (166 bp):
AATTTTCTTATTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGATTTTCTTGG
TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAATT
CATTCATTTTCATTAGTTTTTGAATTTTTTCCTTGA
Found at i:1273044 original size:164 final size:166
Alignment explanation
Indices: 1272499--1273042 Score: 729
Period size: 165 Copynumber: 3.3 Consensus size: 166
1272489 TTTCTTTTGG
* * * * * *
1272499 AATTCTCTTATTTTTGAAATATGAAGTTTTCTACTCCGTAAATTTTTTTTGAGGAATTGTTTCTT
1 AATTATCTTGTTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGA-T-TTTCTT
* * *
1272564 GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTTATAGTAAATCAATTTTTAAAAA
64 GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAA
*
1272629 TTC-TTTCATTTTCATGAGTTTTT-AATTTTTTCCTTGA
129 TTCATTT-ATTTTCATTAGTTTTTGAATTTTTTCCTTGA
* * * * * * * * *
1272666 AATTCTTTTGTTCTCAAAAAATGGAGTTTTTTACTCCATAAATTTTTTTGGAGGGATTTTATTGG
1 AATTATCTTGTTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGATTTTCTTGG
1272731 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTA-TTCATAATAAATCAGTTTTTAAAAATT
66 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAATT
*** *
1272795 CATTCCCTTTCATTTGTTTTTGAATTTTTTCCTTGA
131 CATTTATTTTCATTAGTTTTTGAATTTTTTCCTTGA
* * * * * *
1272831 AATTTTCTTATTTTTGAAATATGGAGTTTTCTACCCCGTAAA-TTTTTTCGAGGGCTTTTCTTAG
1 AATTATCTTGTTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGATTTTCTTGG
*
1272895 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAATT
66 TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAATT
1272960 CATTTATTTTCATTAGTTTTTGAA-TTTTTCCTTGA
131 CATTTATTTTCATTAGTTTTTGAATTTTTTCCTTGA
* **
1272995 AATTATCCTGTTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTT
1 AATTATCTTGTTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTT
1273043 CGGGAGAATT
Statistics
Matches: 327, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
164 138 0.42
165 143 0.44
166 1 0.00
167 45 0.14
ACGTcount: A:0.28, C:0.10, G:0.09, T:0.52
Consensus pattern (166 bp):
AATTATCTTGTTTTCGAAATATGGAGTTTTCTACTCCGTAAATTTTTTTCGAGGGATTTTCTTGG
TTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAATAAATCAGTTTTTAAAAATT
CATTTATTTTCATTAGTTTTTGAATTTTTTCCTTGA
Found at i:1273116 original size:329 final size:332
Alignment explanation
Indices: 1272499--1273102 Score: 792
Period size: 329 Copynumber: 1.8 Consensus size: 332
1272489 TTTCTTTTGG
* * *
1272499 AATTCTCTTATTTTTGAAATATGAAGTTTTCTACTCCGTAAATTTTTTTTGAGGAATTGTTTCTT
1 AATTCTCTTATTTTTGAAATATGAAGTTTTCTACCCCGTAAATTTTTTTCGAGGAACTGTTTCTT
* *
1272564 GGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTTATAGTAAATCAATTTTTAAAAA
66 AGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAGTAAATCAATTTTTAAAAA
* ** **
1272629 TTCTTTCATTTTCATGAGTTTTTAATTTTTTCCTTGAAATTCTTTTGTTCTCAAAAAATGGAGTT
131 TTCTTTCATTTTCATGAGTTTTTAATTTTTTCCTTGAAATTATCCTGTTCTCAAAAAACAGAGTT
* * * * * *
1272694 TTTTACTCCATAAATTTTTTTGGAGGGATTTTATTGGTTTTTAATTTTTAAAATTCATCAAATAT
196 TTCTACTCCATAAATTTTTTGGGAGGAATTTTATTGATTTCTAATTTTTAAAATTAATCAAATAT
* ** *
1272759 TATTATTTATTCATAATAAATCAGTTTTTAAAAATTCATTCCCTTTCATTTGTTTTTGAATTTTT
261 AAAAATTCATTCATAATAAATCAGTTTTTAAAAATTCATTCCCTTTCATTTGTTTTTGAATTTTT
1272824 TCCTTGA
326 TCCTTGA
* * *
1272831 AATTTTCTTATTTTTGAAATATGGAGTTTTCTACCCCGTAAA-TTTTTTCGAGG-GCT-TTTCTT
1 AATTCTCTTATTTTTGAAATATGAAGTTTTCTACCCCGTAAATTTTTTTCGAGGAACTGTTTCTT
* *
1272893 AGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAA
66 AGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAGTAAATCAATTTTTAAAAA
* * * *
1272958 TTCATTT-ATTTTCATTAGTTTTTGAA-TTTTTCCTTGAAATTATCCTGTTTTCGAAATACAGAG
131 TTC-TTTCATTTTCATGAGTTTTT-AATTTTTTCCTTGAAATTATCCTGTTCTCAAAAAACAGAG
* * *
1273021 TTTTCTACTCCGTAAATTTTTTCGGGA-GAATTTTTCTTGATTTCTAA-TTTT-ATATTAAATCA
194 TTTTCTACTCCATAAATTTTTT-GGGAGGAA-TTTTATTGATTTCTAATTTTTAAAATT-AATCA
**
1273083 GTTATCAAAAATTCATTCAT
256 AATAT-AAAAATTCATTCAT
1273103 TTTCATGAGT
Statistics
Matches: 232, Mismatches: 34, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
328 4 0.02
329 147 0.63
330 32 0.14
331 10 0.04
332 39 0.17
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (332 bp):
AATTCTCTTATTTTTGAAATATGAAGTTTTCTACCCCGTAAATTTTTTTCGAGGAACTGTTTCTT
AGTTTTTAATTTTTAAAATTCATCAAATATTATTATTTATTTCATAGTAAATCAATTTTTAAAAA
TTCTTTCATTTTCATGAGTTTTTAATTTTTTCCTTGAAATTATCCTGTTCTCAAAAAACAGAGTT
TTCTACTCCATAAATTTTTTGGGAGGAATTTTATTGATTTCTAATTTTTAAAATTAATCAAATAT
AAAAATTCATTCATAATAAATCAGTTTTTAAAAATTCATTCCCTTTCATTTGTTTTTGAATTTTT
TCCTTGA
Found at i:1273162 original size:136 final size:136
Alignment explanation
Indices: 1272931--1273177 Score: 327
Period size: 136 Copynumber: 1.8 Consensus size: 136
1272921 ATTATTATTT
* * * *
1272931 ATTTCATATTAAATCAGTTTTTAAAAATTCATTTATTTTCATTAGTTTTTGAATTTTTCCTTGAA
1 ATTTCATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTCCTTGAA
* * * *
1272996 ATTATCCTGTTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGGGAGAATTTTTCTTGA
66 ATTATCCTGTTTTCAAAAAACAGAGATTTCTACTCCATAAATTTTTTCGGGAGAATTTTTCTTGA
1273061 TTTCTA
131 TTTCTA
* * *
1273067 ATTTTATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGA
1 ATTTCATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGA-ATTTTTCCTTGA
* * * *
1273132 AATTCTCTTTTTTTCAAAAAATC-GA-ATTTCTTCTCCATAAATTTTT
65 AATTATCCTGTTTTCAAAAAA-CAGAGATTTCTACTCCATAAATTTTT
1273178 CAAGGGGATT
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
136 64 0.68
137 29 0.31
138 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (136 bp):
ATTTCATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTCCTTGAA
ATTATCCTGTTTTCAAAAAACAGAGATTTCTACTCCATAAATTTTTTCGGGAGAATTTTTCTTGA
TTTCTA
Found at i:1273208 original size:136 final size:136
Alignment explanation
Indices: 1272931--1273206 Score: 312
Period size: 136 Copynumber: 2.0 Consensus size: 136
1272921 ATTATTATTT
* * * * *
1272931 ATTTCATATTAAATCAGTTTTTAAAAATTCATTTATTTTCATTAGTTTTTGAATTTTTCCTTGAA
1 ATTTTATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTCCTTGAA
* * * * **
1272996 ATTATCCTGTTTTCGAAATACAGAGTTTTCTACTCCGTAAATTTTTTCGGGAGAATTTTTCTTGA
66 ATTATCCTGTTTTCAAAAAACAGAGATTTCTACTCCATAAATTTTTTCGGGAGAATTTTTCTCAA
1273061 TTTCTA
131 TTTCTA
* *
1273067 ATTTTATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTTATTTTTTTCCTTGA
1 ATTTTATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGA-ATTTTTCCTTGA
* * * *
1273132 AATTCTCTTTTTTTCAAAAAATC-GA-ATTTCTTCTCCATAAA-TTTTTCAAGGG-G-ATTTTTC
65 AATTATCCTGTTTTCAAAAAA-CAGAGATTTCTACTCCATAAATTTTTTC--GGGAGAATTTTTC
1273192 TCAATTT-TAA
127 TCAATTTCT-A
1273202 ATTTT
1 ATTTT
1273207 TAAAATTCAT
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
134 1 0.01
135 24 0.20
136 60 0.51
137 32 0.27
138 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (136 bp):
ATTTTATATTAAATCAGTTATCAAAAATTCATTCATTTTCATGAGTTTTTGAATTTTTCCTTGAA
ATTATCCTGTTTTCAAAAAACAGAGATTTCTACTCCATAAATTTTTTCGGGAGAATTTTTCTCAA
TTTCTA
Found at i:1274912 original size:9 final size:9
Alignment explanation
Indices: 1274898--1274923 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1274888 AGGGATATAG
1274898 AAACTTTTA
1 AAACTTTTA
1274907 AAACTTTTA
1 AAACTTTTA
1274916 AAACTTTT
1 AAACTTTT
1274924 CGGTTTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (9 bp):
AAACTTTTA
Found at i:1275724 original size:154 final size:155
Alignment explanation
Indices: 1275191--1275732 Score: 470
Period size: 155 Copynumber: 3.5 Consensus size: 155
1275181 TTATTTATCA
* * * * * * ** ** *
1275191 TTTTAACTCTTTTAGAGGTACCAGG-TACTTTTACATCGAAAATATCCCCTAAAGGCATTTTAGT
1 TTTTAAGTCCTTTAGGGGTATCAGGCTACTTTTACGTTGAAGGTATCCCCTAGGGGCATTTTTGT
* * * ** * * * * *
1275255 AATTTTTTTAGAACTGAGTCATAGGTCATCACCAAGTCC-ATTTCTATCCCAAAGGT-GTACATT
66 AA-TTTTTTAAAACCGAGTCCTAGGTTGTCACTAGGTCCAATTTC-ATGCCGAAGGTAG-ATATT
* * * *
1275318 TAGGATAGGTTTATCCTAGTTAAAATCCTT
128 TAAGATAGGTTCACCCTA-TTTAAATCC-T
* * * * *
1275348 TTTTAAGTCCTTTAGAGGTATC-GGCTACTTTTATGTTGAAGATATCCCCTAGAGGCATTTTCGT
1 TTTTAAGTCCTTTAGGGGTATCAGGCTACTTTTACGTTGAAGGTATCCCCTAGGGGCATTTTTGT
* * * * * *
1275412 AATTTCTTAGAACCGAGTCCTAGGTTGTCACTGGGTCCAATTTCATGCCGAAGGTGGGTATTTAG
66 AATTTTTTAAAACCGAGTCCTAGGTTGTCACTAGGTCCAATTTCATGCCGAAGGTAGATATTTAA
**
1275477 GATAGGTTCACTGTATTTATAATCCT
131 GATAGGTTCACCCTATTTA-AATCCT
* * * *
1275503 TTTTAAGTCCTTTAGGGGAATCA-GCTACTTTTACGTTGAAAGTATCCCCTATGAGCATTTTTGT
1 TTTTAAGTCCTTTAGGGGTATCAGGCTACTTTTACGTTGAAGGTATCCCCTAGGGGCATTTTTGT
*** * * *
1275567 AATTTTTTAAAACCGAGTCCTAGGTTGTCACTAGGTCTGCTTTTATGCTGAAGGTAGATGTTTAA
66 AATTTTTTAAAACCGAGTCCTAGGTTGTCACTAGGTCCAATTTCATGCCGAAGGTAGATATTTAA
1275632 GATAGGTTCATCCCT-TTTAAATCCT
131 GATAGGTTCA-CCCTATTTAAATCCT
* * * * *
1275657 TTTTACGCCCTTTAGGGGTATCAGGC-A-TTTCTACGTCGAAGGTATCTCCTAGGGGCATTTTTA
1 TTTTAAGTCCTTTAGGGGTATCAGGCTACTTT-TACGTTGAAGGTATCCCCTAGGGGCATTTTTG
1275720 TAATTTTCTTAAA
65 TAATTTT-TTAAA
1275733 CTTAGCCCTT
Statistics
Matches: 318, Mismatches: 58, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
153 3 0.01
154 60 0.19
155 132 0.42
156 63 0.20
157 60 0.19
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (155 bp):
TTTTAAGTCCTTTAGGGGTATCAGGCTACTTTTACGTTGAAGGTATCCCCTAGGGGCATTTTTGT
AATTTTTTAAAACCGAGTCCTAGGTTGTCACTAGGTCCAATTTCATGCCGAAGGTAGATATTTAA
GATAGGTTCACCCTATTTAAATCCT
Found at i:1277083 original size:273 final size:272
Alignment explanation
Indices: 1276596--1277133 Score: 753
Period size: 273 Copynumber: 2.0 Consensus size: 272
1276586 GAGTTTTGTA
* * *
1276596 ACCCTTAAAATAATAAATTCGACAGGTGACCAATCACGCTTGGTTGAAAAAGATTGGTGGCGACT
1 ACCCTTAAAATAATAAATTCAACAGGTGACCAATCACGCTTAGTCGAAAAAGATTGGTGGCGACT
* * *
1276661 TCAAATAAATGGTCATTTCATAATGACTATTTAGGGTTAAGTCAAATAATCAATTCATCATGGCG
66 CCAAATAAATGGTCATTTCATAATGACTATTTAGGGTTAAGTCAAATAAGCAATTCATCATGACG
* * * *
1276726 ACCAAAGTCTCCAAAAATATGAAATATCATCATTAATATGGCCCATAAAATAGGAGTTATCAAAA
131 ACCAAAGTCCCCAAAAATATGAAATATCATCATTAATATAGCCCATAAAACAGGAGTCATCAAAA
* *
1276791 TATCAATACTTCATTATTTATGTGAAGACATTAAAGGGCCATTTTAAGTCAAGCTTGGTCAGGAT
196 TATCAATACTTCATTATTTATGTGAAGA-AATAAAGGGCCATCTTAAGTCAAGCTTGGTCAGGAT
*
1276856 TTGTATTCGTCAT
260 TCGTATTCGTCAT
* * *
1276869 ACCCTTAAAATAATAATTTCAATAGGTGACCAACCTTAC-C-TAGTCGAAAAAGATTGGTGGCGA
1 ACCCTTAAAATAATAAATTCAACAGGTGACCAA--TCACGCTTAGTCGAAAAAGATTGGTGGCGA
* * *
1276932 CTCCAAATAAATGGTCATTTCGTAATGACTATTT-GGGATTAAGTCGAATGAGCAATTCATC-TC
64 CTCCAAATAAATGGTCATTTCATAATGACTATTTAGGG-TTAAGTCAAATAAGCAATTCATCAT-
* * *
1276995 GATGACCCAAGTCCCCAAAAATATGAAATATTATCATTAATATAGCCCATAAAACAGGAGTCATC
127 GACGACCAAAGTCCCCAAAAATATGAAATATCATCATTAATATAGCCCATAAAACAGGAGTCATC
* * * *
1277060 AAAATA-CTAATACTTCATTATTTATGTGAAGAAATCAAGGGCCATCTTAAGTCGAGTTTGGTCG
192 AAAATATC-AATACTTCATTATTTATGTGAAGAAATAAAGGGCCATCTTAAGTCAAGCTTGGTCA
1277124 GGATTCGTAT
256 GGATTCGTAT
1277134 CCGAGCCATG
Statistics
Matches: 234, Mismatches: 26, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
272 40 0.17
273 190 0.81
274 1 0.00
275 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (272 bp):
ACCCTTAAAATAATAAATTCAACAGGTGACCAATCACGCTTAGTCGAAAAAGATTGGTGGCGACT
CCAAATAAATGGTCATTTCATAATGACTATTTAGGGTTAAGTCAAATAAGCAATTCATCATGACG
ACCAAAGTCCCCAAAAATATGAAATATCATCATTAATATAGCCCATAAAACAGGAGTCATCAAAA
TATCAATACTTCATTATTTATGTGAAGAAATAAAGGGCCATCTTAAGTCAAGCTTGGTCAGGATT
CGTATTCGTCAT
Found at i:1280380 original size:49 final size:51
Alignment explanation
Indices: 1280327--1280448 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
1280317 AAAGCAAATA
**
1280327 TATCGATACATTCTAGG-TTTGGCCCAAATGTATCAATACATT-TTCATTG
1 TATCGATACATTCTAGGTTTTAACCCAAATGTATCAATACATTATTCATTG
* *
1280376 TATCGATACATTCTAGGTTTTTAACCCAAATGTATCTATACATTATTGATTG
1 TATCGATACATTCTAGG-TTTTAACCCAAATGTATCAATACATTATTCATTG
*
1280428 TATCGATATATTC-AGGGTTTT
1 TATCGATACATTCTA-GGTTTT
1280449 TTAACTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
49 17 0.27
51 27 0.42
52 20 0.31
ACGTcount: A:0.29, C:0.16, G:0.14, T:0.42
Consensus pattern (51 bp):
TATCGATACATTCTAGGTTTTAACCCAAATGTATCAATACATTATTCATTG
Found at i:1280449 original size:52 final size:51
Alignment explanation
Indices: 1280327--1280449 Score: 162
Period size: 52 Copynumber: 2.4 Consensus size: 51
1280317 AAAGCAAATA
**
1280327 TATCGATACATTCTAGG--TTTGGCCCAAATGTATCAATACATTTTCATTG
1 TATCGATACATTCTAGGTTTTTAACCCAAATGTATCAATACATTTTCATTG
* *
1280376 TATCGATACATTCTAGGTTTTTAACCCAAATGTATCTATACATTATTGATTG
1 TATCGATACATTCTAGGTTTTTAACCCAAATGTATCAATACATT-TTCATTG
*
1280428 TATCGATATATTC-AGGGTTTTT
1 TATCGATACATTCTA-GGTTTTT
1280450 TAACTAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
49 17 0.26
51 23 0.35
52 25 0.38
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.42
Consensus pattern (51 bp):
TATCGATACATTCTAGGTTTTTAACCCAAATGTATCAATACATTTTCATTG
Found at i:1281829 original size:20 final size:20
Alignment explanation
Indices: 1281800--1281852 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
1281790 TTCTATTATT
* * *
1281800 TGTATTGATATAATTAGTAA
1 TGTATCGATACAATTACTAA
* *
1281820 TGTATCGATACATTTACTTA
1 TGTATCGATACAATTACTAA
1281840 TGTATCGATACAA
1 TGTATCGATACAA
1281853 GCTGTTTTGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATTACTAA
Found at i:1282336 original size:14 final size:14
Alignment explanation
Indices: 1282305--1282342 Score: 60
Period size: 13 Copynumber: 2.8 Consensus size: 14
1282295 CCAATCATAT
*
1282305 CTCAACCAAAAACA
1 CTCAACAAAAAACA
1282319 -TCAACAAAAAACA
1 CTCAACAAAAAACA
1282332 CTCAACAAAAA
1 CTCAACAAAAA
1282343 TCCATTCTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.63, C:0.29, G:0.00, T:0.08
Consensus pattern (14 bp):
CTCAACAAAAAACA
Found at i:1287891 original size:14 final size:14
Alignment explanation
Indices: 1287872--1287907 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1287862 CTTAACCATA
*
1287872 AATGGCCATTTCTT
1 AATGGCCATTTCAT
1287886 AATGGCCATTTCAT
1 AATGGCCATTTCAT
*
1287900 AATAGCCA
1 AATGGCCA
1287908 ATTAATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (14 bp):
AATGGCCATTTCAT
Found at i:1290507 original size:20 final size:21
Alignment explanation
Indices: 1290482--1290537 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
1290472 CTGCCAAGGA
1290482 AATGTATCGATACATT-ATTC
1 AATGTATCGATACATTGATTC
*
1290502 AATGTATTGATACATTGA-TC
1 AATGTATCGATACATTGATTC
**
1290522 TTTGTATCGATACATT
1 AATGTATCGATACATT
1290538 TGGGAATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTGATTC
Found at i:1292969 original size:22 final size:22
Alignment explanation
Indices: 1292941--1292984 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1292931 TACTACGTTT
1292941 TCTTTCTTCCTCCTTGTTCGGC
1 TCTTTCTTCCTCCTTGTTCGGC
*
1292963 TCTTTCTTCTTCCTTGTTCGGC
1 TCTTTCTTCCTCCTTGTTCGGC
1292985 CTAGATAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.00, C:0.34, G:0.14, T:0.52
Consensus pattern (22 bp):
TCTTTCTTCCTCCTTGTTCGGC
Found at i:1304525 original size:20 final size:20
Alignment explanation
Indices: 1304511--1304588 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 20
1304501 AAAAAGAGAG
1304511 ACAAAAAAAGCAAAAAACAA
1 ACAAAAAAAGCAAAAAACAA
**
1304531 ACAAAAAAAATAAAGAAACAA
1 ACAAAAAAAGCAAA-AAACAA
*
1304552 A-AAAACAAA--AAACAACAA
1 ACAAAA-AAAGCAAAAAACAA
*
1304570 ACAAAAAAAACAAACAAAC
1 ACAAAAAAAGCAAA-AAAC
1304589 TGTCGCAACG
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
18 9 0.19
19 7 0.15
20 19 0.40
21 13 0.27
ACGTcount: A:0.81, C:0.15, G:0.03, T:0.01
Consensus pattern (20 bp):
ACAAAAAAAGCAAAAAACAA
Found at i:1304554 original size:35 final size:34
Alignment explanation
Indices: 1304492--1304587 Score: 113
Period size: 37 Copynumber: 2.7 Consensus size: 34
1304482 TCTTCTGCAA
*
1304492 AAACAAAAAAAAAAGAGAGACAAAAAAAGCAAAAAAC
1 AAACAAAAAAAAAA-AGAAAC-AAAAAA-CAAAAAAC
1304529 AAACAAAAAAAATAAAGAAACAAAAAAACAAAAAAC
1 AAACAAAAAAAA-AAAGAAAC-AAAAAACAAAAAAC
*
1304565 -AACAAACAAAAAAAACAAACAAA
1 AAACAAA-AAAAAAAAGAAACAAA
1304588 CTGTCGCAAC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
34 3 0.05
35 13 0.24
36 13 0.24
37 24 0.44
38 2 0.04
ACGTcount: A:0.81, C:0.12, G:0.05, T:0.01
Consensus pattern (34 bp):
AAACAAAAAAAAAAAGAAACAAAAAACAAAAAAC
Found at i:1304556 original size:39 final size:36
Alignment explanation
Indices: 1304492--1304588 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 36
1304482 TCTTCTGCAA
*
1304492 AAACAAAAAAAAAAGAGAGACAAAAA-AAGCAAAA-AAC
1 AAACAAAAAAAAAA-AGAAACAAAAACAA--AAAACAAC
1304529 AAACAAAAAAAATAAAGAAACAAAAAAACAAAAAACAAC
1 AAACAAAAAAAA-AAAGAAAC--AAAAACAAAAAACAAC
*
1304568 AAACAAAAAAAACAAACAAAC
1 AAACAAAAAAAA-AAAGAAAC
1304589 TGTCGCAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
37 17 0.33
38 6 0.12
39 27 0.52
40 2 0.04
ACGTcount: A:0.80, C:0.13, G:0.05, T:0.01
Consensus pattern (36 bp):
AAACAAAAAAAAAAAGAAACAAAAACAAAAAACAAC
Found at i:1304584 original size:4 final size:4
Alignment explanation
Indices: 1304511--1304588 Score: 54
Period size: 4 Copynumber: 19.5 Consensus size: 4
1304501 AAAAAGAGAG
* * * * *
1304511 ACAA AAAA AGCAA A-AA ACAA ACAAA AAAA ATAA AGAA ACAA AAAA ACAA
1 ACAA ACAA A-CAA ACAA ACAA AC-AA ACAA ACAA ACAA ACAA ACAA ACAA
*
1304560 A-AA AC-A ACAA ACAAA AAAA ACAA ACAA AC
1 ACAA ACAA ACAA AC-AA ACAA ACAA ACAA AC
1304589 TGTCGCAACG
Statistics
Matches: 58, Mismatches: 10, Indels: 12
0.73 0.12 0.15
Matches are distributed among these distances:
3 9 0.16
4 40 0.69
5 9 0.16
ACGTcount: A:0.81, C:0.15, G:0.03, T:0.01
Consensus pattern (4 bp):
ACAA
Found at i:1308469 original size:19 final size:17
Alignment explanation
Indices: 1308437--1308471 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
1308427 TGTCTAAAAT
1308437 TAATCCTTTTTGTCACC
1 TAATCCTTTTTGTCACC
1308454 TAATCACTTGTTTGTCAC
1 TAATC-CTT-TTTGTCAC
1308472 ACAGTACACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.46
Consensus pattern (17 bp):
TAATCCTTTTTGTCACC
Found at i:1309755 original size:49 final size:49
Alignment explanation
Indices: 1309666--1309953 Score: 371
Period size: 49 Copynumber: 5.9 Consensus size: 49
1309656 GGTGGTATCT
* *
1309666 TCTTCTAAGTCCAATATCGCTAACC-TGAATCAGCATATTGGCACCTTCA
1 TCTT-TAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTCA
*
1309715 TCTTTAAGTCCGATATCGCTGACCTTGAATCAACATATTGGCACCTTCA
1 TCTTTAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTCA
* *
1309764 TCTTTAAGTCCGATATCGCTGACCTTGAATCAACATACTGGCACCTTCA
1 TCTTTAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTCA
* * * * * * *
1309813 TCTTTAAGACCAATGTCACTGGCCTTGAATCAGCACATTGGCGCCTTCA
1 TCTTTAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTCA
* * * * *
1309862 TCTTTAAGACCGATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCA
1 TCTTTAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTCA
* * * *
1309911 TCTTTAAGTCCGCTATCGTTGGCCTTAAATCAGCATATTGGCA
1 TCTTTAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCA
1309954 TCTTTAACAT
Statistics
Matches: 216, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
48 18 0.08
49 198 0.92
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.31
Consensus pattern (49 bp):
TCTTTAAGTCCGATATCGCTGACCTTGAATCAGCATATTGGCACCTTCA
Found at i:1310026 original size:47 final size:47
Alignment explanation
Indices: 1309972--1310105 Score: 178
Period size: 47 Copynumber: 2.9 Consensus size: 47
1309962 ATTCCTAAGC
* ***
1309972 CTAATGTCGCTGCCCTTGTCTCAGCACATTGGCATTCTTCTTCAACT
1 CTAATGTCGCTGCCCATAAATCAGCACATTGGCATTCTTCTTCAACT
*
1310019 CTAATGTCGCTGGCCATAAATCAGCACATTGGCATTCTTCTTCAACT
1 CTAATGTCGCTGCCCATAAATCAGCACATTGGCATTCTTCTTCAACT
* * * **
1310066 CTAATGTCGCTGGCCATGAATCAACACATTATCATTCTTC
1 CTAATGTCGCTGCCCATAAATCAGCACATTGGCATTCTTC
1310106 GCATCTTCAA
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 78 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (47 bp):
CTAATGTCGCTGCCCATAAATCAGCACATTGGCATTCTTCTTCAACT
Found at i:1310976 original size:26 final size:26
Alignment explanation
Indices: 1310935--1310988 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
1310925 TAAGTAAATG
1310935 TATCGATACAAAGATCAATGTATCGA
1 TATCGATACAAAGATCAATGTATCGA
** **
1310961 TATCGATACATTGATCTTTGTATCGA
1 TATCGATACAAAGATCAATGTATCGA
1310987 TA
1 TA
1310989 CATCTCGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (26 bp):
TATCGATACAAAGATCAATGTATCGA
Found at i:1311029 original size:15 final size:15
Alignment explanation
Indices: 1311009--1311037 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1310999 TCTTACCTAG
1311009 ATGTATCGATACATT
1 ATGTATCGATACATT
1311024 ATGTATCGATACAT
1 ATGTATCGATACAT
1311038 ACAGGCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
ATGTATCGATACATT
Found at i:1312469 original size:21 final size:21
Alignment explanation
Indices: 1312445--1312484 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1312435 TATTGCATGT
1312445 TAAAAAATTATTT-TAAAATAC
1 TAAAAAATT-TTTCTAAAATAC
*
1312466 TAAAAGATTTTTCTAAAAT
1 TAAAAAATTTTTCTAAAAT
1312485 TTTTCAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAAAATTTTTCTAAAATAC
Found at i:1314665 original size:13 final size:13
Alignment explanation
Indices: 1314647--1314672 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1314637 TACACCAAGT
1314647 ATGTATCGATACA
1 ATGTATCGATACA
1314660 ATGTATCGATACA
1 ATGTATCGATACA
1314673 CAAAAACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1316920 original size:21 final size:21
Alignment explanation
Indices: 1316887--1316931 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1316877 TTGCAAGTTG
*
1316887 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1316909 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1316929 AAA
1 AAA
1316932 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1318761 original size:15 final size:15
Alignment explanation
Indices: 1318743--1318772 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1318733 TCAAATTGGG
1318743 GAAGCTCAAAATGAA
1 GAAGCTCAAAATGAA
*
1318758 GAAGCTCCAAATGAA
1 GAAGCTCAAAATGAA
1318773 ATTGATGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.17, G:0.20, T:0.13
Consensus pattern (15 bp):
GAAGCTCAAAATGAA
Found at i:1323396 original size:13 final size:13
Alignment explanation
Indices: 1323378--1323403 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1323368 TACACCAAGT
1323378 ATGTATCGATACA
1 ATGTATCGATACA
1323391 ATGTATCGATACA
1 ATGTATCGATACA
1323404 CAAAAACTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1325379 original size:22 final size:22
Alignment explanation
Indices: 1325353--1325397 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1325343 TTATGAATCA
1325353 ACCTTGATTTCATGTTTATGTC
1 ACCTTGATTTCATGTTTATGTC
*
1325375 ACCTTGATTTGATGTTTATGTC
1 ACCTTGATTTCATGTTTATGTC
1325397 A
1 A
1325398 AGTGTTTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (22 bp):
ACCTTGATTTCATGTTTATGTC
Found at i:1331360 original size:13 final size:13
Alignment explanation
Indices: 1331342--1331367 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1331332 CAATTTTTTG
1331342 TGTATCGATACAT
1 TGTATCGATACAT
1331355 TGTATCGATACAT
1 TGTATCGATACAT
1331368 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1332114 original size:21 final size:21
Alignment explanation
Indices: 1332073--1332116 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1332063 CTTCCCTTTA
* *
1332073 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1332094 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1332115 TC
1 TC
1332117 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1333938 original size:13 final size:13
Alignment explanation
Indices: 1333920--1333945 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1333910 ATAATCACCC
1333920 TGTATCGATACAA
1 TGTATCGATACAA
1333933 TGTATCGATACAA
1 TGTATCGATACAA
1333946 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1337886 original size:21 final size:21
Alignment explanation
Indices: 1337857--1337901 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1337847 AAGTTTTCAT
*
1337857 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1337877 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1337899 TTT
1 TTT
1337902 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1340135 original size:13 final size:13
Alignment explanation
Indices: 1340117--1340142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1340107 CAATTTTTTG
1340117 TGTATCGATACAT
1 TGTATCGATACAT
1340130 TGTATCGATACAT
1 TGTATCGATACAT
1340143 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1342326 original size:13 final size:13
Alignment explanation
Indices: 1342308--1342333 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1342298 CAATTTTTTG
1342308 TGTATCGATACAT
1 TGTATCGATACAT
1342321 TGTATCGATACAT
1 TGTATCGATACAT
1342334 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1342417 original size:20 final size:20
Alignment explanation
Indices: 1342392--1342464 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1342382 ACATCTTTTT
1342392 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
***
1342412 CATGTATCGATACATCT-TTT
1 CATGTATCGATACAT-TGCAA
1342432 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1342452 CATGTATCGATAC
1 CATGTATCGATAC
1342465 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1342443 original size:40 final size:41
Alignment explanation
Indices: 1342372--1342464 Score: 179
Period size: 40 Copynumber: 2.3 Consensus size: 41
1342362 CTGCCAAGAA
1342372 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1342413 ATGTATCGATACATC-TTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1342453 ATGTATCGATAC
1 ATGTATCGATAC
1342465 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 37 0.71
41 15 0.29
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1344957 original size:20 final size:20
Alignment explanation
Indices: 1344932--1344970 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1344922 GATACACTAC
1344932 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
1344952 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
1344971 TTTCCAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.23
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1348419 original size:52 final size:52
Alignment explanation
Indices: 1348349--1348469 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1348339 GAAAATTTAT
*
1348349 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1348401 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1348453 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1348470 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1348482 original size:52 final size:51
Alignment explanation
Indices: 1348349--1348489 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1348339 GAAAATTTAT
1348349 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1348401 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1348453 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1348490 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1348496 original size:13 final size:13
Alignment explanation
Indices: 1348478--1348502 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1348468 CAAAGATCAG
1348478 TGTATCGATACAA
1 TGTATCGATACAA
1348491 TGTATCGATACA
1 TGTATCGATACA
1348503 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1348588 original size:13 final size:13
Alignment explanation
Indices: 1348570--1348594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1348560 CAAAAAAATA
1348570 TGTATCGATACAT
1 TGTATCGATACAT
1348583 TGTATCGATACA
1 TGTATCGATACA
1348595 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1348590 original size:33 final size:33
Alignment explanation
Indices: 1348548--1348614 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1348538 AGTAGCTTAA
1348548 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1348581 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1348614 A
1 A
1348615 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1352504 original size:21 final size:21
Alignment explanation
Indices: 1352475--1352519 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1352465 AAGTTTTCAT
*
1352475 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1352495 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1352517 TTT
1 TTT
1352520 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1354754 original size:13 final size:13
Alignment explanation
Indices: 1354736--1354761 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1354726 CAATTTTTTG
1354736 TGTATCGATACAT
1 TGTATCGATACAT
1354749 TGTATCGATACAT
1 TGTATCGATACAT
1354762 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1354845 original size:20 final size:20
Alignment explanation
Indices: 1354820--1354892 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
1354810 ACATCTTTTT
1354820 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
***
1354840 CATGTATCGATACATCT-TTT
1 CATGTATCGATACAT-TGCAA
1354860 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1354880 CATGTATCGATAC
1 CATGTATCGATAC
1354893 TTTGAATTGT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 43 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1354871 original size:40 final size:41
Alignment explanation
Indices: 1354800--1354892 Score: 179
Period size: 40 Copynumber: 2.3 Consensus size: 41
1354790 CTACCAAGAA
1354800 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1354841 ATGTATCGATACATC-TTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1354881 ATGTATCGATAC
1 ATGTATCGATAC
1354893 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 37 0.71
41 15 0.29
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:1359725 original size:33 final size:33
Alignment explanation
Indices: 1359683--1359746 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1359673 CGTGAGTTGA
*
1359683 TCACTTCACTTTCGCAGCACATGAATGAGCACT
1 TCACTTCACTCTCGCAGCACATGAATGAGCACT
* *
1359716 TCACTTCACTCTCGCAGCATATGGATGAGCA
1 TCACTTCACTCTCGCAGCACATGAATGAGCA
1359747 TTTTAGTTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCACATGAATGAGCACT
Found at i:1360694 original size:13 final size:13
Alignment explanation
Indices: 1360676--1360713 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1360666 AATTATGCTT
1360676 TGTATCGATACAA
1 TGTATCGATACAA
1360689 TGTATCGATACAA
1 TGTATCGATACAA
*
1360702 TGTATTGATACA
1 TGTATCGATACA
1360714 TGAACAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1360725 original size:20 final size:20
Alignment explanation
Indices: 1360700--1360737 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1360690 GTATCGATAC
*
1360700 AATGTATTGATACATGAACA
1 AATGTATCGATACATGAACA
1360720 AATGTATCGATACATGAA
1 AATGTATCGATACATGAA
1360738 ACTGGCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATGAACA
Found at i:1361792 original size:21 final size:20
Alignment explanation
Indices: 1361768--1361822 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
1361758 TTTCAACAAT
1361768 TTGTATCGATACAA-ACAGTAA
1 TTGTATCGATACAATA-AGT-A
*
1361789 TTGTATCGATA-AATAAGTG
1 TTGTATCGATACAATAAGTA
1361808 TTGTATCGATACAAT
1 TTGTATCGATACAAT
1361823 GTATCGATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 11 0.35
20 8 0.26
21 12 0.39
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACAATAAGTA
Found at i:1361827 original size:13 final size:13
Alignment explanation
Indices: 1361809--1361866 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1361799 AAATAAGTGT
1361809 TGTATCGATACAA
1 TGTATCGATACAA
1361822 TGTATCGATACATAA
1 TGTATCGATAC--AA
1361837 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1361854 TGTATCGCTACAA
1 TGTATCGATACAA
1361867 AGCTACTGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1361831 original size:32 final size:32
Alignment explanation
Indices: 1361790--1361860 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1361780 AAACAGTAAT
1361790 TGTATCGATAAATAAGTGTTGTATCGATACAA
1 TGTATCGATAAATAAGTGTTGTATCGATACAA
*
1361822 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATAAATAAGTGTTGTATCGATACAA
1361854 TGTATCG
1 TGTATCG
1361861 CTACAAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATAAATAAGTGTTGTATCGATACAA
Found at i:1361851 original size:19 final size:19
Alignment explanation
Indices: 1361768--1361852 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
1361758 TTTCAACAAT
* *
1361768 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-G
*
1361789 TTGTATCGATAAATAAGTG
1 TTGTATCGATACATAAGTG
1361808 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1361822 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1361840 TTGTATCGATACA
1 TTGTATCGATACA
1361853 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
13 11 0.20
15 2 0.04
17 2 0.04
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1366496 original size:21 final size:21
Alignment explanation
Indices: 1366472--1366529 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
1366462 GAACTAGAGG
*
1366472 AGAAAATGAATGAGTTGGAAA
1 AGAAAATGAATGAGTTGCAAA
*
1366493 AGAAAA-GAAATAAGTTGCAAA
1 AGAAAATG-AATGAGTTGCAAA
1366514 ATGAAAATG-ATGAGTT
1 A-GAAAATGAATGAGTT
1366530 AACTAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 5 0.16
23 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.24, T:0.21
Consensus pattern (21 bp):
AGAAAATGAATGAGTTGCAAA
Found at i:1369908 original size:19 final size:19
Alignment explanation
Indices: 1369884--1369929 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
1369874 CGATACAAAG
*
1369884 TATCGATAAATGTTCATTA
1 TATCGATAAATGTTAATTA
**
1369903 TATCGATGCATGTTAATTA
1 TATCGATAAATGTTAATTA
1369922 TATCGATA
1 TATCGATA
1369930 CATCATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (19 bp):
TATCGATAAATGTTAATTA
Found at i:1370964 original size:21 final size:20
Alignment explanation
Indices: 1370939--1370991 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1370929 TACAAGCCAA
**
1370939 TGTATCGATACAATTTTTTTG
1 TGTATCGATACAA-TACTTTG
1370960 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
1370979 TGTATCGATACAA
1 TGTATCGATACAA
1370992 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.43
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1371663 original size:40 final size:41
Alignment explanation
Indices: 1371617--1371707 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 41
1371607 TTGTCTTTCT
1371617 CCCTTAACTAAAG-TAATTTTAACAAATTCATACATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* * * *
1371657 CCCTTAA-T-AAGATAGTTTTAGCAAATTTATGCATTCTCC
1 CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
* *
1371696 CCTTTTACTAAA
1 CCCTTAACTAAA
1371708 AAAAATCTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
38 3 0.07
39 29 0.69
40 8 0.19
41 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.37
Consensus pattern (41 bp):
CCCTTAACTAAAGATAATTTTAACAAATTCATACATTCTCC
Found at i:1373564 original size:13 final size:13
Alignment explanation
Indices: 1373546--1373583 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1373536 ATAATCCCCC
1373546 TGTATCGATACAG
1 TGTATCGATACAG
*
1373559 TGTATCGATACAT
1 TGTATCGATACAG
1373572 TGTATCGATACA
1 TGTATCGATACA
1373584 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1375684 original size:15 final size:15
Alignment explanation
Indices: 1375664--1375694 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1375654 ATTTCGTTTG
*
1375664 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1375679 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1375694 G
1 G
1375695 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1377525 original size:21 final size:21
Alignment explanation
Indices: 1377496--1377540 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1377486 AAGTTTTAAT
*
1377496 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1377516 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1377538 TTT
1 TTT
1377541 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1379786 original size:13 final size:13
Alignment explanation
Indices: 1379768--1379793 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1379758 AATTTTTTTG
1379768 TGTATCGATACAT
1 TGTATCGATACAT
1379781 TGTATCGATACAT
1 TGTATCGATACAT
1379794 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1379792 original size:34 final size:32
Alignment explanation
Indices: 1379747--1379811 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
1379737 TACAAGCCAA
*
1379747 TGTATCAATACAATTTTTTTGTGTATCGATACAT
1 TGTATCAATAC-A-TATTTTGTGTATCGATACAT
*
1379781 TGTATCGATACATATTTTGTGTATCGATACA
1 TGTATCAATACATATTTTGTGTATCGATACA
1379812 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 18 0.62
33 1 0.03
34 10 0.34
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (32 bp):
TGTATCAATACATATTTTGTGTATCGATACAT
Found at i:1380557 original size:35 final size:36
Alignment explanation
Indices: 1380489--1380557 Score: 104
Period size: 36 Copynumber: 1.9 Consensus size: 36
1380479 AGTGATTGTG
* *
1380489 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCCTAGCCTGTGAAAAAGATAGGGAGAA
*
1380525 AGGTTCTATCCTAGCCTGTG-AAAAGATTGGGAG
1 AGGTTCTATCCTAGCCTGTGAAAAAGATAGGGAG
1380558 GTTTCTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
35 12 0.40
36 18 0.60
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.28
Consensus pattern (36 bp):
AGGTTCTATCCTAGCCTGTGAAAAAGATAGGGAGAA
Found at i:1380572 original size:32 final size:30
Alignment explanation
Indices: 1380482--1380578 Score: 95
Period size: 36 Copynumber: 3.0 Consensus size: 30
1380472 TTCTCTAAGT
*
1380482 GATTGTGAGGTTCTATCTTAGCCTTTGAAAAA
1 GATTGGGAGGTTCTATCTTAGCC-TTG-AAAA
* *
1380514 GATAGGGAGAAAGGTTCTATCCTAGCCTGTGAAAA
1 GAT-TGG-G--AGGTTCTATCTTAGCCT-TGAAAA
1380549 GATTGGGAGGTTTCTATCTTAGCCTTGAAA
1 GATTGGGAGG-TTCTATCTTAGCCTTGAAA
1380579 GATAGTGTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
31 8 0.15
32 16 0.30
33 2 0.04
34 3 0.06
35 8 0.15
36 17 0.31
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (30 bp):
GATTGGGAGGTTCTATCTTAGCCTTGAAAA
Found at i:1385930 original size:39 final size:39
Alignment explanation
Indices: 1385886--1385961 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
1385876 AAAGGTTTCC
1385886 TAAGATGAAACCAACAAGCCAACA-ATAAAAAAGAGTTGA
1 TAAGATGAAACCAACAAGCCAACAGAT-AAAAAGAGTTGA
* * * *
1385925 TAAGATGAAATCGACAAGTCAATAGATAAAAAGAGTT
1 TAAGATGAAACCAACAAGCCAACAGATAAAAAGAGTT
1385962 CACCATGACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.94
40 2 0.06
ACGTcount: A:0.54, C:0.12, G:0.17, T:0.17
Consensus pattern (39 bp):
TAAGATGAAACCAACAAGCCAACAGATAAAAAGAGTTGA
Found at i:1386516 original size:65 final size:66
Alignment explanation
Indices: 1386144--1386628 Score: 227
Period size: 66 Copynumber: 7.4 Consensus size: 66
1386134 ACGACCTAGA
* * * * * * * *
1386144 TGGAACCTAAGTTGAAAAGGGGTTGATCAAGG-GAATACTAATAAAGTCAACTAAAGGTGACCAT
1 TGGAACCTAAGTCGAAAAAGGGTTAACCAAGGTCAA-ACTAATAAAGTCAACTAAGGGTGACTAA
1386208 GG
65 GG
** ** * * * * * * ** *
1386210 -CAAAGCCTAAGTTAAAAAAGAGTTGACTAGGGTGAAACCGAA-AAAGTCAACTAAAAGTAACTA
1 TGGAA-CCTAAGTCGAAAAAGGGTTAACCAAGGTCAAA-CTAATAAAGTCAACTAAGGGTGACTA
*
1386273 GGG
64 AGG
* * * ** * * * ** * *
1386276 TGAAACCTAAGT-AAGAAAAGGGTTGATGAATGTGAAACTAATAAAGTTAACTAAAAGTAACCAA
1 TGGAACCTAAGTCGA-AAAAGGGTTAACCAAGGTCAAACTAATAAAGTCAACTAAGGGTGACTAA
*
1386340 GA
65 GG
* * ** * * * *** * *
1386342 TGGAACCAAAGTCAAAAAAAAGTTGACCAGGGTAAAACTGGCAAAGCCAA-TAAAAGGTGACTAA
1 TGGAACCTAAGTCGAAAAAGGGTTAACCAAGGTCAAACTAATAAAGTCAACT-AAGGGTGACTAA
1386406 GG
65 GG
* ** * * * *
1386408 TAGAATTTAAGTTG-AAAAGGGTTAA-CTAGGATTAAACCAATAAAGTCAACTAAGGGTGACT-A
1 TGGAACCTAAGTCGAAAAAGGGTTAACCAAGG-TCAAACTAATAAAGTCAACTAAGGGTGACTAA
1386470 GG
65 GG
* * * * * *
1386472 ATGGAACTTAAGT-TAAAAAGGGTTAACCAAGGTGAAACTGATAAAGTTAACTAAGGGTGACCAA
1 -TGGAACCTAAGTCGAAAAAGGGTTAACCAAGGTCAAACTAATAAAGTCAACTAAGGGTGACTAA
1386536 GG
65 GG
** * *
1386538 -CAAAGCCTAAGTCGAAAAAGGGTTAACCAAGG-CAAAATCAATGAAGTCAACTAAGGGTGACTA
1 TGGAA-CCTAAGTCGAAAAAGGGTTAACCAAGGTCAAACT-AATAAAGTCAACTAAGGGTGACTA
1386601 AGG
64 AGG
*
1386604 TGAAACCTAAGTCGAAAAAGGGTTA
1 TGGAACCTAAGTCGAAAAAGGGTTA
1386629 GCTAGGGCAA
Statistics
Matches: 321, Mismatches: 80, Indels: 36
0.73 0.18 0.08
Matches are distributed among these distances:
64 8 0.02
65 93 0.29
66 206 0.64
67 14 0.04
ACGTcount: A:0.45, C:0.12, G:0.24, T:0.19
Consensus pattern (66 bp):
TGGAACCTAAGTCGAAAAAGGGTTAACCAAGGTCAAACTAATAAAGTCAACTAAGGGTGACTAAG
G
Found at i:1386535 original size:34 final size:34
Alignment explanation
Indices: 1386447--1386537 Score: 84
Period size: 34 Copynumber: 2.8 Consensus size: 34
1386437 GATTAAACCA
* * *
1386447 ATAAAGTCAACTAAGGGTGA-CTAGGATGGAACT
1 ATAAAGTTAACTAAGGGTGACCAAGGATGAAACT
* *
1386480 -T-AAGTTAA-AAAGGGTTAACCAAGG-TGAAACT
1 ATAAAGTTAACTAAGGG-TGACCAAGGATGAAACT
1386511 GATAAAGTTAACTAAGGGTGACCAAGG
1 -ATAAAGTTAACTAAGGGTGACCAAGG
1386538 CAAAGCCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
30 5 0.11
31 14 0.31
32 5 0.11
33 1 0.02
34 15 0.33
35 5 0.11
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (34 bp):
ATAAAGTTAACTAAGGGTGACCAAGGATGAAACT
Found at i:1386590 original size:66 final size:64
Alignment explanation
Indices: 1386486--1386687 Score: 226
Period size: 66 Copynumber: 3.1 Consensus size: 64
1386476 AACTTAAGTT
*
1386486 AAAAAGGGTTAACCAAGGTGAAA-CTGATAAAGTTAACTAAGGGTGACCAAGGCAAAGCCTAAGT
1 AAAAAGGGTTAACCAAGG-CAAATC-GATAAAGTTAACTAAGGGTGACCAAGGCAAA-CCTAAGT
1386550 CG
63 CG
* * * * *
1386552 AAAAAGGGTTAACCAAGGCAAAATCAATGAAGTCAACTAAGGGTGACTAAGGTGAAACCTAAGTC
1 AAAAAGGGTTAACCAAGGC-AAATCGATAAAGTTAACTAAGGGTGACCAAGG-CAAACCTAAGTC
1386617 G
64 G
* * * * * *
1386618 AAAAAGGGTTAGCTAGGGCAAATCCGATAAAATTAACTAAGGGTGACCAAGGCAGAACTTAAGTT
1 AAAAAGGGTTAACCAAGGCAAAT-CGATAAAGTTAACTAAGGGTGACCAAGGCA-AACCTAAGTC
1386683 G
64 G
1386684 AAAA
1 AAAA
1386688 GGGAAAAACC
Statistics
Matches: 114, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
65 5 0.04
66 105 0.92
67 4 0.04
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.17
Consensus pattern (64 bp):
AAAAAGGGTTAACCAAGGCAAATCGATAAAGTTAACTAAGGGTGACCAAGGCAAACCTAAGTCG
Found at i:1386681 original size:132 final size:130
Alignment explanation
Indices: 1386397--1386687 Score: 333
Period size: 132 Copynumber: 2.2 Consensus size: 130
1386387 GCCAATAAAA
* * * *
1386397 GGTGACTAAGGTAGAATTTAAGTTG-AAAAGGGTTAACTAGGATTAAACCAATAAAGTCAACTAA
1 GGTGACCAAGGCAGAACTTAAGTTGAAAAAGGGTTAACAAGGA-TAAACCAATAAAGTCAACTAA
* * * * *
1386461 GGGTGACTAGGATGGAACTTAAGTTAAAAAGGGTTAACCAAGGTGAAACTGATAAAGTTAACTAA
65 GGGTGACTAGGATGAAACCTAAGTGAAAAAGGGTTAACCAAGGTGAAACCGATAAAATTAACTAA
1386526 G
130 G
* * * *
1386527 GGTGACCAAGGCA-AAGCCTAAGTCGAAAAAGGGTTAACCAAGGCA-AAATCAATGAAGTCAACT
1 GGTGACCAAGGCAGAA-CTTAAGTTGAAAAAGGGTTAA-CAAGG-ATAAACCAATAAAGTCAACT
* *
1386590 AAGGGTGACTAAGG-TGAAACCTAAGTCGAAAAAGGGTT-AGCTAGG-GCAAATCCGATAAAATT
63 AAGGGTGACT-AGGATGAAACCTAAGT-GAAAAAGGGTTAACCAAGGTG-AAA-CCGATAAAATT
1386652 AACTAAG
124 AACTAAG
1386659 GGTGACCAAGGCAGAACTTAAGTTGAAAA
1 GGTGACCAAGGCAGAACTTAAGTTGAAAA
1386688 GGGAAAAACC
Statistics
Matches: 135, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
129 2 0.01
130 18 0.13
131 55 0.41
132 57 0.42
133 3 0.02
ACGTcount: A:0.42, C:0.13, G:0.25, T:0.20
Consensus pattern (130 bp):
GGTGACCAAGGCAGAACTTAAGTTGAAAAAGGGTTAACAAGGATAAACCAATAAAGTCAACTAAG
GGTGACTAGGATGAAACCTAAGTGAAAAAGGGTTAACCAAGGTGAAACCGATAAAATTAACTAAG
Found at i:1387501 original size:66 final size:66
Alignment explanation
Indices: 1387322--1387507 Score: 175
Period size: 66 Copynumber: 2.8 Consensus size: 66
1387312 GGTTAATGAA
* * * * *
1387322 GGCAAAA-TCGATAAACTCAACTAAGGGGGACTAGTGCAAAACCTAAGTCGAAAAAAATTAAACT
1 GGCAAAACT-GATAAAGTCAACTAAGGGTGACTAGGGCAGAACCTAAGTGGAAAAAAATTAAACT
1387386 AG
65 AG
* * * * * * * *
1387388 GGCAAAATTGATAAAGTTAGCTAAGGGTGACCAAGG-TGTAACATAAGTGGAAAAGGAATT-AAC
1 GGCAAAACTGATAAAGTCAACTAAGGGTGACTAGGGCAG-AACCTAAGTGGAAAA-AAATTAAAC
1387451 TAAG
64 T-AG
*
1387455 GG-AAAACTGATAAAGTCAACTAAAGGTGACTAGGGCAGAACCTAAGT-GAAAAA
1 GGCAAAACTGATAAAGTCAACTAAGGGTGACTAGGGCAGAACCTAAGTGGAAAAA
1387508 TGGGTTGAGT
Statistics
Matches: 94, Mismatches: 21, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
65 5 0.05
66 79 0.84
67 10 0.11
ACGTcount: A:0.46, C:0.13, G:0.24, T:0.18
Consensus pattern (66 bp):
GGCAAAACTGATAAAGTCAACTAAGGGTGACTAGGGCAGAACCTAAGTGGAAAAAAATTAAACTA
G
Found at i:1387646 original size:66 final size:66
Alignment explanation
Indices: 1387475--1387647 Score: 185
Period size: 66 Copynumber: 2.6 Consensus size: 66
1387465 TAAAGTCAAC
* * ** *
1387475 TAAAGGTGACTAGGGCAGAACCTAAG-TGAAAAATGGGTTGAGTAGGTTGAAGCCTTTAAAGTTA
1 TAAAGGTGACTAAGGCAGAACCTAAGTTGAAAAA-GGGTTGAGTAGGGTGAAGCCAATAAAGGTA
1387539 AA
65 AA
* * * *
1387541 TGAAGGTGACCAAGGCAGATCCTAAGTTG-AAAAGCGGTTG-GCTAGGGTGAAGCGAATAAAGGT
1 TAAAGGTGACTAAGGCAGAACCTAAGTTGAAAAAG-GGTTGAG-TAGGGTGAAGCCAATAAAGGT
1387604 AAA
64 AAA
1387607 -AAATGGTGACTAAGGTC-GAACCTAAGTTGAAAAAGGGTTGA
1 TAAA-GGTGACTAAGG-CAGAACCTAAGTTGAAAAAGGGTTGA
1387648 CAATGGTGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 13
0.78 0.11 0.12
Matches are distributed among these distances:
65 4 0.05
66 76 0.86
67 8 0.09
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (66 bp):
TAAAGGTGACTAAGGCAGAACCTAAGTTGAAAAAGGGTTGAGTAGGGTGAAGCCAATAAAGGTAA
A
Found at i:1387688 original size:66 final size:65
Alignment explanation
Indices: 1387612--1387813 Score: 180
Period size: 66 Copynumber: 3.1 Consensus size: 65
1387602 GTAAAAAATG
*
1387612 GTGACTAAGGTCGAACCTAAGTTGAAAAAGGGTTGACAATGGTGAAACTAATAAAGTCAACTAAG
1 GTGAATAAGGTCGAACCTAAGTTGAAAAAGGGTTGACAA-GGTGAAACTAATAAAGTCAACTAAG
1387677 -
65 A
* * * * * *
1387677 GCT-AATAAAGGT-GAAACTTAAGTCGAAAAGGGGTTGACTAGGGTAAAACTAATAAAGTCGACT
1 G-TGAAT-AAGGTCG-AACCTAAGTTGAAAAAGGGTTGAC-AAGGTGAAACTAATAAAGTCAACT
1387740 AAGA
62 AAGA
* * * **
1387744 GTGACTAAGG-CAAAACCTAAG-TAAAAAAGGTGTTGACCAAGGTGAAACCGATAAAGTCAACTA
1 GTGAATAAGGTC-GAACCTAAGTTGAAAAAGG-GTTGA-CAAGGTGAAACTAATAAAGTCAACTA
*
1387807 AAA
63 AGA
1387810 GTGA
1 GTGA
1387814 CTAGGGCGAA
Statistics
Matches: 108, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
65 10 0.09
66 93 0.86
67 5 0.05
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.20
Consensus pattern (65 bp):
GTGAATAAGGTCGAACCTAAGTTGAAAAAGGGTTGACAAGGTGAAACTAATAAAGTCAACTAAGA
Found at i:1387699 original size:132 final size:132
Alignment explanation
Indices: 1387563--1387807 Score: 293
Period size: 132 Copynumber: 1.9 Consensus size: 132
1387553 AGGCAGATCC
* * * * *
1387563 TAAGTTGAAAAGCGGTTGGCTAGGGTGAAGCGAATAAAGGT-AAAAAATG-GTGACTAAGGTC-G
1 TAAGTCGAAAAGCGGTTGACTAGGGTAAAACGAATAAA-GTCAAAAAA-GAGTGACTAAGG-CAA
* *
1387625 AACCTAAGTTGAAAAAGG-GTTGA-CAATGGTGAAACTAATAAAGTCAACTAAGGCTAATAAAGG
63 AACCTAAG-TAAAAAAGGTGTTGACCAA-GGTGAAACCAATAAAGTCAACTAAGGCTAATAAAGG
1387688 TGAAACT
126 TGAAACT
* * * **
1387695 TAAGTCGAAAAGGGGTTGACTAGGGTAAAACTAATAAAGTCGACTAAGAGTGACTAAGGCAAAAC
1 TAAGTCGAAAAGCGGTTGACTAGGGTAAAACGAATAAAGTCAAAAAAGAGTGACTAAGGCAAAAC
*
1387760 CTAAGTAAAAAAGGTGTTGACCAAGGTGAAACCGATAAAGTCAACTAA
66 CTAAGTAAAAAAGGTGTTGACCAAGGTGAAACCAATAAAGTCAACTAA
1387808 AAGTGACTAG
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
131 12 0.13
132 80 0.84
133 3 0.03
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.20
Consensus pattern (132 bp):
TAAGTCGAAAAGCGGTTGACTAGGGTAAAACGAATAAAGTCAAAAAAGAGTGACTAAGGCAAAAC
CTAAGTAAAAAAGGTGTTGACCAAGGTGAAACCAATAAAGTCAACTAAGGCTAATAAAGGTGAAA
CT
Found at i:1387814 original size:66 final size:66
Alignment explanation
Indices: 1387722--1387882 Score: 180
Period size: 66 Copynumber: 2.4 Consensus size: 66
1387712 GACTAGGGTA
* * * * *
1387722 AAACTAATAAAGTCGACTAAGAGTGACTAAGGCAAAACCTAAG-TAAAAAAGGTGTTGACCAAGG
1 AAACCAATAAAGTCAACTAAAAGTGACTAAGGCAAAACCTAAGCTAAAAAAGG-GTGGACCAAAG
1387786 TG
65 TG
* * * * *
1387788 AAACCGATAAAGTCAACTAAAAGTGACTAGGGCGAAACCTATGCTAAAAAAGGGTGGACCAAATT
1 AAACCAATAAAGTCAACTAAAAGTGACTAAGGCAAAACCTAAGCTAAAAAAGGGTGGACCAAAGT
1387853 G
66 G
* * * *
1387854 AAGCCAATAAACTCAACAAAAAGTAACTA
1 AAACCAATAAAGTCAACTAAAAGTGACTA
1387883 GGACGAAGCC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
66 70 0.89
67 9 0.11
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.17
Consensus pattern (66 bp):
AAACCAATAAAGTCAACTAAAAGTGACTAAGGCAAAACCTAAGCTAAAAAAGGGTGGACCAAAGT
G
Found at i:1387883 original size:66 final size:65
Alignment explanation
Indices: 1387747--1387906 Score: 176
Period size: 66 Copynumber: 2.4 Consensus size: 65
1387737 ACTAAGAGTG
* * * * * * * *
1387747 ACTAAGGCAAAACCTAAGTAAAAAAGGTGTTGACCAAGGTGAAACCGATAAAGTCAACTAAAAGT
1 ACTAGGGCGAAACCTATGTAAAAAAGG-GTGGACCAAAGTGAAACCAATAAACTCAACAAAAAGT
*
1387812 G
65 A
* *
1387813 ACTAGGGCGAAACCTATGCTAAAAAAGGGTGGACCAAATTGAAGCCAATAAACTCAACAAAAAGT
1 ACTAGGGCGAAACCTATG-TAAAAAAGGGTGGACCAAAGTGAAACCAATAAACTCAACAAAAAGT
1387878 A
65 A
* * *
1387879 ACTAGGACGAAGCCTATGTCAAAAAGGG
1 ACTAGGGCGAAACCTATGTAAAAAAGGG
1387907 GTGACAAAGG
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
65 9 0.11
66 61 0.77
67 9 0.11
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (65 bp):
ACTAGGGCGAAACCTATGTAAAAAAGGGTGGACCAAAGTGAAACCAATAAACTCAACAAAAAGTA
Found at i:1389327 original size:8 final size:8
Alignment explanation
Indices: 1389314--1389349 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
1389304 GAAACAAGTG
1389314 AAATAAAA
1 AAATAAAA
*
1389322 AAATAAAC
1 AAATAAAA
1389330 AAATAAAA
1 AAATAAAA
1389338 AACATAAAA
1 AA-ATAAAA
1389347 AAA
1 AAA
1389350 GAATGAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.83, C:0.06, G:0.00, T:0.11
Consensus pattern (8 bp):
AAATAAAA
Found at i:1389358 original size:25 final size:26
Alignment explanation
Indices: 1389316--1389367 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
1389306 AACAAGTGAA
*
1389316 ATAAAAAAATAAACAAATAA-AAAAC
1 ATAAAAAAAGAAACAAATAAGAAAAC
**
1389341 ATAAAAAAAGAATGAAATAAGAAAAC
1 ATAAAAAAAGAAACAAATAAGAAAAC
1389367 A
1 A
1389368 AATGCAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.12
Consensus pattern (26 bp):
ATAAAAAAAGAAACAAATAAGAAAAC
Found at i:1389371 original size:17 final size:17
Alignment explanation
Indices: 1389351--1389399 Score: 59
Period size: 18 Copynumber: 3.0 Consensus size: 17
1389341 ATAAAAAAAG
1389351 AATGAAATAAGAAAACA
1 AATGAAATAAGAAAACA
*
1389368 AATGCAAACAAGAAAA-A
1 AATG-AAATAAGAAAACA
1389385 AATG--ATAAGAAAACA
1 AATGAAATAAGAAAACA
1389400 TAAAGATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 8 0.29
15 1 0.04
17 9 0.32
18 10 0.36
ACGTcount: A:0.69, C:0.08, G:0.12, T:0.10
Consensus pattern (17 bp):
AATGAAATAAGAAAACA
Found at i:1389651 original size:11 final size:10
Alignment explanation
Indices: 1389638--1389681 Score: 54
Period size: 11 Copynumber: 4.2 Consensus size: 10
1389628 AAAAAAGAGG
1389638 AAAAAGAAAA
1 AAAAAGAAAA
1389648 GAAAAAGAAAA
1 -AAAAAGAAAA
1389659 AAACCAA-AAAA
1 AAA--AAGAAAA
1389670 AAAAAGAAAA
1 AAAAAGAAAA
1389680 AA
1 AA
1389682 TGAAGCTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 2 0.07
10 9 0.30
11 17 0.57
12 2 0.07
ACGTcount: A:0.86, C:0.05, G:0.09, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:1390137 original size:105 final size:105
Alignment explanation
Indices: 1389955--1390158 Score: 241
Period size: 105 Copynumber: 1.9 Consensus size: 105
1389945 GACTTGCAAG
* * * * * *
1389955 AACATTAAATTTGTCTGATTTTTAAAGAAATTCAGGTTTTATAAGATCTGATCCATTTGTGCCTA
1 AACATCAAATTTGACTAATTTTTAAAGAAATTCAGATTTTATAAGATCTGACCCATTTGTGCATA
1390020 GGAAAATAAGGCACATATCCTATCAATTTTGAAAGCCAAC
66 GGAAAATAAGGCACATATCCTATCAATTTTGAAAGCCAAC
* * * *
1390060 AACATCAAATTTGACTAATTTTCT-AAGGAATTCATATTTTATATGA-CTTGACCCATTTGTTCA
1 AACATCAAATTTGACTAATTTT-TAAAGAAATTCAGATTTTATAAGATC-TGACCCATTTGTGCA
* ** * *
1390123 TAGGAAAATCAGGCATGTATCCTATTAGTTTTGAAA
64 TAGGAAAATAAGGCACATATCCTATCAATTTTGAAA
1390159 ATTTTAAGCT
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
104 1 0.01
105 80 0.98
106 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (105 bp):
AACATCAAATTTGACTAATTTTTAAAGAAATTCAGATTTTATAAGATCTGACCCATTTGTGCATA
GGAAAATAAGGCACATATCCTATCAATTTTGAAAGCCAAC
Found at i:1391265 original size:90 final size:90
Alignment explanation
Indices: 1391112--1391290 Score: 286
Period size: 90 Copynumber: 2.0 Consensus size: 90
1391102 AAAGTTAACG
* **
1391112 TTTAGGTTTCTAGATTTATCTAGGCCTTTTAGTTGAGTCTTATTTTCACCTTTGTCATTGTTTAG
1 TTTAGGTTTCTAGATTTATCTAGGCCATTTAGTTGAGTCTTATTTTCACCTTACTCATTGTTTAG
* *
1391177 GTTTTTGGTTTTATCCAAGTCATTA
66 GTTTTTGGATTTATCCAAGCCATTA
* * *
1391202 TTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTTAGTCTTTTTTTCACCTTACTCATTGTTTAG
1 TTTAGGTTTCTAGATTTATCTAGGCCATTTAGTTGAGTCTTATTTTCACCTTACTCATTGTTTAG
1391267 GTTTTTGGATTTATCCAAGCCATT
66 GTTTTTGGATTTATCCAAGCCATT
1391291 TTGTTGAGTC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.52
Consensus pattern (90 bp):
TTTAGGTTTCTAGATTTATCTAGGCCATTTAGTTGAGTCTTATTTTCACCTTACTCATTGTTTAG
GTTTTTGGATTTATCCAAGCCATTA
Found at i:1391266 original size:60 final size:60
Alignment explanation
Indices: 1391181--1391530 Score: 253
Period size: 60 Copynumber: 5.8 Consensus size: 60
1391171 GTTTAGGTTT
*
1391181 TTGGTTTTATCC-AAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTTAGTC
1 TTGGTTTTA-CCTAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTAAGTC
* * * * * * * * * * *
1391241 TT-TTTTTCACCTTACTCATTGTTTAGGTTTTTGGATTTATCCAAGCCATTTTGTTGAGTC
1 TTGGTTTT-ACCTAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTAAGTC
* * * * * * **
1391301 TTGGTTTTGCCGAAGTCATTATTTAGGTTTTTGGTTTTATTTAGGTCATTTCCTTAAGTC
1 TTGGTTTTACCTAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTAAGTC
** * * * *
1391361 TTGGTTTTACCTAAGTCATTATTTAGGTTTCTAGTTTCGTCAAGGCCATTTTGCTGAGTC
1 TTGGTTTTACCTAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTAAGTC
* * * * * * * * *
1391421 TT-GTTTGTGCCCAAGTCATTATTTAGGTTT-TTGCTTTAGTCCAAGTCATTTTGTTGAGT-
1 TTGGTTT-TACCTAAGTCATTATTTAGGTTTCTAGTTTTA-TCTAGGCCATTTAGTTAAGTC
* * * * *
1391480 TATTGTTTTGCCTAAGTCATT-GTTAGGTTTCTAATTTTATCTAAGCCATTT
1 T-TGGTTTTACCTAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTT
1391531 CATTTAGAGT
Statistics
Matches: 227, Mismatches: 55, Indels: 17
0.76 0.18 0.06
Matches are distributed among these distances:
59 33 0.15
60 186 0.82
61 8 0.04
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (60 bp):
TTGGTTTTACCTAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTAAGTC
Found at i:1391349 original size:30 final size:30
Alignment explanation
Indices: 1391165--1391390 Score: 119
Period size: 30 Copynumber: 7.5 Consensus size: 30
1391155 TTTCACCTTT
*
1391165 GTCATTGTTTAGGTTTTTGGTTTTATCC-AA
1 GTCATTATTTAGGTTTTTGGTTTTA-CCTAA
* * * *
1391195 GTCATTATTTAGGTTTCTAGTTTTATCTAG
1 GTCATTATTTAGGTTTTTGGTTTTACCTAA
* * *
1391225 GCCATTTAGTTTA-GTCTTTT--TTTCACCTTA
1 GTCA-TTA-TTTAGGT-TTTTGGTTTTACCTAA
* * *
1391255 CTCATTGTTTAGGTTTTTGGATTTATCC-AA
1 GTCATTATTTAGGTTTTTGGTTTTA-CCTAA
* * * * *
1391285 GCCATT-TTGTTGAG-TCTTGGTTTTGCCGAA
1 GTCATTATT-TAG-GTTTTTGGTTTTACCTAA
** *
1391315 GTCATTATTTAGGTTTTTGGTTTTATTTAG
1 GTCATTATTTAGGTTTTTGGTTTTACCTAA
* *
1391345 GTCATT-TCCTTAAG-TCTTGGTTTTACCTAA
1 GTCATTAT--TTAGGTTTTTGGTTTTACCTAA
1391375 GTCATTATTTAGGTTT
1 GTCATTATTTAGGTTT
1391391 CTAGTTTCGT
Statistics
Matches: 141, Mismatches: 38, Indels: 34
0.66 0.18 0.16
Matches are distributed among these distances:
28 8 0.06
29 15 0.11
30 96 0.68
31 15 0.11
32 7 0.05
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.52
Consensus pattern (30 bp):
GTCATTATTTAGGTTTTTGGTTTTACCTAA
Found at i:1391451 original size:120 final size:120
Alignment explanation
Indices: 1391181--1391453 Score: 320
Period size: 120 Copynumber: 2.3 Consensus size: 120
1391171 GTTTAGGTTT
** * * * * *
1391181 TTGGTTTTATCCAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTTAGTCTTTTT
1 TTGGTTTTGCCCAAGTCATTATTTAGGTTTTTGGTTTTATCTAGGCCATTTACTTAAGTCTTGTT
* * * * *
1391246 TTCACCTTACTCATTGTTTAGGTTTTTGGATTTATCCAAGCCATTTTGTTGAGTC
66 TTCACCTAACTCATTATTTAGGTTTCTAGATTTATCCAAGCCATTTTGCTGAGTC
* * * *
1391301 TTGGTTTTGCCGAAGTCATTATTTAGGTTTTTGGTTTTATTTAGGTCATTTCCTTAAGTCTTGGT
1 TTGGTTTTGCCCAAGTCATTATTTAGGTTTTTGGTTTTATCTAGGCCATTTACTTAAGTCTT-GT
* *
1391366 TTT-ACCTAAGTCATTATTTAGGTTTCTAG-TTTCGT-CAAGGCCATTTTGCTGAGTC
65 TTTCACCTAACTCATTATTTAGGTTTCTAGATTT-ATCCAA-GCCATTTTGCTGAGTC
1391421 TT-GTTTGTGCCCAAGTCATTATTTAGGTTTTTG
1 TTGGTTT-TGCCCAAGTCATTATTTAGGTTTTTG
1391454 CTTTAGTCCA
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
119 10 0.08
120 116 0.89
121 4 0.03
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (120 bp):
TTGGTTTTGCCCAAGTCATTATTTAGGTTTTTGGTTTTATCTAGGCCATTTACTTAAGTCTTGTT
TTCACCTAACTCATTATTTAGGTTTCTAGATTTATCCAAGCCATTTTGCTGAGTC
Found at i:1391469 original size:120 final size:119
Alignment explanation
Indices: 1391285--1391512 Score: 291
Period size: 120 Copynumber: 1.9 Consensus size: 119
1391275 ATTTATCCAA
* * * ** *
1391285 GCCATTTTGTTGAGTCTTGGTTTTGCCGAAGTCATTATTTAGGTTTTTGGTTTTATTTAGGTCAT
1 GCCATTTTGCTGAGTCTTGGTTTTGCCCAAGTCATTATTTAGGTTTTTGGCTTTATCCAAGTCAT
*
1391350 TTCCTTAAGTCT-TGGTTTTACCTAAGTCATTATTTAGGTTTCTAGTTTCGTCAAG
66 TTCCTTAAGT-TATGGTTTTACCTAAGTCATT-GTTAGGTTTCTAGTTTCGTCAAG
1391405 GCCATTTTGCTGAGTCTT-GTTTGTGCCCAAGTCATTATTTAGGTTTTT-GCTTTAGTCCAAGTC
1 GCCATTTTGCTGAGTCTTGGTTT-TGCCCAAGTCATTATTTAGGTTTTTGGCTTTA-TCCAAGTC
** * * *
1391468 ATTTTGTTGAGTTATTGTTTTGCCTAAGTCATTGTTAGGTTTCTA
64 ATTTCCTTAAGTTATGGTTTTACCTAAGTCATTGTTAGGTTTCTA
1391513 ATTTTATCTA
Statistics
Matches: 93, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
119 21 0.23
120 72 0.77
ACGTcount: A:0.17, C:0.14, G:0.20, T:0.49
Consensus pattern (119 bp):
GCCATTTTGCTGAGTCTTGGTTTTGCCCAAGTCATTATTTAGGTTTTTGGCTTTATCCAAGTCAT
TTCCTTAAGTTATGGTTTTACCTAAGTCATTGTTAGGTTTCTAGTTTCGTCAAG
Found at i:1391490 original size:180 final size:179
Alignment explanation
Indices: 1391181--1391509 Score: 434
Period size: 180 Copynumber: 1.8 Consensus size: 179
1391171 GTTTAGGTTT
* * * *
1391181 TTGGTTTTATCCAAGTCATTATTTAGGTTTCTAGTTTTATCTAGGCCATTTAGTTTAGTCTTTTT
1 TTGGTTTTATCCAAGTCATTATTTAGGTTTCTAGTTTCATCAAGGCCATTTAGCTGAGTCTTTTT
* * *
1391246 TTCACCTTACTCATTGTTTAGGTTTTTGGATTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGC
66 TGCACCTAACTCATTATTTAGGTTTTTGGATTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGC
*
1391311 CGAAGTCATTATTTAGGTTTTTGGTTTTATTTAGGTCATTTCCTTAAGTC
131 CGAAGTCATT-GTTAGGTTTTTGGTTTTATTTAGGTCATTTCCTTAAGTC
* *
1391361 TTGGTTTTA-CCTAAGTCATTATTTAGGTTTCTAGTTTCGTCAAGGCCATTTTGCTGAGTCTTGT
1 TTGGTTTTATCC-AAGTCATTATTTAGGTTTCTAGTTTCATCAAGGCCATTTAGCTGAGTCTT-T
* * * *
1391425 TTGTGC-CC-AAGTCATTATTTAGGTTTTT-GCTTTAGTCCAAGTCATTTTGTTGAGT-TATTGT
64 TT-TGCACCTAACTCATTATTTAGGTTTTTGGATTTA-TCCAAGCCATTTTGTTGAGTCT-TGGT
*
1391486 TTTGCCTAAGTCATTGTTAGGTTT
126 TTTGCCGAAGTCATTGTTAGGTTT
1391510 CTAATTTTAT
Statistics
Matches: 129, Mismatches: 15, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
179 16 0.12
180 106 0.82
181 5 0.04
182 2 0.02
ACGTcount: A:0.18, C:0.14, G:0.19, T:0.50
Consensus pattern (179 bp):
TTGGTTTTATCCAAGTCATTATTTAGGTTTCTAGTTTCATCAAGGCCATTTAGCTGAGTCTTTTT
TGCACCTAACTCATTATTTAGGTTTTTGGATTTATCCAAGCCATTTTGTTGAGTCTTGGTTTTGC
CGAAGTCATTGTTAGGTTTTTGGTTTTATTTAGGTCATTTCCTTAAGTC
Found at i:1392528 original size:82 final size:81
Alignment explanation
Indices: 1392384--1392581 Score: 216
Period size: 82 Copynumber: 2.4 Consensus size: 81
1392374 GTTATTTCAC
* ** * *
1392384 CCCTCTAATTGGTTGACTTTATCAGTTTAACCTTAGTCAACCCTTCAAATCTATTAATTTTATCA
1 CCCTCTAATTGGTTGACTTTATTAGTTTTCCCTTAGTCAACCCTTCAAACCTATTAACTTTATCA
** *
1392449 GTTTTGCCCTAGCCAA
66 GTTTCACCATAGCCAA
* * * * * **
1392465 CTCCTCTAGTTGGTTGACTTTATTAGTTTTCCCTTGGTCAACCTTTCTAACCTCTTGGCTTTATC
1 C-CCTCTAATTGGTTGACTTTATTAGTTTTCCCTTAGTCAACCCTTCAAACCTATTAACTTTATC
* *
1392530 CGTTTCACTATAGCCAA
65 AGTTTCACCATAGCCAA
1392547 CCCTTCTAATTGGTTGACTTTATTAGTTTTGCCCT
1 CCC-TCTAATTGGTTGACTTTATTAGTTTT-CCCT
1392582 AACTTTATAG
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
81 3 0.03
82 89 0.93
83 4 0.04
ACGTcount: A:0.20, C:0.25, G:0.12, T:0.42
Consensus pattern (81 bp):
CCCTCTAATTGGTTGACTTTATTAGTTTTCCCTTAGTCAACCCTTCAAACCTATTAACTTTATCA
GTTTCACCATAGCCAA
Found at i:1392588 original size:20 final size:20
Alignment explanation
Indices: 1392563--1392619 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1392553 TAATTGGTTG
1392563 ACTTTATTAGTTTTGCCCTA
1 ACTTTATTAGTTTTGCCCTA
1392583 ACTTTA-TAGGTTTTGCCCTA
1 ACTTTATTA-GTTTTGCCCTA
* *
1392603 GCTTTATTAATTTTGCC
1 ACTTTATTAGTTTTGCC
1392620 TTGCCCACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.12, T:0.49
Consensus pattern (20 bp):
ACTTTATTAGTTTTGCCCTA
Found at i:1392769 original size:41 final size:41
Alignment explanation
Indices: 1392724--1392866 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 41
1392714 AATTGGTTGA
* * *
1392724 CTTTATCAATTTTGCCCTAGTCAACCTCTCAAACCTATTGG
1 CTTTATCGATTTTGCCCTAGTCAACCCCTTAAACCTATTGG
* * * * * *
1392765 CTTTAT-GTATTTTGCCTTAGGCATCCCCTTAAA-TTGGTTGA
1 CTTTATCG-ATTTTGCCCTAGTCAACCCCTTAAACCT-ATTGG
*
1392806 CTTTATCGATTTTGCCTTAGTCAACCCCTTAAACCTATTGG
1 CTTTATCGATTTTGCCCTAGTCAACCCCTTAAACCTATTGG
* *
1392847 TTTTATTGATTTTGCCCTAG
1 CTTTATCGATTTTGCCCTAG
1392867 CAAATCCAAT
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
40 1 0.01
41 78 0.96
42 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.42
Consensus pattern (41 bp):
CTTTATCGATTTTGCCCTAGTCAACCCCTTAAACCTATTGG
Done.