Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 191 of 226
Found at i:60886717 original size:28 final size:28
Alignment explanation
Indices: 60886680--60886765 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
60886670 GACAGTTAAG
* *
60886680 ATAACCTTTGTGGAGAACTCTGAAAATA
1 ATAACATTTGTGGAGAACTCTGAAAAAA
* * **
60886708 ATAACATTTGTGGTGAACTGTGAAAGGA
1 ATAACATTTGTGGAGAACTCTGAAAAAA
* *
60886736 ATAACATGTGTGGAAAACTCT-AAAAAA
1 ATAACATTTGTGGAGAACTCTGAAAAAA
60886763 ATA
1 ATA
60886766 GCTTGTGTGG
Statistics
Matches: 47, Mismatches: 11, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
27 7 0.15
28 40 0.85
ACGTcount: A:0.43, C:0.10, G:0.20, T:0.27
Consensus pattern (28 bp):
ATAACATTTGTGGAGAACTCTGAAAAAA
Found at i:60889562 original size:50 final size:50
Alignment explanation
Indices: 60889498--60889600 Score: 152
Period size: 50 Copynumber: 2.1 Consensus size: 50
60889488 AGTCTTTCCC
* *
60889498 TTAGTAAGAGCTTCTTTAAGAATAGAAGAAATGTCCATGTCCGGGGGATG
1 TTAGTAAGAACTTCTTTAAGAATAGAAGAAATGTCAATGTCCGGGGGATG
* * * *
60889548 TTAGTAAGAACTTCTTTGAGAGTGGAAGAAATGTCAATGTCTGGGGGATG
1 TTAGTAAGAACTTCTTTAAGAATAGAAGAAATGTCAATGTCCGGGGGATG
60889598 TTA
1 TTA
60889601 ATCTGATGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (50 bp):
TTAGTAAGAACTTCTTTAAGAATAGAAGAAATGTCAATGTCCGGGGGATG
Found at i:60891627 original size:31 final size:32
Alignment explanation
Indices: 60891571--60891633 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
60891561 AAATTACTAG
60891571 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
60891603 AGTAATTGAATCCTAAT-AAAACTCTTTAAAA
1 AGTAATTGAATCCTAATAAAAACTCTTTAAAA
60891634 TTATCTAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (32 bp):
AGTAATTGAATCCTAATAAAAACTCTTTAAAA
Found at i:60900008 original size:28 final size:28
Alignment explanation
Indices: 60899977--60900096 Score: 89
Period size: 28 Copynumber: 4.3 Consensus size: 28
60899967 CGTTTTGGAT
* *
60899977 AACTCTGAAAAGAATAACCTTTGTGGCG
1 AACTCTGAAAGGAATAACCTTTGTGGCA
* * * * *
60900005 AACTGTGAAAGGAATGACATGTGTGGAA
1 AACTCTGAAAGGAATAACCTTTGTGGCA
* * * *
60900033 AAATTTCAAAGGAATAACCTTTGTGGCG
1 AACTCTGAAAGGAATAACCTTTGTGGCA
* * * *
60900061 ACCTTTGAAAGGGAT-GCCTTTGTGGCA
1 AACTCTGAAAGGAATAACCTTTGTGGCA
*
60900088 AATTCTGAA
1 AACTCTGAA
60900097 TTGATCATCT
Statistics
Matches: 68, Mismatches: 24, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
27 16 0.24
28 52 0.76
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (28 bp):
AACTCTGAAAGGAATAACCTTTGTGGCA
Found at i:60903059 original size:13 final size:14
Alignment explanation
Indices: 60903029--60903083 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
60903019 CTCAAAAAAT
60903029 TATAAAAAATCAATA
1 TATAAAAAAT-AATA
60903044 TATAAAAAATATATA
1 TATAAAAAATA-ATA
**
60903059 TTATTGAAAATAATA
1 -TATAAAAAATAATA
60903074 TATATAAAAA
1 TATA-AAAAA
60903084 ACTAACCCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 4 0.12
15 20 0.61
16 9 0.27
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
TATAAAAAATAATA
Found at i:60915476 original size:33 final size:33
Alignment explanation
Indices: 60915446--60915552 Score: 169
Period size: 33 Copynumber: 3.2 Consensus size: 33
60915436 GCCAATCCTT
* **
60915446 CCAACACATCAATGCTTATAAGATTTAATCCAA
1 CCAACACATCAATGCTCATAAGAGCTAATCCAA
*
60915479 CCAACACACCAATGCTCATAAGAGCTAATCCAA
1 CCAACACATCAATGCTCATAAGAGCTAATCCAA
*
60915512 CCAACACATCAATGCCCATAAGAGCTAATCCAA
1 CCAACACATCAATGCTCATAAGAGCTAATCCAA
60915545 CCAACACA
1 CCAACACA
60915553 CCAAACAGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.43, C:0.32, G:0.07, T:0.18
Consensus pattern (33 bp):
CCAACACATCAATGCTCATAAGAGCTAATCCAA
Found at i:60915516 original size:66 final size:66
Alignment explanation
Indices: 60915407--60915556 Score: 194
Period size: 66 Copynumber: 2.3 Consensus size: 66
60915397 ACATTGTTAG
* ** ** **
60915407 TCCAACCAACTCACCAGATGCTCACACAAGCCAATCCTTCCAACACATCAATGCTTATAAGATTT
1 TCCAACCAACACACCA-ATGCTCACACAAGCCAATCCAACCAACACATCAATGCCCATAAGAGCT
60915472 AA
65 AA
* *
60915474 TCCAACCAACACACCAATGCTCATA-AGAGCTAATCCAACCAACACATCAATGCCCATAAGAGCT
1 TCCAACCAACACACCAATGCTCACACA-AGCCAATCCAACCAACACATCAATGCCCATAAGAGCT
60915538 AA
65 AA
60915540 TCCAACCAACACACCAA
1 TCCAACCAACACACCAA
60915557 ACAGAGAGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
65 1 0.01
66 57 0.78
67 15 0.21
ACGTcount: A:0.41, C:0.35, G:0.07, T:0.17
Consensus pattern (66 bp):
TCCAACCAACACACCAATGCTCACACAAGCCAATCCAACCAACACATCAATGCCCATAAGAGCTA
A
Found at i:60917698 original size:13 final size:13
Alignment explanation
Indices: 60917680--60917711 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
60917670 ACGGCCTGGC
60917680 ACACGGGAGTGTG
1 ACACGGGAGTGTG
*
60917693 ACACGGGTGTGTG
1 ACACGGGAGTGTG
60917706 ACACGG
1 ACACGG
60917712 CCATGCGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.19, G:0.44, T:0.16
Consensus pattern (13 bp):
ACACGGGAGTGTG
Found at i:60919792 original size:20 final size:20
Alignment explanation
Indices: 60919767--60919804 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
60919757 TTTTATGGGC
*
60919767 TTAGGCCGTAATGGGCCACG
1 TTAGGCCGAAATGGGCCACG
60919787 TTAGGCCGAAATGGGCCA
1 TTAGGCCGAAATGGGCCA
60919805 TGTGAGCTCA
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:0.24, C:0.24, G:0.34, T:0.18
Consensus pattern (20 bp):
TTAGGCCGAAATGGGCCACG
Found at i:60928431 original size:43 final size:43
Alignment explanation
Indices: 60928383--60928470 Score: 149
Period size: 43 Copynumber: 2.0 Consensus size: 43
60928373 CCTGAGACAT
60928383 GGCCGTCTGACTCAACCATGTAAGACACACGGCCTGGCAACAC
1 GGCCGTCTGACTCAACCATGTAAGACACACGGCCTGGCAACAC
* * *
60928426 GGCCGTGTGACTCAACCGTGTGAGACACACGGCCTGGCAACAC
1 GGCCGTCTGACTCAACCATGTAAGACACACGGCCTGGCAACAC
60928469 GG
1 GG
60928471 TCATGTGTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.25, C:0.33, G:0.28, T:0.14
Consensus pattern (43 bp):
GGCCGTCTGACTCAACCATGTAAGACACACGGCCTGGCAACAC
Found at i:60943526 original size:16 final size:15
Alignment explanation
Indices: 60943499--60943532 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
60943489 ATAACTAGTA
*
60943499 TATAATTATATTTAT
1 TATAATTATATTAAT
60943514 TATAATATATATTAAT
1 TATAAT-TATATTAAT
60943530 TAT
1 TAT
60943533 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:60950345 original size:50 final size:50
Alignment explanation
Indices: 60950221--60950462 Score: 218
Period size: 50 Copynumber: 4.7 Consensus size: 50
60950211 GATAATAACA
* * ** * * *
60950221 TGCCAAAGCCATATCCCAGACATGGTCTTACATGGGAAGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
60950270 TACCAATGCCATATCCCAGATATGGTCTTGCATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
60950320 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
60950370 TGCCAACGCCATGTCCCATACATGGTCTTAAATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
60950426 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
60950463 TCTACTTACC
Statistics
Matches: 155, Mismatches: 30, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 38 0.25
50 79 0.51
53 2 0.01
56 35 0.23
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:60956144 original size:27 final size:27
Alignment explanation
Indices: 60956122--60956323 Score: 164
Period size: 27 Copynumber: 7.5 Consensus size: 27
60956112 TTGCCATAAG
*
60956122 GGCTTCCTTTACATGGTTAGCCACATAA
1 GGCTTCCTTTACATGGATAGCCACA-AA
* *
60956150 -GCTTCCTTTACATAGATAGCCACGAA
1 GGCTTCCTTTACATGGATAGCCACAAA
*
60956176 GGCCTT-TTTTACATAGG-TAGCCACAAA
1 GG-CTTCCTTTACAT-GGATAGCCACAAA
* *
60956203 GGCTTACTTTGCATGGATAGCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
** * * *
60956230 GGCTTATTTTACAAGGGTACCCACAAA
1 GGCTTCCTTTACATGGATAGCCACAAA
* *
60956257 TGCTTCCTTTTA-ATAGATAGCCACAAA
1 GGCTTCC-TTTACATGGATAGCCACAAA
* *
60956284 GGC-T-CTAATTACATAGATTGCCACAAA
1 GGCTTCCT--TTACATGGATAGCCACAAA
*
60956311 GTCTTCCTTTACA
1 GGCTTCCTTTACA
60956324 AAGGTTTTTC
Statistics
Matches: 140, Mismatches: 23, Indels: 23
0.75 0.12 0.12
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 11 0.08
27 116 0.83
28 9 0.06
29 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (27 bp):
GGCTTCCTTTACATGGATAGCCACAAA
Found at i:60956187 original size:54 final size:54
Alignment explanation
Indices: 60956129--60956323 Score: 186
Period size: 54 Copynumber: 3.6 Consensus size: 54
60956119 AAGGGCTTCC
*
60956129 TTTACATGGTTAGCCACATAA-GCTTCCTTTACATAGATAGCCACGAAGGCCTT-T
1 TTTACATGG-TAGCCACA-AAGGCTTCCTTTACATAGATAGCCACAAAGGCCTTAT
* * *
60956183 TTTACATAGGTAGCCACAAAGGCTTACTTTGCATGGATAGCCACAAAGG-CTTAT
1 TTTACAT-GGTAGCCACAAAGGCTTCCTTTACATAGATAGCCACAAAGGCCTTAT
* * *
60956237 TTTACAAGGGTACCCACAAATGCTTCCTTTTA-ATAGATAGCCACAAAGG-CTCTA-
1 TTTAC-ATGGTAGCCACAAAGGCTTCC-TTTACATAGATAGCCACAAAGGCCT-TAT
* * * *
60956291 ATTACATAGATTGCCACAAAGTCTTCCTTTACA
1 TTTACAT-GGTAGCCACAAAGGCTTCCTTTACA
60956324 AAGGTTTTTC
Statistics
Matches: 116, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
53 10 0.09
54 98 0.84
55 8 0.07
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (54 bp):
TTTACATGGTAGCCACAAAGGCTTCCTTTACATAGATAGCCACAAAGGCCTTAT
Found at i:60963991 original size:5 final size:5
Alignment explanation
Indices: 60963981--60964017 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
60963971 TTTTTAGAAT
*
60963981 AATAA AATAA AATAA CATAA AATAA AAT-A AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AAT
60964018 TCAAGAGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
4 4 0.14
5 25 0.86
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:60964002 original size:15 final size:14
Alignment explanation
Indices: 60963981--60964017 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
60963971 TTTTTAGAAT
60963981 AATAAAATAAAATA
1 AATAAAATAAAATA
60963995 ACATAAAATAAAATA
1 A-ATAAAATAAAATA
60964010 AATAAAAT
1 AATAAAAT
60964018 TCAAGAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AATAAAATAAAATA
Found at i:60969649 original size:18 final size:19
Alignment explanation
Indices: 60969615--60969657 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
60969605 TTAAACTAAG
60969615 TTAAATAAAACTAAAAAAA
1 TTAAATAAAACTAAAAAAA
*
60969634 TTAAGTAAAA-TAAAAAAA
1 TTAAATAAAACTAAAAAAA
*
60969652 TCAAAT
1 TTAAAT
60969658 TTCACCAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (19 bp):
TTAAATAAAACTAAAAAAA
Found at i:60978468 original size:21 final size:21
Alignment explanation
Indices: 60978444--60978484 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60978434 CAAAGTATTG
60978444 ATATCTTTGTAATAAGTATCA
1 ATATCTTTGTAATAAGTATCA
* * *
60978465 ATATTTTTGTATTCAGTATC
1 ATATCTTTGTAATAAGTATC
60978485 GATACCAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (21 bp):
ATATCTTTGTAATAAGTATCA
Found at i:60979539 original size:165 final size:165
Alignment explanation
Indices: 60979220--60979548 Score: 466
Period size: 164 Copynumber: 2.0 Consensus size: 165
60979210 CTAATTCCAA
* *
60979220 AAAACGAGACCTACAAGAAAAAAAGAAAAACAGCACGAGCAAGCTTTTACGAGTTTAGTAAGTTC
1 AAAACGAGACCTACAAGAAAAAAAGAAAAACAGCACGAGCAAGCTTTTACAAGCTTAGTAAGTTC
* * *
60979285 ACAGGTTGAAACGTTATAACTTATCGTATAATCATATATTTATAATTAAGAAAATCAGTAGCTAA
66 ACAAGTTGAAACGTTATAACTTATCGTATAATCAAATATTTATAATTAAGAAAATCAATAGCTAA
*
60979350 CATTAACCCTATCAACCACAACCATTCAACAGGTC
131 CATTAACCCTATCAACCACAACCATCCAACAGGTC
* * * * * *
60979385 AAAATGAGATCTACAAGAAAAAAGGAAAATA-A-CATGAGTAAGCTTTTACAAGCTTAGTATGTT
1 AAAACGAGACCTACAAGAAAAAAAGAAAA-ACAGCACGAGCAAGCTTTTACAAGCTTAGTAAGTT
*
60979448 CACAAGTTGAAATGTTATAACTTATCGTATAATCAAA-ATTTTATAATTAAGAAAAATCAATAGC
65 CACAAGTTGAAACGTTATAACTTATCGTATAATCAAATA-TTTATAATTAAG-AAAATCAATAGC
* * *
60979512 TAACATTAACCCTGTCAACCGCAACCATCCAATAGGT
128 TAACATTAACCCTATCAACCACAACCATCCAACAGGT
60979549 GAGTTTTGAA
Statistics
Matches: 145, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
163 1 0.01
164 72 0.50
165 71 0.49
166 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (165 bp):
AAAACGAGACCTACAAGAAAAAAAGAAAAACAGCACGAGCAAGCTTTTACAAGCTTAGTAAGTTC
ACAAGTTGAAACGTTATAACTTATCGTATAATCAAATATTTATAATTAAGAAAATCAATAGCTAA
CATTAACCCTATCAACCACAACCATCCAACAGGTC
Found at i:60989564 original size:13 final size:13
Alignment explanation
Indices: 60989548--60989573 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
60989538 CTTTGCATAT
60989548 TGTCTTCAACAGG
1 TGTCTTCAACAGG
60989561 TGTCTTCAACAGG
1 TGTCTTCAACAGG
60989574 CTCGCACTTT
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:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:60992358 original size:24 final size:26
Alignment explanation
Indices: 60992334--60992383 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
60992324 ACAACGCATT
60992334 AATTAAAAATATT-TTTAAATAATTAA
1 AATTAAAAATATTATTTAAATAATT-A
*
60992360 AATTAAAAATATTATTTTAATAAT
1 AATTAAAAATATTATTTAAATAAT
60992384 ATTACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
AATTAAAAATATTATTTAAATAATTA
Found at i:60992525 original size:16 final size:16
Alignment explanation
Indices: 60992504--60992534 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60992494 GTTATTATGA
60992504 TTGATTAAAAAACAAC
1 TTGATTAAAAAACAAC
60992520 TTGATTAAAAAACAA
1 TTGATTAAAAAACAA
60992535 GTATTTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.10, G:0.06, T:0.26
Consensus pattern (16 bp):
TTGATTAAAAAACAAC
Found at i:60992788 original size:120 final size:120
Alignment explanation
Indices: 60992662--60993079 Score: 714
Period size: 120 Copynumber: 3.5 Consensus size: 120
60992652 TAATTATTTT
* *
60992662 GAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATT
1 GAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATT
*
60992726 TTATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAA
65 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
* *
60992782 GAATTTTATTAAATTATATATTTTAATTAAAATATTTTTAATAATAATTATGTTAAATTATCTTT
1 GAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
* *
60992847 TATA-TATCATATATTGTGATTTGAGTAAATTCATATAAGAATATTAATTATTAA
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
*
60992901 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTT
1 GAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
*
60992966 TATAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAA
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
*
60993021 GAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 GAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
60993080 ATGATTAAAT
Statistics
Matches: 282, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
119 113 0.40
120 161 0.57
121 8 0.03
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
GAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAA
Found at i:60992937 original size:16 final size:16
Alignment explanation
Indices: 60992916--60992962 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
60992906 TTATTAAATT
60992916 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
60992932 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
60992947 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
60992963 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:60993057 original size:16 final size:16
Alignment explanation
Indices: 60993036--60993077 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
60993026 TTATTAAATT
*
60993036 ATATATTTTAATTATA
1 ATATATTTTAATAATA
60993052 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
60993067 AT-TATGTTTAA
1 ATATAT-TTTAA
60993078 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:60993062 original size:15 final size:15
Alignment explanation
Indices: 60993027--60993068 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
60993017 TTAAGAATTT
*
60993027 TATTAAATTAT-ATA
1 TATTTAATTATAATA
60993041 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
60993055 TATTTAATAATAAT
1 TATTTAATTATAAT
60993069 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:60993333 original size:16 final size:16
Alignment explanation
Indices: 60993290--60993342 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
60993280 TTGATTTGTT
*
60993290 ATTACGCCTCTATTAC
1 ATTACGCCTCTATTCC
* *
60993306 ATTACACTTCTATTCC
1 ATTACGCCTCTATTCC
*
60993322 ATTACGCCTCTATTCT
1 ATTACGCCTCTATTCC
60993338 ATTAC
1 ATTAC
60993343 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.25, C:0.30, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:60996141 original size:19 final size:20
Alignment explanation
Indices: 60996117--60996160 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
60996107 TTTCTGCTTC
60996117 TTCTTCTC-GTACGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
*
60996136 TTCTTCTCTTTACGTTTCTT
1 TTCTTCTCTGTACGTTTCTT
60996156 TTCTT
1 TTCTT
60996161 TTCTCCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.05, C:0.25, G:0.07, T:0.64
Consensus pattern (20 bp):
TTCTTCTCTGTACGTTTCTT
Found at i:60997711 original size:3 final size:3
Alignment explanation
Indices: 60997703--60997749 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
60997693 CATGATCAAG
60997703 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
60997750 TAATAATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:60997974 original size:23 final size:22
Alignment explanation
Indices: 60997934--60997977 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
60997924 AAATTATAAA
*
60997934 ATATAAGAATATATATATGTAC
1 ATATAAGAAAATATATATGTAC
60997956 ATATAAGAAAAATATATATGTA
1 ATATAAG-AAAATATATATGTA
60997978 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.55, C:0.02, G:0.09, T:0.34
Consensus pattern (22 bp):
ATATAAGAAAATATATATGTAC
Found at i:60998689 original size:22 final size:23
Alignment explanation
Indices: 60998656--60998701 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
60998646 AGATTAAAGG
60998656 ATATCTACAAATTAAATC-TCTA
1 ATATCTACAAATTAAATCTTCTA
*
60998678 ATAT-TACAAAATTATATCTTCTA
1 ATATCTAC-AAATTAAATCTTCTA
60998701 A
1 A
60998702 GATTGCATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 13 0.62
23 5 0.24
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATCTACAAATTAAATCTTCTA
Found at i:60998716 original size:22 final size:22
Alignment explanation
Indices: 60998691--60998734 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
60998681 TTACAAAATT
60998691 ATATCTTCTAAGATTGCATATC
1 ATATCTTCTAAGATTGCATATC
60998713 ATATCTTCTAAGATTGCATATC
1 ATATCTTCTAAGATTGCATATC
60998735 CTTGAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (22 bp):
ATATCTTCTAAGATTGCATATC
Found at i:61005000 original size:17 final size:18
Alignment explanation
Indices: 61004975--61005020 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
61004965 TATAAGAATA
*
61004975 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
61004992 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
61005010 ATTAAATTATA
1 ATTAAATTATA
61005021 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:61005275 original size:16 final size:16
Alignment explanation
Indices: 61005254--61005291 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
61005244 TTGAATTACT
61005254 ATTACAACTCTATTCC
1 ATTACAACTCTATTCC
* *
61005270 ATTACACCTTTATTCC
1 ATTACAACTCTATTCC
61005286 ATTACA
1 ATTACA
61005292 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (16 bp):
ATTACAACTCTATTCC
Found at i:61007372 original size:33 final size:33
Alignment explanation
Indices: 61007330--61007411 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
61007320 TTTTCAGAAC
61007330 CAACATGTTTGAAAGGGTGAGCAGGCTTCCCTG
1 CAACATGTTTGAAAGGGTGAGCAGGCTTCCCTG
61007363 CAACATGTTTGAAAGGGTGAGCAGGCTTCCCTG
1 CAACATGTTTGAAAGGGTGAGCAGGCTTCCCTG
61007396 CAACATGTTTGAAAGG
1 CAACATGTTTGAAAGG
61007412 ATAAGATTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (33 bp):
CAACATGTTTGAAAGGGTGAGCAGGCTTCCCTG
Found at i:61009205 original size:19 final size:20
Alignment explanation
Indices: 61009170--61009215 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
61009160 CAGAAAATGA
*
61009170 TTTCTGGAAAATAATTTATT
1 TTTCTGGAAAATAATTTACT
*
61009190 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATAATTTACT
61009209 TTTCTGG
1 TTTCTGG
61009216 TGTTTGGATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACT
Found at i:61009551 original size:4 final size:4
Alignment explanation
Indices: 61009542--61009580 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
61009532 ATAGACTTTT
61009542 ACTA ACTA ACTA ACTA ACTA ACTA ACTA ACTA ACTA ACT
1 ACTA ACTA ACTA ACTA ACTA ACTA ACTA ACTA ACTA ACT
61009581 TATATATAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
ACTA
Found at i:61017698 original size:17 final size:18
Alignment explanation
Indices: 61017665--61017698 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61017655 TATTATTAAG
*
61017665 TATATTTTAATTAAAATA
1 TATAATTTAATTAAAATA
61017683 TATAATTTAA-TAAAAT
1 TATAATTTAATTAAAAT
61017699 TCTTAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAATTTAATTAAAATA
Found at i:61017710 original size:15 final size:16
Alignment explanation
Indices: 61017690--61017719 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61017680 ATATATAATT
61017690 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
61017705 TAATAAATATTCTTA
1 TAATAAATATTCTTA
61017720 TATGAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:61017783 original size:15 final size:16
Alignment explanation
Indices: 61017759--61017805 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
61017749 TACTATAAAA
61017759 TATAATTTAAAATA-AT
1 TATAA-TTAAAATATAT
*
61017775 TATGATT-AAATATAT
1 TATAATTAAAATATAT
*
61017790 TTTAATTAAAATATAT
1 TATAATTAAAATATAT
61017806 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 5 0.19
15 9 0.35
16 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:61017803 original size:16 final size:16
Alignment explanation
Indices: 61017765--61017818 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
61017755 AAAATATAAT
* *
61017765 TTAAAATA-ATTATGA
1 TTAAAATATATTTTAA
61017780 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
61017795 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
61017813 -TAAAAT
1 TTAAAAT
61017819 TCTTAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 5 0.15
15 9 0.27
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:61017811 original size:18 final size:17
Alignment explanation
Indices: 61017784--61017818 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61017774 TTATGATTAA
*
61017784 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
61017802 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
61017819 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:61017830 original size:15 final size:16
Alignment explanation
Indices: 61017810--61017839 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61017800 ATATATAATT
61017810 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
61017825 TAATAAATATTCTTA
1 TAATAAATATTCTTA
61017840 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:61017857 original size:120 final size:120
Alignment explanation
Indices: 61017644--61018033 Score: 735
Period size: 120 Copynumber: 3.2 Consensus size: 120
61017634 TTAATCATAT
* *
61017644 TTTAACATAATTATTATTAAGTATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
61017709 AAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
61017764 TTTAAAATAATTATGATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
*
61017829 AAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
61017884 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
61017949 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
66 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
61018004 TTTAAAATAATTATTATTAAATATATTTTA
1 TTTAAAATAATTATTATTAAATATATTTTA
61018034 TAATCTACTT
Statistics
Matches: 263, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 263 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAAAATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:61017923 original size:16 final size:16
Alignment explanation
Indices: 61017885--61017938 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
61017875 AAAATATAAT
61017885 TTAAAATA-ATTATT-A
1 TTAAAATATATT-TTAA
61017900 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
61017915 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
61017933 -TAAAAT
1 TTAAAAT
61017939 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 8 0.24
17 6 0.18
18 5 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:61017925 original size:18 final size:17
Alignment explanation
Indices: 61017904--61017938 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
61017894 TTATTATTAA
*
61017904 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
61017922 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
61017939 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:61017950 original size:15 final size:16
Alignment explanation
Indices: 61017930--61017959 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61017920 ATATATAATT
61017930 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
61017945 TAATAAATATTCTTA
1 TAATAAATATTCTTA
61017960 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:61017997 original size:61 final size:60
Alignment explanation
Indices: 61017679--61017999 Score: 272
Period size: 61 Copynumber: 5.3 Consensus size: 60
61017669 TTTTAATTAA
*
61017679 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATAATAAATATTCTTATATGAA-TTTCTAAAATCAT
* * ** * * *
61017740 AATATATAATACT-ATAAAATATAATTTAA-AATAATTATGATTAAAT-ATATTT-T--AATTAA
1 AATATATAAT-CTAATAAAAT-T--CTTAATAATAAATATTCTTATATGA-ATTTCTAAAATCAT
*
61017799 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATAATAAATATTCTTATATGAATTT-CTAAAATCAT
* * * * * * *
61017860 AATATATGATACT-ATAAAATATAATTTAA-AATAATTATTATTAAAT-ATATTT-T--AATTAA
1 AATATATAAT-CTAATAAAAT-T--CTTAATAATAAATATTCTTATATGA-ATTTCTAAAATCAT
*
61017919 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATAATAAATATTCTTATATGAATTT-CTAAAATCAT
61017980 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
61018000 ATAATTTAAA
Statistics
Matches: 202, Mismatches: 33, Indels: 50
0.71 0.12 0.18
Matches are distributed among these distances:
56 8 0.04
57 35 0.17
58 6 0.03
59 43 0.21
61 60 0.30
62 10 0.05
63 32 0.16
64 8 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
AATATATAATCTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTCTAAAATCAT
Found at i:61019566 original size:49 final size:49
Alignment explanation
Indices: 61019500--61019599 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
61019490 AAAAATAAAC
* * **
61019500 TAAAATTAAGTTTAATATCATGAATCAAAAGGTGGACACTTTATAAAAT
1 TAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATAAAAT
61019549 TAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATAAAAT
1 TAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATAAAAT
61019598 TA
1 TA
61019600 TAACACATGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (49 bp):
TAAAATTAAGTTCAATATCATGAATCAAAAGCTCAACACTTTATAAAAT
Found at i:61020004 original size:28 final size:28
Alignment explanation
Indices: 61019964--61020020 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
61019954 GATAGAATGA
61019964 TGGACTCCTAAGTATTCCCCATCTAAGT
1 TGGACTCCTAAGTATTCCCCATCTAAGT
61019992 TGGACTCCTAAGTATTCCCCATCTAAGT
1 TGGACTCCTAAGTATTCCCCATCTAAGT
61020020 T
1 T
61020021 TTAATAACCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (28 bp):
TGGACTCCTAAGTATTCCCCATCTAAGT
Found at i:61021315 original size:30 final size:30
Alignment explanation
Indices: 61021281--61021352 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
61021271 AACTGTGAGT
61021281 AGAGGAAACAATCGAACAAGCCAAAGAAGA
1 AGAGGAAACAATCGAACAAGCCAAAGAAGA
61021311 AGAGGAAACAATCGAACAAGCCAAAGAAGA
1 AGAGGAAACAATCGAACAAGCCAAAGAAGA
*
61021341 AGAGGAAGCAAT
1 AGAGGAAACAAT
61021353 AACACACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.56, C:0.15, G:0.25, T:0.04
Consensus pattern (30 bp):
AGAGGAAACAATCGAACAAGCCAAAGAAGA
Found at i:61021658 original size:21 final size:20
Alignment explanation
Indices: 61021623--61021870 Score: 74
Period size: 19 Copynumber: 12.1 Consensus size: 20
61021613 TTTTACTTTC
* *
61021623 TTTTTTAGTGATAATTATAA
1 TTTTTTAATGTTAATTATAA
61021643 TTTTTGTAATGTTAATTATAA
1 TTTTT-TAATGTTAATTATAA
* *
61021664 TTGTTGTAGCAT-TTGA-T-TAA
1 TT-TTTTA--ATGTTAATTATAA
*
61021684 -TTTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
* *
61021703 -ATTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
*
61021722 --TTATAATTGTTGTAGCATTTGATTAA
1 TTTTTTAA-TG-T-TA--A-TT-A-TAA
*
61021748 -TTTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
*
61021767 -TTTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
*
61021786 --TTATAATGTTTGTAGCATTTGATTAA
1 TTTTTTAATG--T-TA--A-TT-A-TAA
*
61021812 -TTTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
* *
61021831 -ATTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
* *
61021850 -ATTTTAGTGTTAATTATAA
1 TTTTTTAATGTTAATTATAA
61021869 TT
1 TT
61021871 ATAATGTTTG
Statistics
Matches: 184, Mismatches: 18, Indels: 52
0.72 0.07 0.20
Matches are distributed among these distances:
16 1 0.01
17 3 0.02
18 15 0.08
19 86 0.47
20 12 0.07
21 26 0.14
22 7 0.04
23 4 0.02
24 8 0.04
25 4 0.02
26 8 0.04
27 10 0.05
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (20 bp):
TTTTTTAATGTTAATTATAA
Found at i:61021709 original size:19 final size:19
Alignment explanation
Indices: 61021685--61021868 Score: 147
Period size: 19 Copynumber: 8.9 Consensus size: 19
61021675 TTTGATTAAT
61021685 TTTTAGTGTTAATTATAAA
1 TTTTAGTGTTAATTATAAA
61021704 TTTTAGTGTTAATTAT-AA
1 TTTTAGTGTTAATTATAAA
* * *
61021722 TTATAATTGTTGTAGCATTTGATTAAT
1 TT-TTAGTG-T-TA--A-TT-A-TAAA
*
61021749 TTTTAGTGTTAATTATAAT
1 TTTTAGTGTTAATTATAAA
61021768 TTTTAGTGTTAATTAT-AA
1 TTTTAGTGTTAATTATAAA
* * *
61021786 TTATAATGTTTGTAGCATTTGATTAAT
1 TT-TTA-GTGT-TA--A-TT-A-TAAA
61021813 TTTTAGTGTTAATTATAAA
1 TTTTAGTGTTAATTATAAA
61021832 TTTTAGTGTTAATTATAAA
1 TTTTAGTGTTAATTATAAA
61021851 TTTTAGTGTTAATTATAA
1 TTTTAGTGTTAATTATAA
61021869 TTATAATGTT
Statistics
Matches: 135, Mismatches: 12, Indels: 36
0.74 0.07 0.20
Matches are distributed among these distances:
18 7 0.05
19 82 0.61
20 6 0.04
21 8 0.06
22 2 0.01
23 2 0.01
24 8 0.06
25 6 0.04
26 8 0.06
27 6 0.04
ACGTcount: A:0.33, C:0.01, G:0.12, T:0.54
Consensus pattern (19 bp):
TTTTAGTGTTAATTATAAA
Found at i:61021736 original size:64 final size:64
Alignment explanation
Indices: 61021624--61021849 Score: 374
Period size: 64 Copynumber: 3.6 Consensus size: 64
61021614 TTTACTTTCT
*
61021624 TTTTTAGTGATAATTAT-AATTTT--TG-TAATGT-TAATTATAATTGTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAAATTTTAGTGTTAAT-TATAATTATAATTGTTGTAGCATTTGATTAA
61021684 TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAATTATAATTGTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAATTATAATTGTTGTAGCATTTGATTAA
*
61021748 TTTTTAGTGTTAATTATAATTTTTAGTGTTAATTATAATTATAA-TGTTTGTAGCATTTGATTAA
1 TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAATTATAATTG-TTGTAGCATTTGATTAA
61021812 TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAA
1 TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAA
61021850 ATTTTAGTGT
Statistics
Matches: 157, Mismatches: 3, Indels: 8
0.93 0.02 0.05
Matches are distributed among these distances:
60 16 0.10
61 6 0.04
63 5 0.03
64 130 0.83
ACGTcount: A:0.32, C:0.01, G:0.12, T:0.54
Consensus pattern (64 bp):
TTTTTAGTGTTAATTATAAATTTTAGTGTTAATTATAATTATAATTGTTGTAGCATTTGATTAA
Found at i:61021828 original size:45 final size:45
Alignment explanation
Indices: 61021764--61021894 Score: 170
Period size: 45 Copynumber: 3.1 Consensus size: 45
61021754 GTGTTAATTA
61021764 TAATTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGAT
1 TAATTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGAT
* *
61021809 TAATTTTTAGTGTTAATTATAAATT-TTA-GTGT-TA--A-TT-A-
1 TAATTTTTAGTGTTAATTAT-AATTATAATGTTTGTAGCATTTGAT
*
61021847 TAAATTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGAT
1 TAATTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGAT
61021892 TAA
1 TAA
61021895 AACTTTTTTT
Statistics
Matches: 72, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
37 4 0.06
38 21 0.29
39 4 0.06
40 4 0.06
41 1 0.01
42 1 0.01
43 4 0.06
44 4 0.06
45 25 0.35
46 4 0.06
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.53
Consensus pattern (45 bp):
TAATTTTTAGTGTTAATTATAATTATAATGTTTGTAGCATTTGAT
Found at i:61022033 original size:48 final size:47
Alignment explanation
Indices: 61021939--61022039 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 47
61021929 TAATTTTTGT
* * * *
61021939 ATTGTTAATTATATTTTTTTATCAAACAATATAAGTAATATAAAAAC
1 ATTGTTAAATATAATTTTTAATCAAAAAATATAAGTAATATAAAAAC
*
61021986 ATTGTTCAAATATAATTTTTAATCAAAAAAATTTAAGTAATAT-AAAAC
1 ATTGTT-AAATATAATTTTTAATC-AAAAAATATAAGTAATATAAAAAC
61022034 ATTGTT
1 ATTGTT
61022040 TGAAGACCAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
47 6 0.13
48 25 0.53
49 16 0.34
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.42
Consensus pattern (47 bp):
ATTGTTAAATATAATTTTTAATCAAAAAATATAAGTAATATAAAAAC
Found at i:61022183 original size:16 final size:17
Alignment explanation
Indices: 61022131--61022183 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
61022121 GTTTTAAATG
**
61022131 AAACATATAAAAAATAA
1 AAACATATCGAAAATAA
61022148 AAACATATCGAAAATAA
1 AAACATATCGAAAATAA
* *
61022165 AAACATATTGAAACTAA
1 AAACATATCGAAAATAA
61022182 AA
1 AA
61022184 TATAACCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.68, C:0.09, G:0.04, T:0.19
Consensus pattern (17 bp):
AAACATATCGAAAATAA
Found at i:61022475 original size:15 final size:15
Alignment explanation
Indices: 61022457--61022510 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 15
61022447 AGAAACATAC
61022457 AGAAACATACAGAAT
1 AGAAACATACAGAAT
61022472 AGAAACAT----AA-
1 AGAAACATACAGAAT
*
61022482 AGAGACATACAGAAT
1 AGAAACATACAGAAT
*
61022497 ATAAACATACAGAA
1 AGAAACATACAGAA
61022511 ACGTAAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
10 7 0.23
11 2 0.06
14 2 0.06
15 20 0.65
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
AGAAACATACAGAAT
Found at i:61022475 original size:25 final size:25
Alignment explanation
Indices: 61022447--61022539 Score: 114
Period size: 25 Copynumber: 3.6 Consensus size: 25
61022437 GATACCATCA
61022447 AGAAACATACAGAAACATACAGAAT
1 AGAAACATACAGAAACATACAGAAT
* *
61022472 AGAAACATAAAGAGACATACAGAAT
1 AGAAACATACAGAAACATACAGAAT
* * *
61022497 ATAAACATACAGAAACGTAAATTGAAT
1 AGAAACATACAGAAACATACA--GAAT
*
61022524 ATAAACATACAGAAAC
1 AGAAACATACAGAAAC
61022540 CATTTCCACT
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
25 39 0.66
27 20 0.34
ACGTcount: A:0.59, C:0.14, G:0.12, T:0.15
Consensus pattern (25 bp):
AGAAACATACAGAAACATACAGAAT
Found at i:61024155 original size:11 final size:12
Alignment explanation
Indices: 61024139--61024186 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
61024129 ATAATTACAT
61024139 AGATGC-AACAA
1 AGATGCAAACAA
61024150 AGATGCAAACAA
1 AGATGCAAACAA
*
61024162 ACCAT-C-AACAA
1 A-GATGCAAACAA
61024173 AGATGCAAACAA
1 AGATGCAAACAA
61024185 AG
1 AG
61024187 CTGATGTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
10 2 0.06
11 13 0.42
12 14 0.45
13 2 0.06
ACGTcount: A:0.56, C:0.21, G:0.15, T:0.08
Consensus pattern (12 bp):
AGATGCAAACAA
Found at i:61025255 original size:38 final size:37
Alignment explanation
Indices: 61025199--61025281 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 37
61025189 GTAGAGGATA
* *
61025199 GCTCAACCCTTGGAAGCATCCCA-ATGGTGGGAAGATTT
1 GCTCAACCCTTGGAAGCAT-CAAGATGATGGG-AGATTT
*
61025237 GCTTAACCCTGTGG-AGCATCAAGATGATGGGAGATTT
1 GCTCAACCCT-TGGAAGCATCAAGATGATGGGAGATTT
61025274 GCTCAACC
1 GCTCAACC
61025282 TTTCAGAGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
37 15 0.38
38 21 0.54
39 3 0.08
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (37 bp):
GCTCAACCCTTGGAAGCATCAAGATGATGGGAGATTT
Found at i:61026873 original size:7 final size:7
Alignment explanation
Indices: 61026861--61026901 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
61026851 TCCTAAATTC
61026861 TCAATCT
1 TCAATCT
61026868 TCAATCT
1 TCAATCT
*
61026875 TCGATCT
1 TCAATCT
61026882 TCAATCT
1 TCAATCT
*
61026889 TCAATAT
1 TCAATCT
61026896 TCAATC
1 TCAATC
61026902 CCCAATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.41
Consensus pattern (7 bp):
TCAATCT
Found at i:61026907 original size:21 final size:21
Alignment explanation
Indices: 61026862--61026912 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
61026852 CCTAAATTCT
* * **
61026862 CAATCTTCAATCTTCGATCTT
1 CAATCTTCAATATTCAATCCC
61026883 CAATCTTCAATATTCAATCCC
1 CAATCTTCAATATTCAATCCC
61026904 CAAT-TTCAA
1 CAATCTTCAA
61026913 ATTTTATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 5 0.19
21 21 0.81
ACGTcount: A:0.31, C:0.29, G:0.02, T:0.37
Consensus pattern (21 bp):
CAATCTTCAATATTCAATCCC
Found at i:61026932 original size:21 final size:20
Alignment explanation
Indices: 61026904--61026958 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
61026894 ATTCAATCCC
*
61026904 CAATTTCAAATTTTATTTTT
1 CAATTTCAAATTTTAATTTT
*
61026924 CAATCTTCAAATTTAAATTTT
1 CAAT-TTCAAATTTTAATTTT
*
61026945 CAATTTCGAATTTT
1 CAATTTCAAATTTT
61026959 CAATCCTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.33, C:0.13, G:0.02, T:0.53
Consensus pattern (20 bp):
CAATTTCAAATTTTAATTTT
Found at i:61029690 original size:16 final size:16
Alignment explanation
Indices: 61029671--61029701 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61029661 TTGGAAAATT
61029671 TTTCAAATATATATGG
1 TTTCAAATATATATGG
*
61029687 TTTCAAATTTATATG
1 TTTCAAATATATATG
61029702 CTCTTACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGG
Found at i:61031807 original size:20 final size:20
Alignment explanation
Indices: 61031782--61031848 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
61031772 ATACTTTGAA
61031782 TTGTACATACATGCCCCTAT
1 TTGTACATACATGCCCCTAT
*** * *
61031802 TTGTACATTGGTACCCCTGAA
1 TTGTACATACATGCCCCT-AT
* *
61031823 TTGCACATACATGCCCCTGT
1 TTGTACATACATGCCCCTAT
61031843 TTGTAC
1 TTGTAC
61031849 TTTCGTACCC
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.34
Consensus pattern (20 bp):
TTGTACATACATGCCCCTAT
Found at i:61031839 original size:21 final size:21
Alignment explanation
Indices: 61031778--61031882 Score: 79
Period size: 21 Copynumber: 5.1 Consensus size: 21
61031768 AATTATACTT
*
61031778 TGAATTGTACATACATGCCCC
1 TGAATTGTACATACGTGCCCC
* ** *
61031799 T-ATTTGTACATTGGTACCCC
1 TGAATTGTACATACGTGCCCC
* *
61031819 TGAATTGCACATACATGCCCC
1 TGAATTGTACATACGTGCCCC
* * * *
61031840 TG-TTTGTACTTTCGTACCCC
1 TGAATTGTACATACGTGCCCC
* *
61031860 TGAATAGCACATACGTGCCCC
1 TGAATTGTACATACGTGCCCC
61031881 TG
1 TG
61031883 TTTACACTCC
Statistics
Matches: 59, Mismatches: 23, Indels: 4
0.69 0.27 0.05
Matches are distributed among these distances:
20 29 0.49
21 30 0.51
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (21 bp):
TGAATTGTACATACGTGCCCC
Found at i:61031882 original size:41 final size:41
Alignment explanation
Indices: 61031786--61031885 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
61031776 TTTGAATTGT
* * *
61031786 ACATACATGCCCCTATTTGTACATTGGTACCCCTGAATTGC
1 ACATACATGCCCCTGTTTGTACATTCGTACCCCTGAATAGC
*
61031827 ACATACATGCCCCTGTTTGTACTTTCGTACCCCTGAATAGC
1 ACATACATGCCCCTGTTTGTACATTCGTACCCCTGAATAGC
*
61031868 ACATACGTGCCCCTGTTT
1 ACATACATGCCCCTGTTT
61031886 ACACTCCGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.22, C:0.31, G:0.15, T:0.32
Consensus pattern (41 bp):
ACATACATGCCCCTGTTTGTACATTCGTACCCCTGAATAGC
Found at i:61032835 original size:42 final size:42
Alignment explanation
Indices: 61032771--61032874 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
61032761 CCTAGCACAT
* * *
61032771 GGCCT-GCACACGGGCGTATGAGGCTATTTCGAAAGTTACAC
1 GGCCTGGCACACGGGCGTGTGAGGCCATTTCAAAAGTTACAC
* *
61032812 GGCCTGGCACACGGGTGTGTGAGGCCATTTTAAAAGTTACAC
1 GGCCTGGCACACGGGCGTGTGAGGCCATTTCAAAAGTTACAC
*
61032854 AGCCTGGCACACGGGCGTGTG
1 GGCCTGGCACACGGGCGTGTG
61032875 GCTTGGCCGT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 5 0.09
42 50 0.91
ACGTcount: A:0.22, C:0.24, G:0.33, T:0.21
Consensus pattern (42 bp):
GGCCTGGCACACGGGCGTGTGAGGCCATTTCAAAAGTTACAC
Found at i:61039265 original size:36 final size:34
Alignment explanation
Indices: 61039215--61039315 Score: 91
Period size: 36 Copynumber: 2.9 Consensus size: 34
61039205 TATATATATA
* *
61039215 TATACACATTGCCATGGTCCAACCATGGTCTTATG
1 TATACA-ACTGCCATGGTCCAACCATGGTCTTACG
* *
61039250 TATGAACAACTGCCATAG-CC-TCGCTATGGTCTTACG
1 TAT--ACAACTGCCATGGTCCAAC-C-ATGGTCTTACG
*
61039286 TATACATC-GCCATGGTCCAACCATGGTCTT
1 TATACAACTGCCATGGTCCAACCATGGTCTT
61039316 GTACATTTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
33 14 0.26
34 8 0.15
35 7 0.13
36 21 0.40
37 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (34 bp):
TATACAACTGCCATGGTCCAACCATGGTCTTACG
Found at i:61043335 original size:50 final size:50
Alignment explanation
Indices: 61043255--61043548 Score: 297
Period size: 50 Copynumber: 5.9 Consensus size: 50
61043245 AACATGACAC
* *
61043255 TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATTCTTTGTGGCGTAT
1 TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATCCTTTGTGGCATAT
* * * * * * **
61043305 AATCCGGGAAGCCTTTGTGGCTAATATTGTGAAAATCCCTTGTTGTGTAT
1 TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATCCTTTGTGGCATAT
* * * **
61043355 TATCTAGG-AACCATTGTGGCTAATCTTGTGAAAAACCTTTGTCACATAT
1 TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATCCTTTGTGGCATAT
* * * * * *
61043404 TATTTGGGAAGCCTTTGTGGCTAATTTTGTGAAAAGCATTTGTGCCATAT
1 TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATCCTTTGTGGCATAT
** * * * *
61043454 TATCTGATAATCCTTTGTGACTAATCTTGTGAAAAGCCCTTGTGGCATAT
1 TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATCCTTTGTGGCATAT
*
61043504 TATCTAGGAAACCTTTGTGGCTAATCGTT-T-AAGAATCCTTTGTGG
1 TATCTGGGAAACCTTTGTGGCTAATC-TTGTGAA-AATCCTTTGTGG
61043549 AGAAGTATAA
Statistics
Matches: 196, Mismatches: 45, Indels: 6
0.79 0.18 0.02
Matches are distributed among these distances:
49 40 0.20
50 154 0.79
51 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (50 bp):
TATCTGGGAAACCTTTGTGGCTAATCTTGTGAAAATCCTTTGTGGCATAT
Found at i:61043440 original size:25 final size:25
Alignment explanation
Indices: 61043368--61043499 Score: 81
Period size: 25 Copynumber: 5.3 Consensus size: 25
61043358 CTAGGAACCA
* *
61043368 TTGTGGCTAATCTTGTGAAAAACCT
1 TTGTGGCTAATTTTGTGAAAAGCCT
** **
61043393 TTGTCAC-ATATTATT-TGGGAAGCCT
1 TTGTGGCTA-ATT-TTGTGAAAAGCCT
*
61043418 TTGTGGCTAATTTTGTGAAAAGCAT
1 TTGTGGCTAATTTTGTGAAAAGCCT
* * * * *
61043443 TTGT-GCCATATTATCTGATAATCCT
1 TTGTGGCTA-ATTTTGTGAAAAGCCT
* * *
61043468 TTGTGACTAATCTTGTGAAAAGCCC
1 TTGTGGCTAATTTTGTGAAAAGCCT
61043493 TTGTGGC
1 TTGTGGC
61043500 ATATTATCTA
Statistics
Matches: 75, Mismatches: 26, Indels: 12
0.66 0.23 0.11
Matches are distributed among these distances:
24 6 0.08
25 64 0.85
26 5 0.07
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (25 bp):
TTGTGGCTAATTTTGTGAAAAGCCT
Found at i:61049136 original size:100 final size:100
Alignment explanation
Indices: 61048971--61049178 Score: 265
Period size: 100 Copynumber: 2.1 Consensus size: 100
61048961 CTTGGAAGTT
* *
61048971 TTTGTGGCTAATCTTGTGAAAAGCCTTTATGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTT
1 TTTGTCGCTAATCTTGTGAAAAGACTTTATGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTT
* * *
61049036 GTGAAAAACACTTGTGGTGTATTATCT-TAGAAGCC
66 GTGAAAAACACTAGTGGCGCATTATCTGT-GAAGCC
* * ** * ** *
61049071 TTTGTCGCTAATCTTGTGAAAAGACTTTGTGGCGTATTATTTGGGAAGCCTTTGTGGCTACTCTT
1 TTTGTCGCTAATCTTGTGAAAAGACTTTATGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTT
* *
61049136 GTGAAAATCTCTAGTGGCGCATTATCTGTGAAGCC
66 GTGAAAAACACTAGTGGCGCATTATCTGTGAAGCC
61049171 TTTGTCGC
1 TTTGTCGC
61049179 GAAGTATTAG
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
100 91 0.99
101 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (100 bp):
TTTGTCGCTAATCTTGTGAAAAGACTTTATGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTT
GTGAAAAACACTAGTGGCGCATTATCTGTGAAGCC
Found at i:61049153 original size:50 final size:51
Alignment explanation
Indices: 61048971--61049175 Score: 220
Period size: 50 Copynumber: 4.1 Consensus size: 51
61048961 CTTGGAAGTT
* * *
61048971 TTTGTGGCTAATCTTGTGAAAAGCCTTTA-TGGCGTATTATCTAAGAAGCC
1 TTTGTGGCTAATCTTGTGAAAAGACTCTAGTGGCGTATTATCTGAGAAGCC
* ** * * * *
61049021 TGTACGGCTAATCTTGTGAAAA-ACACTTGTGGTGTATTATCTTAGAAGCC
1 TTTGTGGCTAATCTTGTGAAAAGACTCTAGTGGCGTATTATCTGAGAAGCC
* * * *
61049071 TTTGTCGCTAATCTTGTGAAAAGACT-TTGTGGCGTATTATTTGGGAAGCC
1 TTTGTGGCTAATCTTGTGAAAAGACTCTAGTGGCGTATTATCTGAGAAGCC
* * * *
61049121 TTTGTGGCTACTCTTGTGAAAA-TCTCTAGTGGCGCATTATCTGTGAAGCC
1 TTTGTGGCTAATCTTGTGAAAAGACTCTAGTGGCGTATTATCTGAGAAGCC
61049171 TTTGT
1 TTTGT
61049176 CGCGAAGTAT
Statistics
Matches: 127, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
49 4 0.03
50 121 0.95
51 2 0.02
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.37
Consensus pattern (51 bp):
TTTGTGGCTAATCTTGTGAAAAGACTCTAGTGGCGTATTATCTGAGAAGCC
Found at i:61049192 original size:100 final size:100
Alignment explanation
Indices: 61048988--61049210 Score: 225
Period size: 100 Copynumber: 2.2 Consensus size: 100
61048978 CTAATCTTGT
* * *
61048988 GAAAAGCCTTTATGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTTGTGAAAAACACTTGTGG
1 GAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTTGTGAAAAACACTAGTGG
* * * * *
61049053 TGTATTATCTTAGAAGCCTTTGTCGCTAATCTTGT
66 CGCATTATCTTAGAAGCCTTTGTCGCGAATATTGA
* ** * ** * * *
61049088 GAAAAGACTTTGTGGCGTATTATTTGGGAAGCCTTTGTGGCTACTCTTGTGAAAATCTCTAGTGG
1 GAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTTGTGAAAAACACTAGTGG
61049153 CGCATTATCTGT-GAAGCCTTTGTCGCGAAGTATT-A
66 CGCATTATCT-TAGAAGCCTTTGTCGCGAA-TATTGA
** * *
61049188 GAAAATTCCTTGTGGCATATTAT
1 GAAAAGACTTTGTGGCGTATTAT
61049211 ATGGAAAGAT
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
100 96 0.96
101 4 0.04
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (100 bp):
GAAAAGACTTTGTGGCGTATTATCTAAGAAGCCTGTACGGCTAATCTTGTGAAAAACACTAGTGG
CGCATTATCTTAGAAGCCTTTGTCGCGAATATTGA
Found at i:61055917 original size:50 final size:50
Alignment explanation
Indices: 61055661--61055997 Score: 333
Period size: 50 Copynumber: 6.7 Consensus size: 50
61055651 TATCAATGAA
* * ** *
61055661 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCAATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AACCGTAAA-ACTTGGT
* * * * * *
61055712 CACATGTGTAGTACTAAGTGAAGGCAACAATGT-ATACCG-AGAAGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGA-ACCGTA-AAAC-TTGGT
* * ***
61055763 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGGT
* * * * * *
61055814 CACATGTGTAGTGCTAAGT-AAGGCTACTATGTGTACCG-AAAAGTTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA--CTTGGT
* *
61055864 CACGTGTGTAGTACTATGTGAAGGCTACTACATGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
* *
61055914 CACGTGTGTAGTATTATGTGAAGGCTACTACGTGAACCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
61055964 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG
61055998 TATCGAATGA
Statistics
Matches: 233, Mismatches: 42, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 124 0.53
51 96 0.41
52 7 0.03
53 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGGT
Found at i:61063471 original size:51 final size:52
Alignment explanation
Indices: 61063407--61063750 Score: 366
Period size: 51 Copynumber: 6.8 Consensus size: 52
61063397 TATCGATGAA
* *
61063407 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATACTTGGT
* * * * * * *
61063458 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGA-GAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATAC-TTGGT
* *
61063509 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGA--TGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAAT-ACTTGGT
* * * * * *
61063560 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGATTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATACTTGGT
* * * * *
61063611 CACTTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATACTTGGT
* * *
61063661 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCG-TAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATACTTGGT
*
61063711 CACGTGTGTAGTACTATGTGAAGGCTACTACGCGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
61063751 ATGATAAAAG
Statistics
Matches: 247, Mismatches: 37, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
49 1 0.00
50 92 0.37
51 152 0.62
52 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (52 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGATAAATACTTGGT
Found at i:61063583 original size:102 final size:101
Alignment explanation
Indices: 61063407--61063742 Score: 444
Period size: 102 Copynumber: 3.3 Consensus size: 101
61063397 TATCGATGAA
* *
61063407 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
61063472 TAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGGT
* *
61063509 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
*
61063574 TAAGTGAAGGCTACTATGTGTACCGAAAAGATTTGGT
66 TAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
* * * * * **
61063611 CACTTGTGTAGTACTATGTGAAGGCTACTATGTGAACCG-TAAA-ACTTGATCATGTGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATA-ATGGTCACATGTGTAGTA
* * * * * *
61063674 CTATGTGAAGGCTACTACGTGAATCGTAAAAC-TTGAT
65 CTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGGT
61063711 CACGTGTGTAGTACTATGTGAAGGCTACTACG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACG
61063743 CGTATCGAAT
Statistics
Matches: 209, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
100 34 0.16
101 43 0.21
102 131 0.63
103 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGGT
Found at i:61066705 original size:17 final size:18
Alignment explanation
Indices: 61066683--61066716 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61066673 TTGAGCCGAA
61066683 TGGG-CCACACGAGCATG
1 TGGGCCCACACGAGCATG
*
61066700 TGGGCCCACACGGGCAT
1 TGGGCCCACACGAGCAT
61066717 ACAACATGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.32, G:0.35, T:0.12
Consensus pattern (18 bp):
TGGGCCCACACGAGCATG
Found at i:61078374 original size:4 final size:4
Alignment explanation
Indices: 61078357--61078390 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
61078347 ATGACTTGGA
*
61078357 AATT AATT AGTT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
61078391 ATAAAGTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (4 bp):
AATT
Found at i:61081162 original size:12 final size:12
Alignment explanation
Indices: 61081141--61081187 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
61081131 GAGATAACCG
61081141 AGTACGTGGTTA
1 AGTACGTGGTTA
**
61081153 AGTATTTGGTTA
1 AGTACGTGGTTA
61081165 AGTACGTGGTTA
1 AGTACGTGGTTA
61081177 AGTACGTGGTT
1 AGTACGTGGTT
61081188 TAAGGTAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.23, C:0.06, G:0.32, T:0.38
Consensus pattern (12 bp):
AGTACGTGGTTA
Found at i:61082666 original size:13 final size:14
Alignment explanation
Indices: 61082648--61082681 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
61082638 TTCCACTAAA
*
61082648 TAAGTTTAGTT-AT
1 TAAGTTAAGTTAAT
61082661 TAAGTTAAGTTAAT
1 TAAGTTAAGTTAAT
61082675 TAAGTTA
1 TAAGTTA
61082682 TGTTTAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (14 bp):
TAAGTTAAGTTAAT
Found at i:61085151 original size:19 final size:19
Alignment explanation
Indices: 61085122--61085213 Score: 130
Period size: 19 Copynumber: 4.8 Consensus size: 19
61085112 AATTTTTAGG
*
61085122 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
* *
61085141 AATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
61085160 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
61085179 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
61085198 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
61085214 AGATATGATT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 63 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:61085164 original size:38 final size:38
Alignment explanation
Indices: 61085122--61085213 Score: 175
Period size: 38 Copynumber: 2.4 Consensus size: 38
61085112 AATTTTTAGG
61085122 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
*
61085160 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATAATATATAATCTTAGATAT
61085198 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
61085214 AGATATGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (38 bp):
GATATGCAATCTTAGATATAATATATAATCTTAGATAT
Found at i:61085239 original size:22 final size:21
Alignment explanation
Indices: 61085122--61085239 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 21
61085112 AATTTTTAGG
*
61085122 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
61085141 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
61085160 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
61085179 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
61085198 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
61085220 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
61085240 TTAATTAGTA
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
19 60 0.72
22 12 0.14
23 11 0.13
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:61085675 original size:12 final size:11
Alignment explanation
Indices: 61085654--61085728 Score: 51
Period size: 12 Copynumber: 6.3 Consensus size: 11
61085644 GCTTTTACTA
*
61085654 ATTAATTTATT
1 ATTATTTTATT
61085665 ATTATTATTATTT
1 ATTATT-TTA-TT
* **
61085678 ACTAATCCTATT
1 A-TTATTTTATT
*
61085690 ATTATTTGTACT
1 ATTATTT-TATT
61085702 ATTATTGTTATT
1 ATTATT-TTATT
61085714 ATTATTTTCATT
1 ATTATTTT-ATT
61085726 ATT
1 ATT
61085729 TCTTCTTATC
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 10 0.20
12 30 0.61
13 6 0.12
14 3 0.06
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:61092107 original size:6 final size:6
Alignment explanation
Indices: 61092098--61092126 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
61092088 TAAAAGTGAT
61092098 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA
61092127 TGGAGAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:61093522 original size:44 final size:44
Alignment explanation
Indices: 61093432--61094071 Score: 537
Period size: 44 Copynumber: 14.5 Consensus size: 44
61093422 GCAGATCAGT
* * * * *
61093432 GAAGATAGCAGGTCCTGTCTTACTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
61093476 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTATATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
61093520 GAAGGAAGCAGATCTTGTCTTCATTTATTGG-CGTGAAGTAGATC
1 GAA-GATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
** * *
61093564 GAAGATAGCATG-TCCCGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCA-GATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * *
61093608 GAAGATGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
61093651 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * *
61093696 GAAGATGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * *
61093740 AAAGAAAT-CAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG--ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * * *
61093784 AAAGATAGTAGGTATTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * *
61093828 GAAGATGCAGATCTTATCTTCCCATACTGGTGGTGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * ***
61093872 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CATGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
61093916 GAAAATAGCAGCTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* *
61093960 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
* * * * *
61094004 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
*
61094048 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
61094072 GCACCGACAG
Statistics
Matches: 474, Mismatches: 101, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
42 4 0.01
43 101 0.21
44 267 0.56
45 100 0.21
46 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATC
Found at i:61093690 original size:132 final size:132
Alignment explanation
Indices: 61093466--61094071 Score: 785
Period size: 132 Copynumber: 4.6 Consensus size: 132
61093456 ATATTGGTAG
* *** * * * *
61093466 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTATATCGAAGGA-AGC
1 GAAGTAGATCGAAGAATGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAA-GATAGC
* * * * ** * *
61093529 AGATCTTGTCTTCATTTATTGG-CGTGAAGTAGATCGAAGATAGCATG-TCCCGTCTTCCTATAT
64 AGATCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCA-GATCTTGTCTTCCCATAC
*
61093592 TGGTAG-
126 TGGTGGC
*
61093598 GAAGTGGATCGAAG-ATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* *
61093662 ATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
61093727 GGC
130 GGC
* * * *
61093730 GAAGTAGATCAAAGAAAT-CAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTA
1 GAAGTAGATCGAAG-AATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
* * *
61093794 GGTATTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCTTCCCATACTGGT
65 GATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGT
*
61093859 GGT
130 GGC
* * *
61093862 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAAATAGCAG
1 GAAGTAGATCGAAGAATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
* *
61093927 CTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTG
66 ATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTG
61093992 GC
131 GC
*
61093994 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
1 GAAGTAGATCGAAGAATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
*
61094059 ATCTTGCCTTCCT
66 ATCTTGTCTTCCT
61094072 GCACCGACAG
Statistics
Matches: 420, Mismatches: 47, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
130 3 0.01
131 55 0.13
132 296 0.70
133 64 0.15
134 2 0.00
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAGTAGATCGAAGAATGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAG
ATCTTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTG
GC
Found at i:61093813 original size:220 final size:220
Alignment explanation
Indices: 61093432--61093980 Score: 699
Period size: 220 Copynumber: 2.5 Consensus size: 220
61093422 GCAGATCAGT
* *
61093432 GAAGATAGCAGGTCCTGTCTTACTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * * * * *
61093497 CCATATTGGTGGCGGAGTATATCGAAGGAAGCAGATCTTGTCTTCATTTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGA
* * * *
61093562 TCGAAGATAGCATGTCCCGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCT
131 TCAAAGATAGCAGGTACCGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCT
** *
61093627 TCATGTATTGG-CGTGAAGTAGATC
196 TCACATACTGGTCGTGAAGTAGATC
*
61093651 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGTAGATCTTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
*
61093716 CCCATACTGGTGGCGAAGTAGATCAAAGAAATCAGATCTTATCTTCATGTATTGGCGTGAAGTAG
65 CCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAG
* **
61093781 ATCAAAGATAGTAGGTATTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATC
130 ATCAAAGATAGCAGGTACCGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATC
* *
61093846 TTCCCATACTGGTGGTGAAGTAGATC
195 TTCACATACTGGTCGTGAAGTAGATC
* * * * * * * * * *
61093872 GAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAAATAGCAGCTCCTGTCTT
1 GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT-GCAGATCTTGTCTT
* * * * * * *
61093937 CCTATATTGGTAG-GAAGTGGATCGAAG-ATGCAGATCTTGTCTTC
65 CCCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTC
61093981 CCATACTGGT
Statistics
Matches: 285, Mismatches: 42, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
219 46 0.16
220 178 0.62
221 61 0.21
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (220 bp):
GAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCAAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGA
TCAAAGATAGCAGGTACCGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTATCT
TCACATACTGGTCGTGAAGTAGATC
Found at i:61094096 original size:45 final size:44
Alignment explanation
Indices: 61093994--61094097 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 44
61093984 TACTGGTGGC
* * ** *
61093994 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGCACCGACGT
* *
61094038 GAAGTAGATCGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGT
1 GAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGCACCGAC-GT
*
61094083 GAAGCAGATCGAAGA
1 GAAGTAGATCGAAGA
61094098 CACCAGCCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 35 0.69
45 16 0.31
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (44 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGCCTTCATGCACCGACGT
Found at i:61094686 original size:132 final size:132
Alignment explanation
Indices: 61094175--61094671 Score: 836
Period size: 132 Copynumber: 3.8 Consensus size: 132
61094165 GATAGCGAAA
*
61094175 CAGATCGAAGATGGCGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
61094240 TACTTCCCTGAACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
61094305 AG
131 AG
* *
61094307 CAGATCGAAGATGGCGGATTTTACCTCCCTGTAGTTATAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
** *
61094372 TACTTCTATGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAACCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
61094437 AG
131 AG
*
61094439 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
*
61094504 TACTTCCCTGGACAACAATGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
66 TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
61094569 AG
131 AG
* *
61094571 CAGATCGAAGATGGCGGATTTTACATCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAA-TC
1 CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
* * *
61094635 ATA-TCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
66 -TACT-TCCCTGGACAACAGTGGAATAGATTGAAGATT
61094672 GTAAGTCCTA
Statistics
Matches: 344, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
131 3 0.01
132 341 0.99
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (132 bp):
CAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTC
TACTTCCCTGGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGG
AG
Found at i:61095024 original size:19 final size:19
Alignment explanation
Indices: 61095000--61095110 Score: 177
Period size: 19 Copynumber: 5.8 Consensus size: 19
61094990 AATCTTCAGG
61095000 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61095019 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
61095038 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61095057 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
61095076 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
61095095 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
61095111 AGATATGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 82 1.00
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:61095050 original size:38 final size:38
Alignment explanation
Indices: 61095007--61095110 Score: 199
Period size: 38 Copynumber: 2.7 Consensus size: 38
61094997 AGGGATATGC
61095007 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
*
61095045 AATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
61095083 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
61095111 AGATATGATT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.38
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:61095569 original size:12 final size:11
Alignment explanation
Indices: 61095548--61095622 Score: 51
Period size: 12 Copynumber: 6.3 Consensus size: 11
61095538 GCTTTTACTA
*
61095548 ATTAATTTATT
1 ATTATTTTATT
61095559 ATTATTATTATTT
1 ATTATT-TTA-TT
* **
61095572 ACTAATCCTATT
1 A-TTATTTTATT
*
61095584 ATTATTTGTACT
1 ATTATTT-TATT
61095596 ATTATTGTTATT
1 ATTATT-TTATT
61095608 ATTATTTTCATT
1 ATTATTTT-ATT
61095620 ATT
1 ATT
61095623 TCTTCTTATC
Statistics
Matches: 49, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
11 10 0.20
12 30 0.61
13 6 0.12
14 3 0.06
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (11 bp):
ATTATTTTATT
Found at i:61097551 original size:2 final size:2
Alignment explanation
Indices: 61097539--61097578 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
61097529 ATATAATAAG
61097539 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61097579 AACTCTTGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:61102953 original size:2 final size:2
Alignment explanation
Indices: 61102946--61102978 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61102936 AATTATTTTA
61102946 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61102979 ATAAACTACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61103741 original size:2 final size:2
Alignment explanation
Indices: 61103734--61103765 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
61103724 AAAATCATTG
61103734 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61103766 CACACAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:61105838 original size:21 final size:20
Alignment explanation
Indices: 61105814--61105882 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 20
61105804 TTAACTATCA
*
61105814 TTTAACATTAATATAATTTAT
1 TTTAA-ATTTATATAATTTAT
*
61105835 TTTAAATTTA-AT-ATTTAA
1 TTTAAATTTATATAATTTAT
*
61105853 TATAAATATTATATAATTTAT
1 TTTAAAT-TTATATAATTTAT
61105874 TTT-AATTTA
1 TTTAAATTTA
61105883 ATGTGATTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
18 11 0.28
19 8 0.20
20 9 0.22
21 12 0.30
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTAAATTTATATAATTTAT
Found at i:61108915 original size:20 final size:20
Alignment explanation
Indices: 61108890--61108952 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
61108880 TTGTCCGCAT
61108890 AATTCTAGTAGTTTATCTGC
1 AATTCTAGTAGTTTATCTGC
* * *
61108910 AATTCTAGTAGCTTGTCTAC
1 AATTCTAGTAGTTTATCTGC
*
61108930 ATATTTCTGGTAGTTTATCTGC
1 A-A-TTCTAGTAGTTTATCTGC
61108952 A
1 A
61108953 TATCTGGTGG
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 18 0.53
21 1 0.03
22 15 0.44
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTCTAGTAGTTTATCTGC
Found at i:61108918 original size:42 final size:42
Alignment explanation
Indices: 61108848--61109015 Score: 131
Period size: 42 Copynumber: 4.0 Consensus size: 42
61108838 GAAAGGAGAA
* * * * *
61108848 AATTCTAGCAGTTTATTTGCACTACTAGTGGCTTGTCCGCAT
1 AATTCTAGTAGTTTATCTGCAATACTAGTAGCTTGTCCACAT
* *
61108890 AATTCTAGTAGTTTATCTGCAATTCTAGTAGCTTGTCTACAT
1 AATTCTAGTAGTTTATCTGCAATACTAGTAGCTTGTCCACAT
* * * * * * **
61108932 ATTTCTGGTAGTTTATCTGC-ATATCTGGTGGTTTATAAACAT
1 AATTCTAGTAGTTTATCTGCAATA-CTAGTAGCTTGTCCACAT
* * * * *
61108974 ATTTCTGGTAGTTTATCTGCAAATATTTGTGGCTTGTCCACA
1 AATTCTAGTAGTTTATCTGC-AATACTAGTAGCTTGTCCACA
61109016 ACGCGGTGTG
Statistics
Matches: 101, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
41 2 0.02
42 85 0.84
43 11 0.11
44 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (42 bp):
AATTCTAGTAGTTTATCTGCAATACTAGTAGCTTGTCCACAT
Found at i:61108960 original size:20 final size:21
Alignment explanation
Indices: 61108886--61108994 Score: 96
Period size: 22 Copynumber: 5.1 Consensus size: 21
61108876 TGGCTTGTCC
*
61108886 GCATAATTCTAGTAGTTTATCT
1 GCAT-ATTCTGGTAGTTTATCT
* * *
61108908 GCA-ATTCTAGTAGCTTGTCT
1 GCATATTCTGGTAGTTTATCT
*
61108928 ACATATTTCTGGTAGTTTATCT
1 GCATA-TTCTGGTAGTTTATCT
* **
61108950 GCATA-TCTGGTGGTTTATAA
1 GCATATTCTGGTAGTTTATCT
*
61108970 ACATATTTCTGGTAGTTTATCT
1 GCATA-TTCTGGTAGTTTATCT
61108992 GCA
1 GCA
61108995 AATATTTGTG
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
20 33 0.49
21 1 0.01
22 34 0.50
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (21 bp):
GCATATTCTGGTAGTTTATCT
Found at i:61125232 original size:139 final size:138
Alignment explanation
Indices: 61125045--61125363 Score: 503
Period size: 139 Copynumber: 2.3 Consensus size: 138
61125035 ATTTTTATAA
* * *
61125045 ATACAATTAATATTTTTTATGAATCAAATTCACAGATTAATTACATTCTTCCCAAACGAATATTA
1 ATACAATTAATATTTTTTATGAATCAAATTCATATATTAATTACATTCTTCCCAAAAGAATATTA
*
61125110 ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATATTAATAAATTCAG
66 ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
61125175 TAAAATAT
131 TAAAATAT
* * * *
61125183 ATACAATTAACATTTTTTTATGAATCAGATTCATATATTAATTATATTCTTTCCAAAAGAATATT
1 ATACAATTAATA-TTTTTTATGAATCAAATTCATATATTAATTACATTCTTCCCAAAAGAATATT
* * *
61125248 AATTTCTATGTCTTTTATATTTTGACCGAAATTATTTAATATATCTGCTTATATTAATAAATTCA
65 AATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCA
61125313 GTAAAATAT
130 GTAAAATAT
* * *
61125322 ATACAATTAATATTTTGTATGACTCAAAATCATATATTAATT
1 ATACAATTAATATTTTTTATGAATCAAATTCATATATTAATT
61125364 TTATCTATGT
Statistics
Matches: 164, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
138 37 0.23
139 127 0.77
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (138 bp):
ATACAATTAATATTTTTTATGAATCAAATTCATATATTAATTACATTCTTCCCAAAAGAATATTA
ATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGCTTATATTAATAAATTCAG
TAAAATAT
Found at i:61125449 original size:17 final size:17
Alignment explanation
Indices: 61125429--61125461 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
61125419 TTTAACTATC
61125429 AAATTAAATT-AATTCAA
1 AAATT-AATTCAATTCAA
61125446 AAATTAATTCAATTCA
1 AAATTAATTCAATTCA
61125462 TGTAACAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATTAATTCAATTCAA
Found at i:61127397 original size:64 final size:64
Alignment explanation
Indices: 61127296--61127423 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
61127286 CGAGGTAAGG
* *
61127296 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAAGTGACTAAGGTTGAGTTT
1 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTAAGATTGAGTTT
* *
61127360 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGATTGAGATTGAGTTT
1 TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTAAGATTGAGTTT
61127424 CCAATTTCCG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.27, C:0.06, G:0.26, T:0.41
Consensus pattern (64 bp):
TTGTCGATAGTTTTGGGAATTGACTGTTGTAAGTAATTCAGATTAACTGACTAAGATTGAGTTT
Found at i:61134524 original size:137 final size:138
Alignment explanation
Indices: 61134261--61134535 Score: 437
Period size: 137 Copynumber: 2.0 Consensus size: 138
61134251 TGAATACAAC
**
61134261 AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTTTAAAAGAATATTAATTTCCAT
1 AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
*
61134326 GTCTTTTATATTTTGAACGAAATTAATTAATATAACTGTTTATATTAATAAATTTAGTAAAATAT
66 GTCTTTTATATTTTGAACGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATAT
61134391 ATACAATT
131 ATACAATT
* * *
61134399 AATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCAT
1 AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
** * *
61134464 GT-TTTTATATTTT-AACCGAAATTAATTGCTATAATTGTTTATATTAATAAATTCGGTAAAATA
66 GTCTTTTATATTTTGAA-CGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATA
61134527 TATACAATT
130 TATACAATT
61134536 TTTATTAATA
Statistics
Matches: 126, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
136 2 0.02
137 62 0.49
138 62 0.49
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (138 bp):
AATATTTTGTATGAATCAAATTCATATACTAATTATACTCTTTCCAAAAGAATATTAATTTCCAT
GTCTTTTATATTTTGAACGAAATTAATTAATATAACTGTTTATATTAATAAATTCAGTAAAATAT
ATACAATT
Found at i:61135192 original size:22 final size:24
Alignment explanation
Indices: 61135140--61135193 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
61135130 TTTTTTATGA
61135140 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
61135165 TGAAATTATT-TTATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
61135187 TTAAATT
1 TTAAATT
61135194 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 5 0.19
25 9 0.35
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:61137696 original size:18 final size:18
Alignment explanation
Indices: 61137655--61137696 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
61137645 AGAGTTTGAG
61137655 AGTTAGTGGATTAGTGGA
1 AGTTAGTGGATTAGTGGA
*
61137673 ATTTAGTGGA-TAGTAGGA
1 AGTTAGTGGATTAGT-GGA
*
61137691 GGTTAG
1 AGTTAG
61137697 GATAGATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (18 bp):
AGTTAGTGGATTAGTGGA
Found at i:61143992 original size:15 final size:15
Alignment explanation
Indices: 61143972--61144001 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61143962 GAGAGATATT
61143972 ATTTAATTTAATTTG
1 ATTTAATTTAATTTG
*
61143987 ATTTAATTTATTTTG
1 ATTTAATTTAATTTG
61144002 TTTTTCAAAA
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (15 bp):
ATTTAATTTAATTTG
Found at i:61148929 original size:17 final size:17
Alignment explanation
Indices: 61148909--61148941 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61148899 TTTAACTATC
61148909 AAATTAAATTAATTCAA
1 AAATTAAATTAATTCAA
*
61148926 AAATTAATTTAATTCA
1 AAATTAAATTAATTCA
61148942 TGTGTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAATTAAATTAATTCAA
Found at i:61150177 original size:50 final size:50
Alignment explanation
Indices: 61150123--61150244 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 50
61150113 CGTAGTTAGG
* * * * *
61150123 GGGCTATGACATCATATGGAAAGACCAGATCATGTAAGACCCTACCTAGT
1 GGGCTATGGCATCATATGGAAACACCAGATCATATAAGACCATAACTAGT
* * * * * * *
61150173 GGGCTATGGCGTTATTTGGAAACACCATATCGTATAAGACCATAATTGGT
1 GGGCTATGGCATCATATGGAAACACCAGATCATATAAGACCATAACTAGT
*
61150223 GGGTTATGGCATCATATGGAAA
1 GGGCTATGGCATCATATGGAAA
61150245 TAGTTAAATG
Statistics
Matches: 56, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (50 bp):
GGGCTATGGCATCATATGGAAACACCAGATCATATAAGACCATAACTAGT
Found at i:61150474 original size:27 final size:27
Alignment explanation
Indices: 61150386--61150474 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 27
61150376 TCTATGAAGG
* *
61150386 AAAGCCTTCGTGGCGAGTACTGAAAGA
1 AAAGCCTTCGTGGCAAGTTCTGAAAGA
* ** *
61150413 AGAGGATGCCTTTGTGGCAAACATCTG-AAGG
1 A-A--A-GCCTTCGTGGC-AAGTTCTGAAAGA
61150444 AAAGCCTTCGTGGCAAGTTCTGAAAGA
1 AAAGCCTTCGTGGCAAGTTCTGAAAGA
61150471 AAAG
1 AAAG
61150475 AATGCCTTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 12
0.68 0.15 0.18
Matches are distributed among these distances:
26 6 0.13
27 18 0.39
28 2 0.04
30 2 0.04
31 14 0.30
32 4 0.09
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (27 bp):
AAAGCCTTCGTGGCAAGTTCTGAAAGA
Found at i:61153552 original size:45 final size:46
Alignment explanation
Indices: 61153488--61153579 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
61153478 ACGAATGATG
* * *
61153488 TTATGTATTTAATATATTGTT-GAAAAATGGAATGTTGTTAAATTA
1 TTATGTATTTAATATATTGTTAAAAAAATGAAATATTGTTAAATTA
*
61153533 TTATGTATTTAGCT-TATTGTTAAAAAAATGAAATATTGTTAAATTA
1 TTATGTATTTA-ATATATTGTTAAAAAAATGAAATATTGTTAAATTA
61153579 T
1 T
61153580 GAATTGAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
45 18 0.44
46 23 0.56
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (46 bp):
TTATGTATTTAATATATTGTTAAAAAAATGAAATATTGTTAAATTA
Found at i:61153794 original size:21 final size:21
Alignment explanation
Indices: 61153770--61153848 Score: 61
Period size: 21 Copynumber: 3.8 Consensus size: 21
61153760 TGTTAACTCA
61153770 TATGAGTTTTAGTTTAACCCT
1 TATGAGTTTTAGTTTAACCCT
* * * *
61153791 TATGGGTTTCT-GTTCAGCTCT
1 TATGAGTTT-TAGTTTAACCCT
* * *
61153812 TTTGAGCTTCAGTTTAACCCT
1 TATGAGTTTTAGTTTAACCCT
* *
61153833 TATGGGTTTTCGTTTA
1 TATGAGTTTTAGTTTA
61153849 GCTCTTTTGT
Statistics
Matches: 40, Mismatches: 16, Indels: 4
0.67 0.27 0.07
Matches are distributed among these distances:
21 39 0.98
22 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.48
Consensus pattern (21 bp):
TATGAGTTTTAGTTTAACCCT
Found at i:61153828 original size:42 final size:42
Alignment explanation
Indices: 61153757--61153947 Score: 192
Period size: 42 Copynumber: 4.6 Consensus size: 42
61153747 TCTCACGAGC
* * * *
61153757 TTCTGTT-AACTCATATGAGTTTTAGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
*
61153798 TTCTGTTCAGCTCTTTTGAGCTTCAGTTTAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
* * * * *
61153840 TT-TCGTTTAGCTCTTTTGTA-CTTCATTTTATCCTTTATGGGT
1 TTCT-GTTCAGCTCTTATG-AGCTTCAGTTTAACCCTTATGGGT
* * *
61153882 TTCCGTTCAGCTCTTACGAGCTTTC-GTTCAACCCTTATGGGT
1 TTCTGTTCAGCTCTTATGAGC-TTCAGTTTAACCCTTATGGGT
* *
61153924 TTCTGTTTAGCACTTATGAGCTTC
1 TTCTGTTCAGCTCTTATGAGCTTC
61153948 TATGCAGCCT
Statistics
Matches: 123, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 12 0.10
42 107 0.87
43 4 0.03
ACGTcount: A:0.16, C:0.20, G:0.17, T:0.47
Consensus pattern (42 bp):
TTCTGTTCAGCTCTTATGAGCTTCAGTTTAACCCTTATGGGT
Found at i:61160286 original size:40 final size:40
Alignment explanation
Indices: 61160217--61160293 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
61160207 TTAACAATTA
* *
61160217 TAATAATTAAAATATGGTTTAAAGTAACTAAGAATCTATG
1 TAATAATTAAAATATGGTTCAAAGCAACTAAGAATCTATG
* * *
61160257 TAATAATTCAAATATTGTTCATAGCAACTAAGAATCT
1 TAATAATTAAAATATGGTTCAAAGCAACTAAGAATCT
61160294 GTAAAGCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.45, C:0.09, G:0.10, T:0.35
Consensus pattern (40 bp):
TAATAATTAAAATATGGTTCAAAGCAACTAAGAATCTATG
Found at i:61160900 original size:130 final size:130
Alignment explanation
Indices: 61160640--61160903 Score: 284
Period size: 130 Copynumber: 2.0 Consensus size: 130
61160630 TGATGGTGAG
* * * * *
61160640 TGGTGACCTAGTGGATGCCGGACGATGGTGAGTGTGTCGAGATATTTGTCGTCAGGCGGAAGAGA
1 TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGAGATATTTGCCGTCAGGCGGAAGAAA
** * * * * * * **
61160705 GCTAAAGCTTGAAGTTGAAGGTGTGTTGGGTTAATGTGTGAAAAACTATGGAGAACGAATGATGA
66 GCTAAAGCCCGAAGTCGAAGGTGCGTTGGGTTAAGGCGTGAAAAACAATGGAGAACAAACAATGA
* * *
61160770 TGGTGACCTAGTGGACGTCAGACGGTGGTGAGTGTATC-AGGT-TGTTGACCGTCAGGCGGAAGA
1 TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGAGATAT-TTG-CCGTCAGGCGGAAGA
* *
61160833 AAGCTAAAGCCCGAAGTCGAAGGTGCGTTGGGTTAGGGCGT-AAAAGACAATGGCAG-TCAAACA
64 AAGCTAAAGCCCGAAGTCGAAGGTGCGTTGGGTTAAGGCGTGAAAA-ACAATGG-AGAACAAACA
61160896 ATGA
127 ATGA
61160900 TGGT
1 TGGT
61160904 AACTTGGTGG
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
128 1 0.01
129 10 0.09
130 97 0.88
131 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.36, T:0.23
Consensus pattern (130 bp):
TGGTGACCTAGTGGACGCCAGACGATGGTGAGTGTATCGAGATATTTGCCGTCAGGCGGAAGAAA
GCTAAAGCCCGAAGTCGAAGGTGCGTTGGGTTAAGGCGTGAAAAACAATGGAGAACAAACAATGA
Found at i:61160932 original size:32 final size:32
Alignment explanation
Indices: 61160890--61160953 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
61160880 CAATGGCAGT
* *
61160890 CAAACAATGATGGTAACTTGGTGGATGCTAGA
1 CAAACAATGATGGTAACCTGGTGGACGCTAGA
* *
61160922 CAAACGATGATGGTGACCTGGTGGACGCTAGA
1 CAAACAATGATGGTAACCTGGTGGACGCTAGA
61160954 TGGTGGTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (32 bp):
CAAACAATGATGGTAACCTGGTGGACGCTAGA
Found at i:61161450 original size:16 final size:14
Alignment explanation
Indices: 61161429--61161468 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
61161419 ATTGAGTTGA
61161429 AAAATTATTTAATT
1 AAAATTATTTAATT
*
61161443 GGAAAATTAATTAATT
1 --AAAATTATTTAATT
61161459 AAAATTATTT
1 AAAATTATTT
61161469 TAATAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
16 13 0.59
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
AAAATTATTTAATT
Found at i:61167466 original size:18 final size:17
Alignment explanation
Indices: 61167439--61167472 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
61167429 TATTACTAAA
*
61167439 ATCACTAATTAAATTAAT
1 ATCACGAATT-AATTAAT
61167457 ATCACGAATTAATTAA
1 ATCACGAATTAATTAA
61167473 ACATTGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
ATCACGAATTAATTAAT
Done.