Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold497
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: 340775
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 2 of 2
Found at i:213309 original size:89 final size:89
Alignment explanation
Indices: 213102--213484 Score: 348
Period size: 90 Copynumber: 4.3 Consensus size: 89
213092 AACCTTATCG
* ** * *
213102 ATGGTATTGATGCATCACAAAGCC-AGATTTCTTTACGGCAAGGGTGC-GACCCA-TACATTCCC
1 ATGGTATTGATGCATCACAAAGCCTA-ATTTCCTTGGGGAAAGGGTGCAG-CCCACT-CATTCTC
* * * *
213164 AATCATATTCCCTTCATTCAACTACTAG
63 AATCATA-TCCCCTCACTCAACCACTAA
* * * * *
213192 ATGGTATTAATGTATCATAAAGCTTAATTTCCTTGGGGAAAGGGTGCAGCCCACTCATTCTTAAT
1 ATGGTATTGATGCATCACAAAGCCTAATTTCCTTGGGGAAAGGGTGCAGCCCACTCATTCTCAAT
*
213257 CATATCCCCTCACTCAACCTCTAA
66 CATATCCCCTCACTCAACCACTAA
* * * * *
213281 ATGGTATTAATGCATCACAAAGCCTAATTTCCTTGGGGGCAA-GGTGCAGCCTACACATTTTCAA
1 ATGGTATTGATGCATCACAAAGCCTAATTTCCTT-GGGGAAAGGGTGCAGCCCACTCATTCTCAA
213345 TCATATCCCCT-ACATCTAACCACTAA
65 TCATATCCCCTCAC-TC-AACCACTAA
* * * * * * * *
213371 ATAGTATTGATGCATCACGAAGTCTAATTCCCTT-GGGACAAGGATATCCTGACCACTCATTAC-
1 ATGGTATTGATGCATCACAAAGCCTAATTTCCTTGGGGA-AAGG--GTGCAGCCCACTCATT-CT
* *
213434 CAATCATATCCCTTCACTCAACCACTAG
62 CAATCATATCCCCTCACTCAACCACTAA
213462 ATGGTATTGATGCATCACAAAGC
1 ATGGTATTGATGCATCACAAAGC
213485 TTGGTTTTCC
Statistics
Matches: 239, Mismatches: 42, Indels: 23
0.79 0.14 0.08
Matches are distributed among these distances:
88 5 0.02
89 79 0.33
90 97 0.41
91 31 0.13
92 25 0.10
93 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (89 bp):
ATGGTATTGATGCATCACAAAGCCTAATTTCCTTGGGGAAAGGGTGCAGCCCACTCATTCTCAAT
CATATCCCCTCACTCAACCACTAA
Found at i:213478 original size:91 final size:91
Alignment explanation
Indices: 213157--213570 Score: 328
Period size: 89 Copynumber: 4.6 Consensus size: 91
213147 GCGACCCATA
* * * * *
213157 CATTCCCAATCATATTCCCTTCATTCAACTACTAGATGGTATTAATGTATCATAAAGCTTAATTT
1 CATTCCCAATCATA-TCCCTTCACTCAACCACTAGATGGTATTGATGCATCACAAAGCTTAATTT
* * * *
213222 CCTTGGGGA-AAGG-GTGCAGCCCACT
65 CCTTGGGGACAAGGTATCCTGACCACT
** * * * * *
213247 CATTCTTAATCATATCCCCTCACTCAACCTCTAAATGGTATTAATGCATCACAAAGCCTAATTTC
1 CATTCCCAATCATATCCCTTCACTCAACCACTAGATGGTATTGATGCATCACAAAGCTTAATTTC
* *
213312 CTTGGGGGCAAGGTGCAGCCT-A-CA--
66 CTTGGGGACAAGGT--ATCCTGACCACT
** * * * *
213336 CATTTTCAATCATATCCCCT-ACATCTAACCACTAAATAGTATTGATGCATCACGAAG-TCTAAT
1 CATTCCCAATCATATCCCTTCAC-TC-AACCACTAGATGGTATTGATGCATCACAAAGCT-TAAT
*
213399 TCCCTT-GGGACAAGGATATCCTGACCACT
63 TTCCTTGGGGACAAGG-TATCCTGACCACT
* **
213428 CATTACCAATCATATCCCTTCACTCAACCACTAGATGGTATTGATGCATCACAAAGCTTGGTTTT
1 CATTCCCAATCATATCCCTTCACTCAACCACTAGATGGTATTGATGCATCACAAAGCTT-AATTT
*
213493 CC-TAGGG-CAAGGATATCCTGACCACT
65 CCTTGGGGACAAGG-TATCCTGACCACT
* * ** * * * *
213519 TATTCCCAATCATATTCCTTTCTTTTAGCTACTAGATGGCATTGATGCATCA
1 CATTCCCAATCATA-TCCCTTCACTCAACCACTAGATGGTATTGATGCATCA
213571 AAGAAGGAAC
Statistics
Matches: 263, Mismatches: 44, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
88 6 0.02
89 79 0.30
90 55 0.21
91 63 0.24
92 57 0.22
93 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (91 bp):
CATTCCCAATCATATCCCTTCACTCAACCACTAGATGGTATTGATGCATCACAAAGCTTAATTTC
CTTGGGGACAAGGTATCCTGACCACT
Found at i:213998 original size:45 final size:45
Alignment explanation
Indices: 213947--214177 Score: 207
Period size: 45 Copynumber: 5.1 Consensus size: 45
213937 TTCGATCAAG
* * *
213947 TCTTCCTTCATTTGACTGTATTGGCATTAGGACTTGGTCAAACTA
1 TCTTCCTTCATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTA
* * * * *
213992 TCTTCCTTCATTTGGCTGTATTGGTGTTA-GTCCTCGTCAAACTC
1 TCTTCCTTCATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTA
* * * * *
214036 T-TTCCACCCTCAATTAACTGTATT-GCTGTTAGGACCTGGTCAAACTT
1 TCTT---CCTTCATTTGACTGTATTGGC-GTTAGGACCTAGTCAAACTA
* * * * *
214083 TCTTCCTTCAGTTAACCGTATTGACATTAGGACCTAGTCAAACTA
1 TCTTCCTTCATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTA
* ** *
214128 TCTTCATTTGTTTGGCTGTATTGGCGTTAGGACCTAGTCAAACTA
1 TCTTCCTTCATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTA
214173 TCTTC
1 TCTTC
214178 TTTTGTTTAG
Statistics
Matches: 148, Mismatches: 31, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
43 2 0.01
44 12 0.08
45 100 0.68
46 19 0.13
47 13 0.09
48 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (45 bp):
TCTTCCTTCATTTGACTGTATTGGCGTTAGGACCTAGTCAAACTA
Found at i:214183 original size:45 final size:45
Alignment explanation
Indices: 214064--214193 Score: 154
Period size: 45 Copynumber: 2.9 Consensus size: 45
214054 TGTATTGCTG
* * * * * *
214064 TTAGGACCTGGTCAAACTTTCTTCCTTCAG-TTAACCGTATTGACA
1 TTAGGACCTAGTCAAACTATCTTCATT-TGTTTAGCTGTATTGACA
* * *
214109 TTAGGACCTAGTCAAACTATCTTCATTTGTTTGGCTGTATTGGCG
1 TTAGGACCTAGTCAAACTATCTTCATTTGTTTAGCTGTATTGACA
*
214154 TTAGGACCTAGTCAAACTATCTTCTTTTGTTTAGCTGTAT
1 TTAGGACCTAGTCAAACTATCTTCATTTGTTTAGCTGTAT
214194 CTGGTCAAAC
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 1 0.01
45 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.18, T:0.40
Consensus pattern (45 bp):
TTAGGACCTAGTCAAACTATCTTCATTTGTTTAGCTGTATTGACA
Found at i:214334 original size:30 final size:30
Alignment explanation
Indices: 214299--214386 Score: 95
Period size: 30 Copynumber: 2.8 Consensus size: 30
214289 TTAGTTGTAT
* * *
214299 CTAGTCAAATTCTTTCCATCATCGTTTGAC
1 CTAGTCAAACTCTTCCCATCATCATTTGAC
214329 CTAGTCAAACTCTTCCCATCATCATTTGAC
1 CTAGTCAAACTCTTCCCATCATCATTTGAC
*
214359 TGTATCTAGTCAAACTTTTCCCATCATC
1 -----CTAGTCAAACTCTTCCCATCATC
214387 CTTTAACTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
30 27 0.55
35 22 0.45
ACGTcount: A:0.25, C:0.30, G:0.08, T:0.38
Consensus pattern (30 bp):
CTAGTCAAACTCTTCCCATCATCATTTGAC
Found at i:214348 original size:65 final size:65
Alignment explanation
Indices: 214264--214386 Score: 171
Period size: 65 Copynumber: 1.9 Consensus size: 65
214254 TTAGCTGTAT
* *
214264 CTAGTCAAAATTTCTCCATCATCATTT-AGTTGTATCTAGTCAAA-TTCTTTCCATCATCGTTTG
1 CTAGTCAAAATTTCTCCATCATCATTTGA-CTGTATCTAGTCAAACTT-TTCCCATCATCGTTTG
214327 AC
64 AC
*
214329 CTAGTCAAACTCTTC-CCATCATCATTTGACTGTATCTAGTCAAACTTTTCCCATCATC
1 CTAGTCAAAAT-TTCTCCATCATCATTTGACTGTATCTAGTCAAACTTTTCCCATCATC
214387 CTTTAACTAT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
65 46 0.88
66 6 0.12
ACGTcount: A:0.26, C:0.27, G:0.08, T:0.39
Consensus pattern (65 bp):
CTAGTCAAAATTTCTCCATCATCATTTGACTGTATCTAGTCAAACTTTTCCCATCATCGTTTGAC
Found at i:214427 original size:35 final size:36
Alignment explanation
Indices: 214191--214415 Score: 150
Period size: 35 Copynumber: 6.6 Consensus size: 36
214181 TGTTTAGCTG
* * * * **
214191 TATCTGGTCAAACT-TTTTCCAACATCGTTTGGCTA
1 TATCTAGTCAAACTCTTTCCCATCATCATTTAACTA
* * * * * *
214226 TATCTAGTGAAACACTTT-TCATTATCATTTAGCTG
1 TATCTAGTCAAACTCTTTCCCATCATCATTTAACTA
* ** *
214261 TATCTAGTCAAA--ATTTCTCCATCATCATTTAGTTG
1 TATCTAGTCAAACTCTTTC-CCATCATCATTTAACTA
* * *
214296 TATCTAGTCAAATTCTTT-CCATCATCGTTTGAC--
1 TATCTAGTCAAACTCTTTCCCATCATCATTTAACTA
* *
214329 ---CTAGTCAAACTC-TTCCCATCATCATTTGACTG
1 TATCTAGTCAAACTCTTTCCCATCATCATTTAACTA
*
214361 TATCTAGTCAAACT-TTTCCCATCATCCTTTAACTA
1 TATCTAGTCAAACTCTTTCCCATCATCATTTAACTA
*
214396 TATCTGGTCAAACTCTTTCC
1 TATCTAGTCAAACTCTTTCC
214416 AATCTCGTTT
Statistics
Matches: 152, Mismatches: 25, Indels: 25
0.75 0.12 0.12
Matches are distributed among these distances:
29 2 0.01
30 25 0.16
33 3 0.02
35 111 0.73
36 8 0.05
37 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.40
Consensus pattern (36 bp):
TATCTAGTCAAACTCTTTCCCATCATCATTTAACTA
Found at i:214520 original size:41 final size:41
Alignment explanation
Indices: 214470--214730 Score: 205
Period size: 40 Copynumber: 6.4 Consensus size: 41
214460 TTCATCCTTG
* * *
214470 GTTGACTTTATCTACTCTGCCCTGGTCAACCCTTTTAATCT
1 GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTTTAATCT
* * * *
214511 GTTGGCTTTATCGATTTTGCCCTAGCCAA-CCTTCTAAT-T
1 GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTTTAATCT
*
214550 GGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTAATCT
1 -GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTTTAATCT
* * * * * *
214592 ATTGGCTTTATCGATTTCGCCCTAGCCAA-CCTTCTAAT-T
1 GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTTTAATCT
* * * *
214631 GGTTGATTTTATCGGTTTTGCCTTGGTCAACCGTTTTAATCT
1 -GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTTTAATCT
* * * *
214673 GTAT-ACTTTAT-TAGTTTTGCCCTAGCCAA-CCTTCTAAT-T
1 GT-TGACTTTATCGA-TTTTGCCCTGGTCAACCCTTTTAATCT
* *
214712 GGTTGAATTTATCGGTTTT
1 -GTTGACTTTATCGATTTT
214731 TCCTTCGTCA
Statistics
Matches: 169, Mismatches: 40, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
39 4 0.02
40 81 0.48
41 81 0.48
42 3 0.02
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (41 bp):
GTTGACTTTATCGATTTTGCCCTGGTCAACCCTTTTAATCT
Found at i:214560 original size:81 final size:81
Alignment explanation
Indices: 214467--214908 Score: 405
Period size: 81 Copynumber: 5.5 Consensus size: 81
214457 CTTTTCATCC
*** *
214467 TTGGTTGACTTTATCTACTCTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCC
1 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCC
214532 CTAGCCAACCTTCTAA
66 CTAGCCAACCTTCTAA
* *
214548 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTAATCTATTGGCTTTATCGATTTCGCC
1 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCC
214613 CTAGCCAACCTTCTAA
66 CTAGCCAACCTTCTAA
* * * * *
214629 TTGGTTGATTTTATCGGTTTTGCCTTGGTCAACCGTTTTAATCTGTAT-ACTTTAT-TAGTTTTG
1 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTAATCTGT-TGGCTTTATCGA-TTTTG
214692 CCCTAGCCAACCTTCTAA
64 CCCTAGCCAACCTTCTAA
* * * * * * * * * * **
214710 TTGGTTGAATTTATCGGTTTTTCCTTCGTCAA-CTTTTCTAACCCGTTAGTTTTATCGGTTTCAC
1 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTT-TAATCTGTTGGCTTTATCGATTTTGC
* *
214774 CTTAGCTAACCCTT-TAAA
65 CCTAGCCAA-CCTTCT-AA
* *** * * * *
214792 TTGGTTG-CTTTATCAGTTTCAACCTAGTCAA-CATTTCTAA-CTGATTGGTTTTATCGATTTCG
1 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTT-TAATCTG-TTGGCTTTATCGATTTTG
* * * *
214854 -CCTTGACTAGCCTTTTAA
64 CCCTAG-CCAACCTTCTAA
* *
214872 TTGGTTGACTTTATCAGTTTTGCCCTAGTCAACCCTT
1 TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTT
214909 CTATTCGTTT
Statistics
Matches: 303, Mismatches: 46, Indels: 23
0.81 0.12 0.06
Matches are distributed among these distances:
80 24 0.08
81 262 0.86
82 17 0.06
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (81 bp):
TTGGTTGACTTTATCGGTTTTGCCCTGGTCAACCCTTTTAATCTGTTGGCTTTATCGATTTTGCC
CTAGCCAACCTTCTAA
Found at i:218781 original size:156 final size:155
Alignment explanation
Indices: 218504--219219 Score: 750
Period size: 156 Copynumber: 4.6 Consensus size: 155
218494 CAATTTTATT
* * * * *
218504 GTCCATTAGGGTTACCGAGATACTTTCATCTTGAAA-GTA-ACCTATAGGGGCATTTTTATAATT
1 GTCCTTTAGGGTTACCGGGATACTTTCAT-GTCAAAGGTATACCCATAGGGGCATTTTTATAATT
* * * ** *
218567 TTTTAAAAATGA-TAACTAGGTTGTCACTGGGTCCGTTTTTATATCGAAGGTGGGTATTTAGGAT
65 TTTT-AAAATGAGT-CCTAGGTTATCACTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGAT
218631 AGGTTCA-CCCTAGCTATAACCTTTTTAA
128 AGGTTCATCCC-AGCTATAACCTTTTTAA
* *
218659 GTCCTTTAGGGTTACCGGGATACTTTCATGTCAAAGGTATACCCATTGGGGCATTTTTGTAATTT
1 GTCCTTTAGGGTTACCGGGATACTTTCATGTCAAAGGTATACCCATAGGGGCATTTTTATAATTT
* * ** * * * *
218724 TTTAAAACTGAGTCCTAGCTTATCACTGAGTTTGCTTTTATGCCAAAAATGAGTATTTAGGAGAG
66 TTTAAAA-TGAGTCCTAGGTTATCACTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAG
* *
218789 GTTCATCCCAACTAGAACCTTTTTAA
130 GTTCATCCCAGCTATAACCTTTTTAA
* * * *
218815 GTCCTTTAGGGTTACCGAGATACTTTCATGTCGAAGGTATACCCATAGGGGTATTTTCATAATTT
1 GTCCTTTAGGGTTACCGGGATACTTTCATGTCAAAGGTATACCCATAGGGGCATTTTTATAATTT
* * * * * * * *
218880 TTTAGAATTGAGTCCTAAGTTACCACCGGG-CCTGCTTTTAAGCTGAAGGTGGGTATTTAGGATT
66 TTTA-AAATGAGTCCTAGGTTATCACTGGGTCC-GCTTTTATGCCGAAAGTGGGTATTTAGGATA
** *
218944 GGTTCATCCCTTCTATAATTCTTTTTAA
129 GGTTCATCCCAGCTATAA-CCTTTTTAA
*** * ** *
218972 GTCCTTTAGGGTTATTAGGAAACTTTCATGTCGAAA-GTATACTTATAGGGGCATTTTCATAATT
1 GTCCTTTAGGGTTACCGGGATACTTTCATGTC-AAAGGTATACCCATAGGGGCATTTTTATAATT
* *
219036 TTTTAGAATCGAGTCCTAGGTTGTCA-TCGGGTCCGC-TTTATGCCGAAAGTGGGTATTTAGGAT
65 TTTTAAAAT-GAGTCCTAGGTTATCACT-GGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGAT
*
219099 AGGTTCATCCCAGCTATAACCTTTTTGA
128 AGGTTCATCCCAGCTATAACCTTTTTAA
* * *
219127 GTCCTTTAAGGTTACCAGGATACTTTCAT-TCAAAGGTATACCTC-TAGGGACATTTTTCATAAT
1 GTCCTTTAGGGTTACCGGGATACTTTCATGTCAAAGGTATACC-CATAGGGGCATTTTT-ATAA-
* *
219190 TTTTTTAAGATCGAGTCCTAGGTTGTCACT
63 TTTTTTAAAAT-GAGTCCTAGGTTATCACT
219220 CTTACACCAA
Statistics
Matches: 462, Mismatches: 82, Indels: 32
0.80 0.14 0.06
Matches are distributed among these distances:
153 3 0.01
154 23 0.05
155 70 0.15
156 272 0.59
157 90 0.19
158 4 0.01
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (155 bp):
GTCCTTTAGGGTTACCGGGATACTTTCATGTCAAAGGTATACCCATAGGGGCATTTTTATAATTT
TTTAAAATGAGTCCTAGGTTATCACTGGGTCCGCTTTTATGCCGAAAGTGGGTATTTAGGATAGG
TTCATCCCAGCTATAACCTTTTTAA
Found at i:225614 original size:46 final size:46
Alignment explanation
Indices: 225559--225787 Score: 160
Period size: 47 Copynumber: 5.0 Consensus size: 46
225549 GAGACATTTG
*
225559 AAGCATTTAAAGATTTTTACAAAATGATCAACAGTGGTGGAATCTA
1 AAGCATTTAAAGATTTTTACAAAATGATCATCAGTGGTGGAATCTA
* * * * * * * * *
225605 AAGCATTTAAGAAAATTTTA-AAAATAAGTCTTCAATGGAGGCATATG
1 AAGCATTTAA-AGATTTTTACAAAATGA-TCATCAGTGGTGGAATCTA
*
225652 AAGCATTCAAAGATTTTTACAAAATGATCATC-GATGGTGGAATCTA
1 AAGCATTTAAAGATTTTTACAAAATGATCATCAG-TGGTGGAATCTA
* * ** ** * * * *
225698 AAGCATTTAAGAAAATTTT-CAAAACAAGTTTTTAGTGGAGGCATATA
1 AAGCATTTAA-AGATTTTTACAAAATGA-TCATCAGTGGTGGAATCTA
* * **
225745 AAGCATTTAAAGAGTTTTGCAAAATGAT-ATTGGTGGTGGAATC
1 AAGCATTTAAAGATTTTTACAAAATGATCATCAGTGGTGGAATC
225788 CAATACATTT
Statistics
Matches: 135, Mismatches: 40, Indels: 17
0.70 0.21 0.09
Matches are distributed among these distances:
45 10 0.07
46 57 0.42
47 67 0.50
48 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.19, T:0.31
Consensus pattern (46 bp):
AAGCATTTAAAGATTTTTACAAAATGATCATCAGTGGTGGAATCTA
Found at i:225624 original size:47 final size:46
Alignment explanation
Indices: 225559--225721 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 46
225549 GAGACATTTG
* * *
225559 AAGCATTTAAAGATTTTTACAAAATGATCAACAGTGGTGGAATCTA
1 AAGCATTTAAAAAATTTTACAAAATGATCATCAGTGGTGGAATCTA
* * * * * * *
225605 AAGCATTTAAGAAAATTTTA-AAAATAAGTCTTCAATGGAGGCATATG
1 AAGCATTTAA-AAAATTTTACAAAATGA-TCATCAGTGGTGGAATCTA
* * *
225652 AAGCATTCAAAGATTTTTACAAAATGATCATC-GATGGTGGAATCTA
1 AAGCATTTAAAAAATTTTACAAAATGATCATCAG-TGGTGGAATCTA
225698 AAGCATTTAAGAAAATTTT-CAAAA
1 AAGCATTTAA-AAAATTTTACAAAA
225722 CAAGTTTTTA
Statistics
Matches: 89, Mismatches: 23, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
46 49 0.55
47 40 0.45
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (46 bp):
AAGCATTTAAAAAATTTTACAAAATGATCATCAGTGGTGGAATCTA
Found at i:225629 original size:93 final size:92
Alignment explanation
Indices: 225514--225824 Score: 387
Period size: 93 Copynumber: 3.4 Consensus size: 92
225504 GAAGCATCCG
* * *
225514 AAGCATTT-A-AAAATTTTCAAAATAAGTCTTTGGTGGAGACATTTGAAGCATTTAAAGATTTTT
1 AAGCATTTAAGAAAATTTTCAAAATAAGTCTTTAGTGGAGGCATATGAAGCATTTAAAGATTTTT
*
225577 ACAAAATGATCAACAGTGGTGGAATCTA
66 ACAAAATGATCATC-GTGGTGGAATCTA
* * * *
225605 AAGCATTTAAGAAAATTTTAAAAATAAGTCTTCAATGGAGGCATATGAAGCATTCAAAGATTTTT
1 AAGCATTTAAGAAAATTTTCAAAATAAGTCTTTAGTGGAGGCATATGAAGCATTTAAAGATTTTT
225670 ACAAAATGATCATCGATGGTGGAATCTA
66 ACAAAATGATCATCG-TGGTGGAATCTA
* * * *
225698 AAGCATTTAAGAAAATTTTCAAAACAAGTTTTTAGTGGAGGCATATAAAGCATTTAAAGAGTTTT
1 AAGCATTTAAGAAAATTTTCAAAATAAGTCTTTAGTGGAGGCATATGAAGCATTTAAAGATTTTT
* * *
225763 GCAAAATGAT-ATTGGTGGTGGAATCCA
66 ACAAAATGATCA-TCGTGGTGGAATCTA
* * * *
225790 ATA-CATTTAAGAAAAGTATCAGAATAAGTCATTAG
1 A-AGCATTTAAGAAAATTTTCAAAATAAGTCTTTAG
225825 CAATGATAAC
Statistics
Matches: 190, Mismatches: 25, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
91 8 0.04
92 41 0.22
93 141 0.74
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.31
Consensus pattern (92 bp):
AAGCATTTAAGAAAATTTTCAAAATAAGTCTTTAGTGGAGGCATATGAAGCATTTAAAGATTTTT
ACAAAATGATCATCGTGGTGGAATCTA
Found at i:228058 original size:20 final size:20
Alignment explanation
Indices: 228035--228097 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
228025 AGCCTTAGAG
228035 ATTTTTATGTCATTTTAGTC
1 ATTTTTATGTCATTTTAGTC
* * * **
228055 ATTTTCCAAG-C--CTTAGAG
1 ATTTT-TATGTCATTTTAGTC
228073 ATTTTTATGTCATTTTAGTC
1 ATTTTTATGTCATTTTAGTC
228093 ATTTT
1 ATTTT
228098 CCAAGACTTA
Statistics
Matches: 29, Mismatches: 10, Indels: 8
0.62 0.21 0.17
Matches are distributed among these distances:
17 2 0.07
18 10 0.34
20 15 0.52
21 2 0.07
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (20 bp):
ATTTTTATGTCATTTTAGTC
Found at i:228135 original size:38 final size:38
Alignment explanation
Indices: 227997--228125 Score: 240
Period size: 38 Copynumber: 3.4 Consensus size: 38
227987 ACTCTCATGC
*
227997 ATTTTTATGTTATTTTAGTCATTTTCCAAGCCTTAGAG
1 ATTTTTATGTCATTTTAGTCATTTTCCAAGCCTTAGAG
228035 ATTTTTATGTCATTTTAGTCATTTTCCAAGCCTTAGAG
1 ATTTTTATGTCATTTTAGTCATTTTCCAAGCCTTAGAG
*
228073 ATTTTTATGTCATTTTAGTCATTTTCCAAGACTTAGAG
1 ATTTTTATGTCATTTTAGTCATTTTCCAAGCCTTAGAG
228111 ATTTTTATGTCATTT
1 ATTTTTATGTCATTT
228126 CATGCATTTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 89 1.00
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.50
Consensus pattern (38 bp):
ATTTTTATGTCATTTTAGTCATTTTCCAAGCCTTAGAG
Found at i:228384 original size:58 final size:58
Alignment explanation
Indices: 228254--228443 Score: 194
Period size: 58 Copynumber: 3.3 Consensus size: 58
228244 TTTTATGAAA
* * *
228254 TCATTTTGCATGACCTA-GAGACTTTTATGTAACTTT-ATGAATAT-TTGGGATCATTTAAGT
1 TCATTTTTCATGATCTAGGA-ACTTTTATGTAA-TTTCATG--TATGTTGGGGTCATTT-AGT
228314 T-ATTTTGT-ATGATCTAGGAACTTTTATGTAATTTCATGTATGTTGGGGTCATTTAGT
1 TCATTTT-TCATGATCTAGGAACTTTTATGTAATTTCATGTATGTTGGGGTCATTTAGT
* * ** *
228371 TCATTTTTCATGATTTATGG-ACTTTTATGCAATTTCATGTATGTTATGGTCATTTAGG
1 TCATTTTTCATGATCTA-GGAACTTTTATGTAATTTCATGTATGTTGGGGTCATTTAGT
*
228429 TCATTTTACATGATC
1 TCATTTTTCATGATC
228444 CATAATCTTG
Statistics
Matches: 113, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
57 8 0.07
58 73 0.65
59 29 0.26
60 3 0.03
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (58 bp):
TCATTTTTCATGATCTAGGAACTTTTATGTAATTTCATGTATGTTGGGGTCATTTAGT
Found at i:228397 original size:29 final size:30
Alignment explanation
Indices: 228345--228442 Score: 76
Period size: 29 Copynumber: 3.3 Consensus size: 30
228335 TTTTATGTAA
** *
228345 TTTCATGTATGTTGGGGTCATTTAGTTCATT
1 TTTCATG-ATGTTATGGACATTTAGTTCATT
* * *
228376 TTTCATGAT-TTATGGACTTTTA-TGCA-A
1 TTTCATGATGTTATGGACATTTAGTTCATT
* *
228403 TTTCATGTATGTTATGGTCATTTAGGTCATT
1 TTTCATG-ATGTTATGGACATTTAGTTCATT
*
228434 TTACATGAT
1 TTTCATGAT
228443 CCATAATCTT
Statistics
Matches: 51, Mismatches: 12, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
27 7 0.14
28 5 0.10
29 20 0.39
30 6 0.12
31 13 0.25
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.50
Consensus pattern (30 bp):
TTTCATGATGTTATGGACATTTAGTTCATT
Found at i:230581 original size:21 final size:21
Alignment explanation
Indices: 230552--230592 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
230542 AAAGGTCAAA
230552 ACCCTAGAAAGTATCGATACAG
1 ACCCTAG-AAGTATCGATACAG
230574 ACCC-AGAAGTATCGATACA
1 ACCCTAGAAGTATCGATACA
230593 TATTGCTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 13 0.68
21 2 0.11
22 4 0.21
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (21 bp):
ACCCTAGAAGTATCGATACAG
Found at i:230619 original size:13 final size:13
Alignment explanation
Indices: 230601--230625 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
230591 CATATTGCTT
230601 TGTATCGATACAC
1 TGTATCGATACAC
230614 TGTATCGATACA
1 TGTATCGATACA
230626 TGATCATGGT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:230737 original size:33 final size:33
Alignment explanation
Indices: 230695--230765 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
230685 CTACCACTGT
* ** *
230695 TTGTATCGATACATAGTACATTGTATTGATATA
1 TTGTATCGATACATAGTAAAAGGTATCGATATA
*
230728 TTGTATCGATACATGGTAAAAGGTATCGATATA
1 TTGTATCGATACATAGTAAAAGGTATCGATATA
230761 TTGTA
1 TTGTA
230766 CCTAACGGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATAGTAAAAGGTATCGATATA
Found at i:231056 original size:34 final size:35
Alignment explanation
Indices: 231008--231080 Score: 96
Period size: 34 Copynumber: 2.1 Consensus size: 35
230998 ATTTTCTACA
*
231008 TTTCAAAGAGCTTTTGTATTCCTTAT-TG-TTATTC
1 TTTCAAACAGCTTTTGTATTCCTT-TGTGCTTATTC
* *
231042 TTTCAAACATCTTTTTTATTCCTTTGTGCTTATTC
1 TTTCAAACAGCTTTTGTATTCCTTTGTGCTTATTC
231077 TTTC
1 TTTC
231081 CACAAATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 1 0.03
34 23 0.68
35 10 0.29
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.56
Consensus pattern (35 bp):
TTTCAAACAGCTTTTGTATTCCTTTGTGCTTATTC
Found at i:236939 original size:13 final size:13
Alignment explanation
Indices: 236923--236963 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
236913 AGTATCAATG
*
236923 CATTGTATTGATA
1 CATTGTATCGATA
*
236936 CATTGCATCGATA
1 CATTGTATCGATA
236949 CATTGTATCGATA
1 CATTGTATCGATA
236962 CA
1 CA
236964 AGGGCACTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.37
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:243362 original size:158 final size:158
Alignment explanation
Indices: 243179--243900 Score: 830
Period size: 157 Copynumber: 4.6 Consensus size: 158
243169 ATTTTATTTC
* * *
243179 AAGGCCAAAAGTACATGGCCAAATCTTTCGTGTAACTTTTGGATGTATTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACTTGGCCAAATCTTTCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
* * * * *
243244 ATCTCTTTGATGCTTAATTTTGTGTTTTTAATTATTTGAGGACTAATTTATATATTTAGAAAGTT
66 ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAGAAAGTT
* **
243309 TAGAGGGTATATTTGAAAATTTTGTTCT
131 TAGAGGGTTTATTCAAAAATTTTGTTCT
* * * *
243337 AAGGCCAAAAGTACTTGGCCGAATCTTCCTTGTAACTTTTGGATGTGTTTTGTATGTTGATTTTT
1 AAGGCCAAAAGTACTTGGCCAAATCTTTCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
* *
243402 GTTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAAGACTAATTTGTAAATTTAGAAAGTT
66 ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAGAAAGTT
* * *
243467 TAGGGGGTTTATTCAAAAAATTTGTTTT
131 TAGAGGGTTTATTCAAAAATTTTGTTCT
* * * *
243495 AAGGCCAAAGGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGTTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACTTGGCCAAATCTTTCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
* * * * *
243560 ATTTCTTTGATGCTTAATTTTGT-ATTTTAATTATGTAAGGATTAATTTGTAAGTTCAAAAAGTT
66 ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAGAAAGTT
243624 TA-AGGGGTTTATTCAAAAATTTTGTTCT
131 TAGA-GGGTTTATTCAAAAATTTTGTTCT
* * *
243652 AAGGCCAAAAGTACTTGGCC-AAT-TTTCCCTTATAACTTTTGGATATGTTTTATATGCT-ACTT
1 AAGGCCAAAAGTACTTGGCCAAATCTTT--CTTGTAACTTTTGGATGTGTTTTGTATGCTGA-TT
* * * * * * *
243714 TTGATTTCTTTGATGCTTAAGTTTGTG-TTTTCATTATGTAAGAACTGATTTGCAAAATTAGAAA
63 TTCATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAGAAA
* * ** *
243778 ATTTAGTGGGTTTATTTGAAAATTTTGATCT
128 GTTTAGAGGGTTTATTCAAAAATTTTGTTCT
* * * * * * * *
243809 AAGGCTAAAAGTATTTGGCCGAGTTTTTCTTGTAACTTTTGGAATGTGCTTTATATAG-T-AATT
1 AAGGCCAAAAGTACTTGGCCAAATCTTTCTTGTAACTTTTGG-ATGTGTTTTGTAT-GCTGATTT
* ** *
243872 TGATTTCTTCAATGTTTAATTTTGTGTTT
64 TCATTTCTTTGATGCTTAATTTTGTGTTT
243901 AAATTAGGTT
Statistics
Matches: 484, Mismatches: 69, Indels: 22
0.84 0.12 0.04
Matches are distributed among these distances:
155 2 0.00
156 4 0.01
157 238 0.49
158 236 0.49
159 4 0.01
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.46
Consensus pattern (158 bp):
AAGGCCAAAAGTACTTGGCCAAATCTTTCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAGAAAGTT
TAGAGGGTTTATTCAAAAATTTTGTTCT
Found at i:243672 original size:157 final size:158
Alignment explanation
Indices: 243179--243900 Score: 821
Period size: 158 Copynumber: 4.6 Consensus size: 158
243169 ATTTTATTTC
* * * *
243179 AAGGCCAAAAGTACATGGCCAAATCTTTCGTGTAACTTTTGGATGTATTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
* * * * * *
243244 ATCTCTTTGATGCTTAATTTTGTGTTTTTAATTATTTGAGGACTAATTTATATATTTAGAAAGTT
66 ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAAAAAGTT
* **
243309 TAGAGGGTATATTTGAAAATTTTGTTCT
131 TAGAGGGTTTATTCAAAAATTTTGTTCT
* * *
243337 AAGGCCAAAAGTACTTGGCCGAATCTTCCTTGTAACTTTTGGATGTGTTTTGTATGTTGATTTTT
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
* * *
243402 GTTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAAGACTAATTTGTAAATTTAGAAAGTT
66 ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAAAAAGTT
* * *
243467 TAGGGGGTTTATTCAAAAAATTTGTTTT
131 TAGAGGGTTTATTCAAAAATTTTGTTCT
* * *
243495 AAGGCCAAAGGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGTTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
* * * *
243560 ATTTCTTTGATGCTTAATTTTGT-ATTTTAATTATGTAAGGATTAATTTGTAAGTTCAAAAAGTT
66 ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAAAAAGTT
243624 TA-AGGGGTTTATTCAAAAATTTTGTTCT
131 TAGA-GGGTTTATTCAAAAATTTTGTTCT
* * * *
243652 AAGGCCAAAAGTACTTGGCC-AATTTTCCCTTATAACTTTTGGATATGTTTTATATGCT-ACTTT
1 AAGGCCAAAAGTACTTGGCCAAATCTT-CCTTGTAACTTTTGGATGTGTTTTGTATGCTGA-TTT
* * * * * * *
243715 TGATTTCTTTGATGCTTAAGTTTGTG-TTTTCATTATGTAAGAACTGATTTGCAAAATTAGAAAA
64 TCATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTA-AAAA
* ** *
243779 -TTTAGTGGGTTTATTTGAAAATTTTGATCT
128 GTTTAGAGGGTTTATTCAAAAATTTTGTTCT
* * * * * * * * *
243809 AAGGCTAAAAGTATTTGGCCGAGTTTTTCTTGTAACTTTTGGAATGTGCTTTATATAG-T-AATT
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTGTAACTTTTGG-ATGTGTTTTGTAT-GCTGATTT
* ** *
243872 TGATTTCTTCAATGTTTAATTTTGTGTTT
64 TCATTTCTTTGATGCTTAATTTTGTGTTT
243901 AAATTAGGTT
Statistics
Matches: 486, Mismatches: 68, Indels: 20
0.85 0.12 0.03
Matches are distributed among these distances:
156 6 0.01
157 236 0.49
158 243 0.50
159 1 0.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.46
Consensus pattern (158 bp):
AAGGCCAAAAGTACTTGGCCAAATCTTCCTTGTAACTTTTGGATGTGTTTTGTATGCTGATTTTC
ATTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGTAAGGACTAATTTGTAAATTTAAAAAGTT
TAGAGGGTTTATTCAAAAATTTTGTTCT
Found at i:243724 original size:315 final size:315
Alignment explanation
Indices: 243179--243821 Score: 857
Period size: 315 Copynumber: 2.0 Consensus size: 315
243169 ATTTTATTTC
* * *
243179 AAGGCCAAAAGTACATGGCCAAATCTTTCGTGTAACTTTTGGATGTATTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACATGGCCAAATCTTCCGTCTAACTTTTAGATGTATTTTGTATGCTGATTTTC
* * * * *
243244 ATCTCTTTGATGCTTAATTTTGTGTTTTTAATTATTTGAGGACTAATTTATATATTTAGAAAGTT
66 ATCTCTTTGATGCTTAATTTTGTGATTTTAATTATGTAAGGACTAATTTATATATTCAAAAAGTT
** *
243309 TAGAGGGTATATTTGAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTTCCTTGTAACT
131 TAGAGGGTATATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTTCCTTATAACT
* * * * *
243374 TTTGGATGTGTTTTGTATGTTGATTTTTGTTTCTTTGATGCTTAATTTTGTGTTTTTAATTATGT
196 TTTGGATATGTTTTATATGCTGACTTTTGTTTCTTTGATGCTTAAGTTTGTG-TTTTAATTATGT
* * *
243439 AA-AGACTAATTTGTAAATTTAGAAAGTTTAGGGGGTTTATTCAAAAAATTTGTTTT
260 AAGA-ACTAATTTGCAAAATTAGAAAATTTAGGGGGTTTATTCAAAAAATTTGTTTT
* * * *
243495 AAGGCCAAAGGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGTTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACATGGCCAAATCTTCCGTCTAACTTTTAGATGTATTTTGTATGCTGATTTTC
* * *
243560 ATTTCTTTGATGCTTAATTTTGT-ATTTTAATTATGTAAGGATTAATTTGTA-AGTTCAAAAAGT
66 ATCTCTTTGATGCTTAATTTTGTGATTTTAATTATGTAAGGACTAATTTATATA-TTCAAAAAGT
* *
243623 TTA-AGGGGTTTATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCC-AATTTTCCCTTATA
130 TTAGA-GGGTATATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTT-CCTTATA
*
243686 ACTTTTGGATATGTTTTATATGCT-ACTTTTGATTTCTTTGATGCTTAAGTTTGTGTTTTCATTA
193 ACTTTTGGATATGTTTTATATGCTGACTTTTG-TTTCTTTGATGCTTAAGTTTGTGTTTTAATTA
* * ** * * *
243750 TGTAAGAACTGATTTGCAAAATTAGAAAATTTAGTGGGTTTATTTGAAAATTTTGATCT
257 TGTAAGAACTAATTTGCAAAATTAGAAAATTTAGGGGGTTTATTCAAAAAATTTGTTTT
*
243809 AAGGCTAAAAGTA
1 AAGGCCAAAAGTA
243822 TTTGGCCGAG
Statistics
Matches: 284, Mismatches: 38, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
314 79 0.28
315 125 0.44
316 80 0.28
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.45
Consensus pattern (315 bp):
AAGGCCAAAAGTACATGGCCAAATCTTCCGTCTAACTTTTAGATGTATTTTGTATGCTGATTTTC
ATCTCTTTGATGCTTAATTTTGTGATTTTAATTATGTAAGGACTAATTTATATATTCAAAAAGTT
TAGAGGGTATATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTTCCTTATAACT
TTTGGATATGTTTTATATGCTGACTTTTGTTTCTTTGATGCTTAAGTTTGTGTTTTAATTATGTA
AGAACTAATTTGCAAAATTAGAAAATTTAGGGGGTTTATTCAAAAAATTTGTTTT
Found at i:243939 original size:315 final size:314
Alignment explanation
Indices: 243179--243949 Score: 822
Period size: 315 Copynumber: 2.4 Consensus size: 314
243169 ATTTTATTTC
* * * * * ** * *
243179 AAGGCCAAAAGTACATGGCCAAATCTTTCGTGTAACTTTTGGATGTATTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGCTTTATATGCTGAATTTC
* ** *
243244 ATCTCTTTGATGCTTAATTTTGTGTTTTTAATTA-TTTGAGGACTAATTTATATATTTAGAAAGT
66 ATTTCTTCAATGCTTAATTTTGTG-TTTTAATTAGTTTG-GGACTAATTTATAAATTTAGAAAGT
* ** *
243308 TTAGAGGGTATATTTGAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTTCCTTGTAAC
129 TTAG-GGGTTTATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTTCCTTATAAC
* * * * *
243373 TTTTGGATGTGTTTTGTATGTTGATTTTTGTTTCTTTGATGCTTAATTTTGTGTTTTTAATTATG
193 TTTTGGATATGTTTTATATGCTGACTTTTGTTTCTTTGATGCTTAAGTTTGTGTTTTTAATTATG
* * * * *
243438 TAAAGACTAATTTGTAAATTTAGAAAGTTTAGGGGGTTTATTCAAAAAATTTGTTTT
258 TAAAGACTAATTTGCAAAATTAGAAAATTTAGGGGGTTTATTCAAAAAATTTGATCT
* * * *
243495 AAGGCCAAAGGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGTTTTGTATGCTGATTTTC
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGCTTTATATGCTGAATTTC
** * ** * * * * *
243560 ATTTCTTTGATGCTTAATTTTGTATTTTAATTA-TGTAAGGATTAATTTGTAAGTTCAAAAAGTT
66 ATTTCTTCAATGCTTAATTTTGTGTTTTAATTAGT-TTGGGACTAATTTATAAATTTAGAAAGTT
*
243624 TAAGGGGTTTATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCC-AATTTTCCCTTATAAC
130 T-AGGGGTTTATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTT-CCTTATAAC
*
243688 TTTTGGATATGTTTTATATGCT-ACTTTTGATTTCTTTGATGCTTAAGTTTGTG-TTTTCATTAT
193 TTTTGGATATGTTTTATATGCTGACTTTTG-TTTCTTTGATGCTTAAGTTTGTGTTTTTAATTAT
* * ** *
243751 GT-AAGAACTGATTTGCAAAATTAGAAAATTTAGTGGGTTTATTTGAAAATTTTGATCT
257 GTAAAG-ACTAATTTGCAAAATTAGAAAATTTAGGGGGTTTATTCAAAAAATTTGATCT
* * * * * * * *
243809 AAGGCTAAAAGTATTTGGCCGAGTTTTTCTTGTAACTTTTGGAATGTGCTTTATATAG-T-AATT
1 AAGGCCAAAAGTACTTGGCCAAATCTTCCTTCTAACTTTTAG-ATGTGCTTTATAT-GCTGAATT
* * * *
243872 TGATTTCTTCAATGTTTAATTTTGTGTTTAAATTAGGTTTGGGACCT-ATTTACAAATTTAGAAA
64 TCATTTCTTCAATGCTTAATTTTGTGTTTTAATTA-GTTTGGGA-CTAATTTATAAATTTAGAAA
*
243936 GTTTAGGGATTTAT
127 GTTTAGGGGTTTAT
243950 CTGTAAAAAT
Statistics
Matches: 380, Mismatches: 65, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
313 3 0.01
314 138 0.36
315 153 0.40
316 86 0.23
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (314 bp):
AAGGCCAAAAGTACTTGGCCAAATCTTCCTTCTAACTTTTAGATGTGCTTTATATGCTGAATTTC
ATTTCTTCAATGCTTAATTTTGTGTTTTAATTAGTTTGGGACTAATTTATAAATTTAGAAAGTTT
AGGGGTTTATTCAAAAATTTTGTTCTAAGGCCAAAAGTACTTGGCCGAATCTTCCTTATAACTTT
TGGATATGTTTTATATGCTGACTTTTGTTTCTTTGATGCTTAAGTTTGTGTTTTTAATTATGTAA
AGACTAATTTGCAAAATTAGAAAATTTAGGGGGTTTATTCAAAAAATTTGATCT
Found at i:245107 original size:28 final size:28
Alignment explanation
Indices: 245067--245138 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
245057 AAAAAAAAAT
* ** *
245067 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
245095 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
245123 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
245139 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:245258 original size:52 final size:52
Alignment explanation
Indices: 245128--245296 Score: 139
Period size: 52 Copynumber: 3.2 Consensus size: 52
245118 AATAACGAGG
* * * * * * *
245128 TTGGAGTATCCTCGATTG-TGAAAAATTTGTATTTTTGGAAATAGAATC-GGA
1 TTGGAGTATCCCCGATTGAGGAAAAA-TTGGAGTTTTGAAAATAAAACCGGGA
* * *
245179 GTTGGAATATCCCCGATTAAAGG-AAAATTGGCGTTTTGAAAATAAAACCGGGA
1 -TTGGAGTATCCCCGATT-GAGGAAAAATTGGAGTTTTGAAAATAAAACCGGGA
* * ** *
245232 TTGGAGTATCCCCGATTGAGGAAAAATTAGTGTTTT-AGCGATAAAACCGGGG
1 TTGGAGTATCCCCGATTGAGGAAAAATTGGAGTTTTGA-AAATAAAACCGGGA
245284 TTGGAGTATCCCC
1 TTGGAGTATCCCC
245297 TCGGAAATAA
Statistics
Matches: 95, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
51 4 0.04
52 83 0.87
53 7 0.07
54 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (52 bp):
TTGGAGTATCCCCGATTGAGGAAAAATTGGAGTTTTGAAAATAAAACCGGGA
Found at i:245342 original size:27 final size:28
Alignment explanation
Indices: 245279--245354 Score: 109
Period size: 27 Copynumber: 2.8 Consensus size: 28
245269 GCGATAAAAC
***
245279 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
245307 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
245334 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
245355 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 25 0.57
28 19 0.43
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:245419 original size:212 final size:212
Alignment explanation
Indices: 245062--245461 Score: 617
Period size: 212 Copynumber: 1.9 Consensus size: 212
245052 AAGAGAAAAA
* *
245062 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* * *
245127 GTTGGAGTATCCTCGATTGTGAAAAATTTGTATTTTTGGAAATAGAATCGGAGTTGGAATATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTTGTATTTTTGGAAATAAAATCGGAGTTAGAATATCCC
* *
245192 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGAGGAAA
131 CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCGATTGAGGAAA
245256 AATTAGTGTTTTAGCGAT
195 AATTAGTGTTTTAGCGAT
* * *
245274 AAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
245338 GTTGGAGTATCCCCGATTGTGAAGAAATTTGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATC
66 GTTGGAGTATCCCCGATTGTGAA-AAATTTGT-ATTTTTGGAAATAAAATCGGAGTTAGAATATC
* * *
245403 CCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTG
129 CCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTG
245462 TGGAGAATTG
Statistics
Matches: 170, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 29 0.17
212 103 0.61
213 38 0.22
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTTGTATTTTTGGAAATAAAATCGGAGTTAGAATATCCC
CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGAGGAAAA
ATTAGTGTTTTAGCGAT
Found at i:245438 original size:51 final size:53
Alignment explanation
Indices: 245342--245460 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 53
245332 AACGGGGTTG
* * *
245342 GAGTATCCCCGATTGTGAAGAAATTTGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
245396 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
*
245447 GAATATCCCCGATT
1 GAGTATCCCCGATT
245461 GTGGAGAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
51 34 0.58
52 2 0.03
53 8 0.14
54 15 0.25
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.33
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:247838 original size:13 final size:13
Alignment explanation
Indices: 247820--247845 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
247810 ACAAAGATCT
247820 ATGTATCGATACA
1 ATGTATCGATACA
247833 ATGTATCGATACA
1 ATGTATCGATACA
247846 CAGAAAAATG
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:247841 original size:33 final size:33
Alignment explanation
Indices: 247799--247865 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
247789 AAAATTTCCA
***
247799 AATGTATCGATACAAAGATCTATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
247832 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
247865 A
1 A
247866 TTTCCTTGGC
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:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:247912 original size:19 final size:17
Alignment explanation
Indices: 247883--247953 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 17
247873 GGCAGTAGCT
*
247883 AATTTTGTATCGATACA
1 AATTATGTATCGATACA
247900 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
247918 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
247933 AATTTATGTATCGATACA
1 AA-TTATGTATCGATACA
247951 AAT
1 AAT
247954 CGTTGAATTT
Statistics
Matches: 45, Mismatches: 1, Indels: 16
0.73 0.02 0.26
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
16 2 0.04
17 2 0.04
18 5 0.11
19 24 0.53
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:247925 original size:13 final size:13
Alignment explanation
Indices: 247907--247931 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
247897 ACAATACTTA
247907 TGTATCGATACAT
1 TGTATCGATACAT
247920 TGTATCGATACA
1 TGTATCGATACA
247932 AAATTTATGT
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:247928 original size:32 final size:32
Alignment explanation
Indices: 247887--247950 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
247877 GTAGCTAATT
*
247887 TTGTATCGATACAATACTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACA
*
247919 TTGTATCGATACAAAATTTATGTATCGATACA
1 TTGTATCGATACAAAACTTATGTATCGATACA
247951 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAAAACTTATGTATCGATACA
Found at i:249860 original size:48 final size:48
Alignment explanation
Indices: 249798--249977 Score: 279
Period size: 48 Copynumber: 3.8 Consensus size: 48
249788 AGAGGAGTGC
** * * * *
249798 CAATGTGCAAATTCAAGGCCAACAACATCGAGCTAAAGGAAAAATGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAAGTGGA
*
249846 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAAGTGGA
* *
249894 CAATGTGCTGATTTAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAAGTGGA
249942 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAA
1 CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAA
249978 TAAATGTGCC
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 122 1.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.19
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCAACATTGAGCTAAGGGAAAAGTGGA
Found at i:250187 original size:28 final size:28
Alignment explanation
Indices: 250126--250625 Score: 536
Period size: 28 Copynumber: 17.3 Consensus size: 28
250116 CACCAACTTG
*
250126 TGTGGGCTTTGAAAGGGGATGCCACTAACT
1 TGTGGGCTTTGAAA-GGG-TGCCACTGACT
* *
250156 TGTGGGCTTTGAAGGGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
250184 TGTGGGCTGTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
250212 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
250240 TGTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* * *
250269 GTGTGGGCTTTGGAAGAGTGCCACTGATTT
1 -TGTGGGCTTTGAAAGGGTGCCACTGA-CT
250299 GTGTGGGCTTTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
*
250330 TGTGGGCTTTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
250358 TGTGTGTGATTTGAAAGGGTACGCCACTAACT
1 TGTG-G-GCTTTGAAAGGGT--GCCACTGACT
* *
250390 TGCGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
250418 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
250446 TGTGAGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
*
250475 GTGTGGGCTTTGAAA-GATACGCCACTGACT
1 -TGTGGGCTTTGAAAGGGT--GCCACTGACT
** *
250505 TGCAGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * **
250533 TGTGGACTTTGAAAAGGTGCCTTTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
250561 TGTGGGCTTTG-AAGGGTGCCACTAATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
* * * *
250589 GTGTGGGCTTTGGAACGATGCCATTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
250618 TGTGGGCT
1 TGTGGGCT
250626 GAATGACGAA
Statistics
Matches: 400, Mismatches: 54, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.03
28 206 0.51
29 32 0.08
30 122 0.31
31 10 0.03
32 20 0.05
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:250419 original size:206 final size:198
Alignment explanation
Indices: 250126--250585 Score: 602
Period size: 206 Copynumber: 2.3 Consensus size: 198
250116 CACCAACTTG
* * * *
250126 TGTGGGCTTTGAAAGGGGATGCCACTAACTTGTGGGCTTTGAAGGGGTACCACTGACTTGTGGGC
1 TGTGGGCTTTGAAA-GGG-TGCCACTAACTTGTGGGATTTGAAAGGGTACCACTAACTTGCGGGC
*
250191 TGTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGG
64 TGTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGGAAGG
* * **
250256 GTGCCACTGATTTGTGTGGGCTTTGGAAGAGT-GCCACTGATTTGTGTGGGCTTTGAAAGGGTAT
129 GTGCCACTGATTTGTGTGGGCTTTGAAAGA-TAGCCACTGA-CT-TGCAGGCTTTGAAAGGG--T
*
250320 GCCACTGACT
189 GCCACTAACT
* *
250330 TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGTGTGATTTGAAAGGGTACGCCACTAACTTGCGG
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTG-G-GATTTGAAAGGGTA--CCACTAACTTGCGG
*
250395 GCT-TTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGGA
62 GCTGTGAAAA-GGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGGA
250459 AGGGTGCCACTGATTTGTGTGGGCTTTGAAAGATACGCCACTGACTTGCAGGCTTTGAAAGGGTG
126 AGGGTGCCACTGATTTGTGTGGGCTTTGAAAGATA-GCCACTGACTTGCAGGCTTTGAAAGGGTG
250524 CCACTAACT
190 CCACTAACT
* * ** * * *
250533 TGTGGACTTTGAAAAGGTGCCTTTGACTTGTGGGCTTTG-AAGGGTGCCACTAA
1 TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGATTTGAAAGGGTACCACTAA
250586 TTTGTGTGGG
Statistics
Matches: 229, Mismatches: 20, Indels: 20
0.85 0.07 0.07
Matches are distributed among these distances:
198 7 0.03
200 6 0.03
201 5 0.02
202 14 0.06
203 41 0.18
204 26 0.11
205 21 0.09
206 101 0.44
207 8 0.03
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.30
Consensus pattern (198 bp):
TGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGATTTGAAAGGGTACCACTAACTTGCGGGCTG
TGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGAGCTTTGGAAGGGT
GCCACTGATTTGTGTGGGCTTTGAAAGATAGCCACTGACTTGCAGGCTTTGAAAGGGTGCCACTA
ACT
Found at i:251785 original size:20 final size:18
Alignment explanation
Indices: 251762--251838 Score: 75
Period size: 20 Copynumber: 4.1 Consensus size: 18
251752 TTTTTGTTTG
251762 TTTGTTTTTTGTTTTTCCTT
1 TTTGTTTTTTGTTTTT--TT
*
251782 TTTGTTTTTAGTTTTTTT
1 TTTGTTTTTTGTTTTTTT
* *
251800 TTTGTTTTTTCTTGGTTTTA
1 TTTGTTTTTTGTT--TTTTT
251820 TTTGTTTTTAT-TTTTTTT
1 TTTGTTTTT-TGTTTTTTT
251838 T
1 T
251839 GTATGAAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
18 18 0.37
20 30 0.61
21 1 0.02
ACGTcount: A:0.04, C:0.04, G:0.10, T:0.82
Consensus pattern (18 bp):
TTTGTTTTTTGTTTTTTT
Found at i:251796 original size:13 final size:12
Alignment explanation
Indices: 251752--251808 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 12
251742 TCTGGACCCC
251752 TTTTTGTTTGTTTG
1 TTTTTG-TT-TTTG
*
251766 TTTTTTGTTTTTCC
1 -TTTTTGTTTTT-G
251780 TTTTTGTTTTTAG
1 TTTTTGTTTTT-G
251793 TTTTT-TTTTTG
1 TTTTTGTTTTTG
251804 TTTTT
1 TTTTT
251809 TCTTGGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
11 6 0.16
12 5 0.13
13 19 0.50
14 2 0.05
15 6 0.16
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (12 bp):
TTTTTGTTTTTG
Found at i:251808 original size:31 final size:28
Alignment explanation
Indices: 251750--251802 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
251740 CATCTGGACC
251750 CCTTTTTGTTTGTTTGTTTTTTGTTTTT
1 CCTTTTTGTTTGTTTGTTTTTTGTTTTT
*
251778 CCTTTTTGTTT-TTAGTTTTTT-TTTT
1 CCTTTTTGTTTGTTTGTTTTTTGTTTT
251803 GTTTTTTCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 4 0.17
27 9 0.38
28 11 0.46
ACGTcount: A:0.02, C:0.08, G:0.11, T:0.79
Consensus pattern (28 bp):
CCTTTTTGTTTGTTTGTTTTTTGTTTTT
Found at i:251809 original size:7 final size:7
Alignment explanation
Indices: 251752--251802 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
251742 TCTGGACCCC
251752 TTTTTGT
1 TTTTTGT
251759 TTGTTTGT
1 TT-TTTGT
251767 TTTTTG-
1 TTTTTGT
**
251773 TTTTTCC
1 TTTTTGT
251780 TTTTTGT
1 TTTTTGT
*
251787 TTTTAGT
1 TTTTTGT
251794 TTTTT-T
1 TTTTTGT
251800 TTT
1 TTT
251803 GTTTTTTCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
6 9 0.24
7 21 0.57
8 7 0.19
ACGTcount: A:0.02, C:0.04, G:0.12, T:0.82
Consensus pattern (7 bp):
TTTTTGT
Found at i:251827 original size:31 final size:29
Alignment explanation
Indices: 251752--251838 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
251742 TCTGGACCCC
* *
251752 TTTTTGTTTGTTTGTTTTTTGTTTTTCCT
1 TTTTTATTTGTTTTTTTTTTGTTTTTCCT
* *
251781 TTTTGTTTTTAGTTTTTTTTTTGTTTTTTCT
1 TTTT-TATTT-GTTTTTTTTTTGTTTTTCCT
*
251812 TGGTTTTATTTGTTTTTATTTT-TTTTT
1 T--TTTTATTTGTTTTTTTTTTGTTTTT
251839 GTATGAAGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
29 4 0.08
30 9 0.18
31 29 0.59
32 4 0.08
33 3 0.06
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.82
Consensus pattern (29 bp):
TTTTTATTTGTTTTTTTTTTGTTTTTCCT
Found at i:259206 original size:13 final size:13
Alignment explanation
Indices: 259184--259225 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
259174 GATACTATTC
259184 ACAATGTATCGAT
1 ACAATGTATCGAT
*
259197 ACACTGTATCGAT
1 ACAATGTATCGAT
*
259210 ACAATGTATTGAT
1 ACAATGTATCGAT
259223 ACA
1 ACA
259226 TGAACAGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:259364 original size:13 final size:13
Alignment explanation
Indices: 259346--259370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
259336 ACTGCAGTTT
259346 ATGTATCGATACA
1 ATGTATCGATACA
259359 ATGTATCGATAC
1 ATGTATCGATAC
259371 TAAGCAAAAT
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):
ATGTATCGATACA
Found at i:261883 original size:20 final size:20
Alignment explanation
Indices: 261830--261884 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
261820 AAATTCCCAG
**
261830 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
261850 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
261870 ATGTATCGATACATT
1 ATGTATCGATACATT
261885 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:262832 original size:48 final size:48
Alignment explanation
Indices: 262718--263026 Score: 269
Period size: 48 Copynumber: 6.5 Consensus size: 48
262708 TGAAAAAGAA
* ** * *
262718 TGCCAATGTGCTGAGACAAGGCCAACGATATT-GTGCTTAAAGATG-AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGT-CTTAAAG--GCAAGG
* *
262767 TGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGG
* *
262815 TGCCAATAAGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGG
* * * * *
262863 TGCCAATATGCTGATTCAAGGCTAGCGATATTGGTCTCATGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCT--TAAAGG-CAAGG
* *
262914 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A---AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGG
* * * ** **
262957 TGCCAGTGTGCTGA-TAAAGG-CAATGACATTGGTCTTAAATACAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGG
*
263003 TGACAATATGCTGA-TCTAAGGCCA
1 TGCCAATATGCTGATTC-AAGGCCA
263027 ACGATATTAG
Statistics
Matches: 218, Mismatches: 30, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
41 12 0.06
42 5 0.02
43 17 0.08
46 16 0.07
47 5 0.02
48 84 0.39
49 35 0.16
50 5 0.02
51 39 0.18
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGG
Found at i:262947 original size:99 final size:97
Alignment explanation
Indices: 262674--262955 Score: 293
Period size: 96 Copynumber: 2.9 Consensus size: 97
262664 TGAAGAATGA
* * * * * * * * **
262674 CAATGTGCTAATTCATGGCCAGCGACCTTAGACTTGAA--AAAGAATGCCAATGTGCTGAGACAA
1 CAATATGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGGAAAG-GTGCCAATATGCTGATTCAA
* *
262737 GGCCAACGATATT-GTGCTTAAAGATGAAGGTGC
65 GGCCAGCGATATTGGT-CTTAAAGATCAAGGTGC
* * *
262770 CAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATAAGCTGATTCAAG
1 CAATATGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGGAAAGGTGCCAATATGCTGATTCAAG
*
262835 GCCAGCGACATTGGTCTTAAAGA-CAAGGTGC
66 GCCAGCGATATTGGTCTTAAAGATCAAGGTGC
* * * * *
262866 CAATATGCTGATTCAAGGCTAGCGATATTGGTCTCATGATGGTAAAGGTGCCAATATGCTGATTC
1 CAATATGCTAATTCAAGGCCAGCGACATTGGTCT--TAAAGG-AAAGGTGCCAATATGCTGATTC
*
262931 AAGGCCAGCGATATTGGACTTAAAG
63 AAGGCCAGCGATATTGGTCTTAAAG
262956 GTGCCAGTGT
Statistics
Matches: 156, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
96 70 0.45
97 34 0.22
98 9 0.06
99 43 0.28
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (97 bp):
CAATATGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGGAAAGGTGCCAATATGCTGATTCAAG
GCCAGCGATATTGGTCTTAAAGATCAAGGTGC
Found at i:262969 original size:43 final size:43
Alignment explanation
Indices: 262908--263129 Score: 165
Period size: 43 Copynumber: 5.2 Consensus size: 43
262898 CTCATGATGG
*
262908 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACT
* * ** * *
262951 TAAAGGTGCCAGTGTGCTGA-TAAAGG-CAATGACATTGGTCTT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGAC-T
* * *
262993 AAATACAAGGTGACAATATGCTGA-TCTAAGGCCAACGATATTAGG-C-
1 ---TA-AAGGTGCCAATGTGCTGATTC-AAGGCCAGCGATATT-GGACT
* * * *
263039 -ATA--TGCTAATGTGCTGATTCAAGGCCTGCGACATT-GATCT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGA-CT
* *
263079 TAAAGGTGCCAATGTGCTGATTCGAGACCAGCGATATTGGACT
1 TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACT
263122 TAAAGGTG
1 TAAAGGTG
263130 AGAAAAAGGA
Statistics
Matches: 137, Mismatches: 26, Indels: 32
0.70 0.13 0.16
Matches are distributed among these distances:
37 1 0.01
39 24 0.18
40 2 0.01
41 13 0.09
42 7 0.05
43 55 0.40
44 2 0.01
45 2 0.01
46 16 0.12
47 4 0.03
48 9 0.07
49 2 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (43 bp):
TAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTGGACT
Found at i:263024 original size:140 final size:144
Alignment explanation
Indices: 262763--263034 Score: 347
Period size: 140 Copynumber: 1.9 Consensus size: 144
262753 CTTAAAGATG
* *
262763 AAGGTGCCAATGTGCTAATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATAAGCTG
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTT-AA-G-AAGGTGCCAATAAGCTG
* * * * *
262828 ATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATA
63 ATTAAAGGCCAACGACATTGGTCTTAAAGACAAGGTGACAATATGCTGATTCAAGGCCAACGATA
262893 TTGGTCTCATGATGGTA
128 TTGGTCTCATGATGGTA
* * * **
262910 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-AAGGTGCCAGTGTGCTGA-T
1 AAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAGAAGGTGCCAATAAGCTGATT
* *
262972 AAAGG-CAATGACATTGGTCTTAAATACAAGGTGACAATATGCTGA-TCTAAGGCCAACGATATT
66 AAAGGCCAACGACATTGGTCTTAAAGACAAGGTGACAATATGCTGATTC-AAGGCCAACGATATT
263035 AGGCATATGC
Statistics
Matches: 110, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
139 2 0.02
140 49 0.45
141 5 0.05
142 15 0.14
145 1 0.01
147 38 0.35
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (144 bp):
AAGGTGCCAATATGCTAATTCAAGGCCAGCGACATTGGACTTAAGAAGGTGCCAATAAGCTGATT
AAAGGCCAACGACATTGGTCTTAAAGACAAGGTGACAATATGCTGATTCAAGGCCAACGATATTG
GTCTCATGATGGTA
Found at i:263238 original size:33 final size:33
Alignment explanation
Indices: 263159--264224 Score: 937
Period size: 33 Copynumber: 33.3 Consensus size: 33
263149 GCCATGGGGG
*
263159 TGTGGGCTTAAAAGGGAAAAAGGTGCCACGGAGTCGT
1 TGTGGACTTAAAA-GGAAAAAGGTGCCACGGA---GT
*
263196 TGTGGACTTAAAAGGAACAAGGTGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
263229 TGTGAACTTAAAAGGAAAAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
263262 TGTGGATTTAAAAGGAAAAAGATGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
263295 TGTGGACTTAAAA-G-----GGTGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
*
263322 TGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGT
* * *
263356 TGTGGATTTTAAAGGAAAAAGGTGCCACGGAAT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
263389 TGTGGACTTAAAAGG----A--TGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
263416 TGTGGACTCAAAAAGAAAAAGAGTGCCATGGAGT
1 TGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGT
* * *
263450 TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGT
1 TGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGT
* *
263484 TGTGGACTTAAAAGGAACAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
263517 TATGGACTTAAAAGGAAAAAGGTACCACTGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
263550 TGTGGACTTAAAAGGAAAAAGATGCCACTGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
** *
263583 TGTGGACTTAAAAGGAAAAAGGTGCCATAGAGC
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
*
263616 TGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGT
* *
263650 TGTGGGCTTAAAA-G-----GGTGCCACGGTGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
263677 TATGGACTTGAAAGG----A--TGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
*
263704 TGTGGACTTAAAAGGAAAATGAGTGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGT
* * *
263738 TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGT
1 TGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGT
* *
263772 TGTGGACTTAAAACGAAAAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
**
263805 TGTGGACTTAAAAGGAAAAAGGTGCCATAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
263838 TGTGGACTTAAAAGGAAAAAGATGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* *
263871 TATGGACTTAAAAGGAAAAAGGTGCCACAGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
*
263904 TGTGGACTTAAAAGGAAAAAGAGTACCACGGAGT
1 TGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGT
* * * *
263938 TATGGGCTTAAAA-G-----GGTGCCACAGTGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* * *
263965 TGTGGATTTAAAA-G----A-GTGCCAAGGTGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
263992 TGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGT
* * * **
264026 TGTGGGCTTTAAA-GAGAAAAGACTGCCATAGAGT
1 TGTGGACTTAAAAGGA-AAAAG-GTGCCACGGAGT
* ** **
264060 CGTGGACTTTGAA-GAAAAAAATGCCACGGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* * ** * **
264092 CGTGAACTTGGAA-GAAAAAGATGCCACTAAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* * * *
264124 CGTGGACTT---AGAAAAAAGATGCCACTGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
* ** * *
264154 CGTGGACTTTGAA-G-AAAAGATGCCACTGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
** * *
264185 TGTGGACTTTGAA-G-AAAAGATGCCACTGAGT
1 TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
*
264216 CGTGGACTT
1 TGTGGACTT
264225 TGAAGAAAAG
Statistics
Matches: 883, Mismatches: 106, Indels: 86
0.82 0.10 0.08
Matches are distributed among these distances:
27 132 0.15
28 5 0.01
29 2 0.00
30 26 0.03
31 56 0.06
32 46 0.05
33 375 0.42
34 187 0.21
35 25 0.03
36 17 0.02
37 12 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (33 bp):
TGTGGACTTAAAAGGAAAAAGGTGCCACGGAGT
Found at i:263670 original size:288 final size:288
Alignment explanation
Indices: 263159--264193 Score: 1312
Period size: 288 Copynumber: 3.6 Consensus size: 288
263149 GCCATGGGGG
* * *
263159 TGTGGGC-TTAAAAGGGAAAAAGGTGCCACGGAGTCGTTGTGGACTTAAAAGGAACAAGGTGCCA
1 TGTGGGCTTTAAAA-AGAAAAAGATGCCACGGA---GTTGTGGACTTAAAAGGAAAAAGGTGCCA
* * *
263223 CGGAGTTGTGAACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGATTTAAAAGGAAAAAGATGCC
62 CAGAGTTGTGAACTTAAAAGGAAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCC
* *
263288 ACAGAGTTGTGGACTTAAAA-G-----GGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTG
127 ACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTG
** * **
263347 CCACGGAGTTGTGGATTTTAAAGGAAAAAGGTGCCACGGAATTGTGGACTTAAAAGGATGCCACG
192 CCACGGAGTTGTGG-GCTT-----AAAAGGGTGCCACGGTGTTGTGGACTTAAAAGGATGCCACG
* * *
263412 GAGTTGTGGACTCAAAAAGAAAAAGAGTGCCATGGAGT
251 GAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
*
263450 TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGA
1 TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGA
* * * *
263515 GTTATGGACTTAAAAGGAAAAAGGTACCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCCACTG
66 GTTGTGAACTTAAAAGGAAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAG
* *
263580 AGTTGTGGACTTAAAAGGAAAAAGGTGCCATAGAGCTGTGGACTTAAAAGGAAAAAGAGTGCCAC
131 AGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC
* * *
263645 AGAGTTGTGGGCTTAAAAGGGTGCCACGGTGTTATGGACTTGAAAGGATGCCACGGAGTTGTGGA
196 GGAGTTGTGGGCTTAAAAGGGTGCCACGGTGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
*
263710 CTTAAAAGGAAAATGAGTGCCACGGAGT
261 CTTAAAAGGAAAAAGAGTGCCACGGAGT
*
263738 TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAACGAAAAAGGTGCCACAGA
1 TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGA
*
263803 GTTGTGGACTTAAAAGGAAAAAGGTGCCA-TAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
66 GTTGTGAACTTAAAAGGAAAAAGGTGCCACT-GAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
* *
263867 GAGTTATGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTACCA
130 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCA
* * * * *
263932 CGGAGTTATGGGCTTAAAAGGGTGCCACAGTGTTGTGGATTTAAAA-GAGTGCCAAGGTGTTGTG
195 CGGAGTTGTGGGCTTAAAAGGGTGCCACGGTGTTGTGGACTTAAAAGGA-TGCCACGGAGTTGTG
263996 GACTTAAAAGGAAAAAGAGTGCCACGGAGT
259 GACTTAAAAGGAAAAAGAGTGCCACGGAGT
* ** * ** ** *
264026 TGTGGGCTTTAAAGAG-AAAAGACTGCCATAGAGTCGTGGACTTTGAA-GAAAAAAATGCCACGG
1 TGTGGGCTTTAAAAAGAAAAAGA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAG
* ** * * * * *
264089 AGTCGTGAACTTGGAA-GAAAAAGATGCCACTAAGTCGTGGACTT---AGAAAAAAGATGCCACT
65 AGTTGTGAACTTAAAAGGAAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCCACA
* ** * *
264150 GAGTCGTGGACTTTGAA-G-AAAAGATGCCACTGAGTTGTGGACTT
130 GAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTT
264194 TGAAGAAAAG
Statistics
Matches: 666, Mismatches: 67, Indels: 32
0.87 0.09 0.04
Matches are distributed among these distances:
281 24 0.04
282 1 0.00
283 28 0.04
286 23 0.03
287 35 0.05
288 476 0.71
289 1 0.00
291 23 0.03
292 6 0.01
293 2 0.00
294 47 0.07
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (288 bp):
TGTGGGCTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGA
GTTGTGAACTTAAAAGGAAAAAGGTGCCACTGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAG
AGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCAC
GGAGTTGTGGGCTTAAAAGGGTGCCACGGTGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
CTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:263792 original size:321 final size:312
Alignment explanation
Indices: 263159--264285 Score: 1086
Period size: 321 Copynumber: 3.5 Consensus size: 312
263149 GCCATGGGGG
* * * *
263159 TGTGGGCTTAAAAGGGAAAAAGGTGCCACGGAGTCGTTGTGGACTTAAAAGGAACAAGGTGCCAC
1 TGTGGACTTAAAA-GGAAAAAGGTGCCAC--AG-AGTTGTGGACTTAAAAGGAAAAAGATGCCAC
* * * * *
263224 GGAGTTGTGAACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGATTTAAAAGGAAAAAGATGCCA
62 TGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCA
* *
263289 CAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGA
127 CAGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT-AAAAG-----G-GTGCCACGGT
* * *
263354 GTTGTGGATTTTAAAGGAAAAAGGTGCCACGGAATTGTGGACTTAAAA-G----GATGCCACGGA
185 GTTGTGGACTTGAAAGG----A-GTGCCACGGAGTTGTGGACTTAAAAGGAAAAGATGCCACGGA
* * *
263414 GTTGTGGAC-TCAAAAAGAAAAAGAGTGCCATGGAGTTGTGGGCTTTAAAAAGAAAAAGATGCCA
245 GTTGTGGACTTTAAAAAGAAAAAGA-TGCCACGGAGTTGTGGAC-TT-AAAAGAAAAAGATGCCA
*
263478 CGGAGT
307 CAGAGT
* * * *
263484 TGTGGACTTAAAAGGAACAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGGTACCACTGAG
1 TGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACTGAG
* *
263549 TTGTGGACTTAAAAGGAAAAAGATGCCACTGAGTTGTGGACTTAAAAGGAAAAAGGTGCCATAGA
66 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGA
* * *
263614 GCTGTGGACTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTAAAAGGGTGCCACGGTGTTA
131 GTTGTGGACTTAAAA-G-----G-GTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGTGTTG
263679 TGGACTTGAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGAAAATGAGTGCCACGGAGTTGTGG
189 TGGACTTGAAAGGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAA-GA-TGCCACGGAGTTGTGG
* *
263743 GCTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAACGAAAAAGGTGCCACAGAGT
252 ACTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAA-GAAAAAGATGCCACAGAGT
* *
263805 TGTGGACTTAAAAGGAAAAAGGTGCCATAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAG
1 TGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACTGAG
* * * *
263870 TTATGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTACCACGG
66 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACAG
* * * * * *
263935 AGTTATGGGCTTAAAAGGGTGCCACAGTGTTGTGGATTTAAAAGAGTGCCAAGGTGTTGTGGACT
130 AGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGTGTTGTGGACT
* * * ** *
264000 TAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAGACTGCCATAGAGTCGTGG
195 T-----G-AAAGGAGTGCCACGGAGTTGTGGACTTAAAAG-GAAAAGA-TGCCACGGAGTTGTGG
* * * * **
264065 ACTTT--GAAGAAAAAAATGCCACGGAGTCGTGAACTTGGAAGAAAAAGATGCCACTA-AGT
252 ACTTTAAAAAGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGAAAAAGATGCCAC-AGAGT
* * * * * **
264124 CGTGGACTT---AGAAAAAAGATGCCACTGAGTCGTGGACTTTGAA-G-AAAAGATGCCACTGAG
1 TGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACTGAG
** * * ** * *
264184 TTGTGGACTTTGAA-G-AAAAGATGCCACTGAGTCGTGGACTTTGAA-G-AAAAGATGCCACTGA
66 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGA
** * * *
264245 GTCATGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTT
131 GTTGTGGACTT--AAAAG-GGTGCCACAGAGTTGTGGACTT
264286 TGGGAAGAGA
Statistics
Matches: 683, Mismatches: 90, Indels: 71
0.81 0.11 0.08
Matches are distributed among these distances:
309 16 0.02
310 5 0.01
311 6 0.01
312 42 0.06
313 1 0.00
314 26 0.04
315 66 0.10
316 29 0.04
317 1 0.00
319 24 0.04
320 35 0.05
321 264 0.39
322 98 0.14
323 19 0.03
324 14 0.02
325 12 0.02
327 6 0.01
328 19 0.03
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (312 bp):
TGTGGACTTAAAAGGAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACTGAG
TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACAGA
GTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGTGTTGTGGACTT
GAAAGGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGATGCCACGGAGTTGTGGACTTTAAAA
AGAAAAAGATGCCACGGAGTTGTGGACTTAAAAGAAAAAGATGCCACAGAGT
Found at i:264175 original size:31 final size:31
Alignment explanation
Indices: 264008--264321 Score: 375
Period size: 31 Copynumber: 9.9 Consensus size: 31
263998 CTTAAAAGGA
* * * *
264008 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAGAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTT-GA-AG
264042 AAAAGACTGCCA-TAGAGTCGTGGACTTTGAAG
1 AAAAGA-TGCCACT-GAGTCGTGGACTTTGAAG
* * * *
264074 AAAAAAATGCCACGGAGTCGTGAACTTGGAAG
1 -AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
264106 AAAAAGATGCCACTAAGTCGTGGACTTAGAA-
1 -AAAAGATGCCACTGAGTCGTGGACTTTGAAG
264137 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
264168 AAAAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
264199 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
* *
264230 AAAAGATGCCACTGAGTCATGGACTTAGAA-
1 AAAAGATGCCACTGAGTCGTGGACTTTGAAG
*
264260 AAGAGATGCCACTGAGTCGTGGACTTTGGGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTT--GAAG
*
264293 AGAAA-ATGCCACTAAGTCGTGGACTTTGA
1 A-AAAGATGCCACTGAGTCGTGGACTTTGA
264322 GAAGAGAGAT
Statistics
Matches: 247, Mismatches: 25, Indels: 19
0.85 0.09 0.07
Matches are distributed among these distances:
30 52 0.21
31 90 0.36
32 52 0.21
33 28 0.11
34 25 0.10
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (31 bp):
AAAAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:264319 original size:94 final size:92
Alignment explanation
Indices: 264040--264321 Score: 358
Period size: 92 Copynumber: 3.0 Consensus size: 92
264030 GGCTTTAAAG
* * *
264040 AGAAAAGACTGCCA-TAGAGTCGTGGACTTTGAAGAAAAAAATGCCACGGAGTCGTGAAC-TTGG
1 AGAAAAGA-TGCCACT-GAGTCGTGGAC-TT--AGAAAAAGATGCCACTGAGTCGTGGACTTTGG
*
264103 AAGAAAAAGATGCCACTAAGTCGTGGACTTAGA
61 AAG-AAAAGATGCCACTAAGTCGTGGACTTTGA
* *
264136 A-AAAAGATGCCACTGAGTCGTGGACTTTGAAGAAAAGATGCCACTGAGTTGTGGACTTT-GAAG
1 AGAAAAGATGCCACTGAGTCGTGGACTTAG-A-AAAAGATGCCACTGAGTCGTGGACTTTGGAAG
*
264199 AAAAGATGCCACTGAGTCGTGGACTTTGA
64 AAAAGATGCCACTAAGTCGTGGACTTTGA
*
264228 AGAAAAGATGCCACTGAGTCATGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGGGAAG
1 AGAAAAGATGCCACTGAGTCGTGGACTTAGAAAA-AGATGCCACTGAGTCGTGGACTTT-GGAAG
264293 AGAAA-ATGCCACTAAGTCGTGGACTTTGA
64 A-AAAGATGCCACTAAGTCGTGGACTTTGA
264322 GAAGAGAGAT
Statistics
Matches: 166, Mismatches: 11, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
91 4 0.02
92 53 0.32
93 52 0.31
94 46 0.28
95 10 0.06
96 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (92 bp):
AGAAAAGATGCCACTGAGTCGTGGACTTAGAAAAAGATGCCACTGAGTCGTGGACTTTGGAAGAA
AAGATGCCACTAAGTCGTGGACTTTGA
Found at i:264948 original size:20 final size:19
Alignment explanation
Indices: 264919--264992 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
264909 TTTACCCAGA
*
264919 TGTATTGATACATTTTGCAT
1 TGTATCGATACATTTT-CAT
* *
264939 TGTACCGATACATTGCTCAT
1 TGTATCGATACATT-TTCAT
*
264959 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTT-CAT
264979 TGTATCGATACATT
1 TGTATCGATACATT
264993 CAGGCATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATTTTCAT
Found at i:267368 original size:28 final size:28
Alignment explanation
Indices: 267336--267408 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
267326 TTCACAATTA
267336 GGGATACTCCAACCCCGTTA-CTCC-ATCG
1 GGGATACTCCAACCCCGTTATCTCCGA--G
* *
267364 GGGATACTCCAACCACGTTATTTCCGAG
1 GGGATACTCCAACCCCGTTATCTCCGAG
267392 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
267409 ACTTTATATC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 36 0.90
29 3 0.08
30 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATCTCCGAG
Found at i:267473 original size:109 final size:107
Alignment explanation
Indices: 267286--267564 Score: 310
Period size: 109 Copynumber: 2.6 Consensus size: 107
267276 TTCATTTCGG
* * * * **
267286 GGATACTCCAACTCTGATTTTAATTCC-AAAACACCAATTTTTCACAATTAGGGATACTCCAACC
1 GGATACTCCAACCCCGACTTT-ATTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAACC
* *
267350 CCGTTACTCCATCGGGGATACTCCAA-CCACGTTATTTCCGAGG
65 CCGTTACTCCATCGGGGATACTCCAATCC-CATTATTTCCGAGA
** * * *
267393 GGATACTCCAACCCCGACTTTATATCCAAAAATATTGATTTTTTCATAATCGGGGGTACTCCAAC
1 GGATACTCCAACCCCGACTTTAT-TCCAAAAATA-CCAATTTTTCACAATCGGGGATACTCCAAC
** * *
267458 CTTGTTATTTCATCGGGGATACTCCAATCCCATTATTTCCGAGA
64 CCCGTTACTCCATCGGGGATACTCCAATCCCATTATTTCCGAGA
* * * * *
267502 GGATACTCTAATCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGACTTTATTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
267565 TCCGATTTTA
Statistics
Matches: 141, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
106 2 0.01
107 46 0.33
108 13 0.09
109 78 0.55
110 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (107 bp):
GGATACTCCAACCCCGACTTTATTCCAAAAATACCAATTTTTCACAATCGGGGATACTCCAACCC
CGTTACTCCATCGGGGATACTCCAATCCCATTATTTCCGAGA
Found at i:267557 original size:51 final size:50
Alignment explanation
Indices: 267502--267662 Score: 155
Period size: 51 Copynumber: 3.1 Consensus size: 50
267492 ATTTCCGAGA
**
267502 GGATACTCTAATCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGG
1 GGATACTCTAA-CCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGG
* * * * * *
267553 GGATACTCCAACTCCGATTTTATTTCCAAAAGATTGATTTCTCATAATCGAG
1 GGATACTCTAAC-CCGATTTTATTTCTAAAATATTAATTTTTCACAATCG-G
***
267605 GGATACT-TCAACCCCGGCCTTATTTCT-AAATCATTAATTTTTCACAATCGG
1 GGATACTCT-AA-CCCGATTTTATTTCTAAAAT-ATTAATTTTTCACAATCGG
267656 GGATACT
1 GGATACT
267663 TCAACCCCGT
Statistics
Matches: 88, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
50 1 0.01
51 51 0.58
52 35 0.40
53 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.35
Consensus pattern (50 bp):
GGATACTCTAACCCGATTTTATTTCTAAAATATTAATTTTTCACAATCGG
Found at i:267666 original size:51 final size:51
Alignment explanation
Indices: 267537--267671 Score: 162
Period size: 52 Copynumber: 2.6 Consensus size: 51
267527 CTAAAATACC
* * ** *
267537 AATTTTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAGATT
1 AATTTTTCACAATCGGGGATACTTCAACCCCGACCTTATTTCCAAAACATT
* * * * * *
267588 GATTTCTCATAATCGAGGGATACTTCAACCCCGGCCTTATTTCTAAATCATT
1 AATTTTTCACAATCG-GGGATACTTCAACCCCGACCTTATTTCCAAAACATT
267640 AATTTTTCACAATCGGGGATACTTCAACCCCG
1 AATTTTTCACAATCGGGGATACTTCAACCCCG
267672 TTATTTTCAA
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 29 0.42
52 40 0.58
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.33
Consensus pattern (51 bp):
AATTTTTCACAATCGGGGATACTTCAACCCCGACCTTATTTCCAAAACATT
Found at i:267810 original size:79 final size:78
Alignment explanation
Indices: 267641--267822 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 78
267631 TAAATCATTA
* * *
267641 ATTTTTCACAATCGGGGATACTTCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTA
1 ATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTA
267706 TTTTCAAAATACCG
66 TTTTCAAAATA-CG
* * * * * * *
267720 A-TTTTCTATAATTAGGGATACTCCAACCCTGTTATTTTCGAGGGGATATTCTAACCCTGGTTTT
1 ATTTTTC-ATAATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTT
* *
267784 ATTTCTGGAACAT-CG
65 ATTT-T-CAAAATACG
267799 ATTTTTCATAATC-GAGGATACTCC
1 ATTTTTCATAATCAG-GGATACTCC
267823 GGCCCCGTCG
Statistics
Matches: 85, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
78 6 0.07
79 69 0.81
80 6 0.07
81 4 0.05
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (78 bp):
ATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCGATTTTA
TTTTCAAAATACG
Found at i:269831 original size:11 final size:10
Alignment explanation
Indices: 269814--269882 Score: 84
Period size: 11 Copynumber: 6.5 Consensus size: 10
269804 GCCTTGGCAC
*
269814 TTTTTTTGTG
1 TTTTTTTTTG
269824 TGTTTTTTTTG
1 T-TTTTTTTTG
269835 TTTTTGTTTTG
1 TTTTT-TTTTG
269846 TTTTTTTTTTG
1 -TTTTTTTTTG
*
269857 TTTTTTTGTG
1 TTTTTTTTTG
269867 TTTTTTTTTTG
1 -TTTTTTTTTG
269878 TTTTT
1 TTTTT
269883 GTACTTTTGA
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
10 19 0.37
11 28 0.54
12 5 0.10
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:269838 original size:21 final size:21
Alignment explanation
Indices: 269814--269882 Score: 111
Period size: 21 Copynumber: 3.2 Consensus size: 21
269804 GCCTTGGCAC
*
269814 TTTTTTTGTGTGTTTTTTTTG
1 TTTTTTTGTGTTTTTTTTTTG
*
269835 TTTTTGTTTTGTTTTTTTTTTG
1 TTTTT-TTGTGTTTTTTTTTTG
269857 TTTTTTTGTGTTTTTTTTTTG
1 TTTTTTTGTGTTTTTTTTTTG
269878 TTTTT
1 TTTTT
269883 GTACTTTTGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 25 0.57
22 19 0.43
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (21 bp):
TTTTTTTGTGTTTTTTTTTTG
Found at i:269840 original size:19 final size:19
Alignment explanation
Indices: 269816--269884 Score: 84
Period size: 19 Copynumber: 3.4 Consensus size: 19
269806 CTTGGCACTT
*
269816 TTTTTGTGTGTTTTTTTTG
1 TTTTTGTGTTTTTTTTTTG
269835 TTTTTGTTTTGTTTTTTTTTTG
1 TTTTTG---TGTTTTTTTTTTG
269857 TTTTTTTGTGTTTTTTTTTTG
1 --TTTTTGTGTTTTTTTTTTG
269878 TTTTTGT
1 TTTTTGT
269885 ACTTTTGACT
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
19 13 0.30
21 13 0.30
22 12 0.27
24 6 0.14
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (19 bp):
TTTTTGTGTTTTTTTTTTG
Found at i:269890 original size:19 final size:17
Alignment explanation
Indices: 269816--269884 Score: 72
Period size: 16 Copynumber: 4.1 Consensus size: 17
269806 CTTGGCACTT
269816 TTTTTGTGTGTTTTTTTTG
1 TTTTTGT-T-TTTTTTTTG
*
269835 TTTTTGTTTTGTTTTT-
1 TTTTTGTTTTTTTTTTG
*
269851 TTTTTG-TTTTTTTGTG
1 TTTTTGTTTTTTTTTTG
269867 TTTTT-TTTTTGTTTTTG
1 TTTTTGTTTTT-TTTTTG
269884 T
1 T
269885 ACTTTTGACT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 7 0.16
16 15 0.35
17 13 0.30
18 1 0.02
19 7 0.16
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTG
Found at i:269898 original size:1 final size:1
Alignment explanation
Indices: 269826--269882 Score: 51
Period size: 1 Copynumber: 57.0 Consensus size: 1
269816 TTTTTGTGTG
* * * * * * *
269826 TTTTTTTTGTTTTTGTTTTGTTTTTTTTTTGTTTTTTTGTGTTTTTTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
269883 GTACTTTTGA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (1 bp):
T
Found at i:269898 original size:43 final size:43
Alignment explanation
Indices: 269814--269898 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
269804 GCCTTGGCAC
* ***
269814 TTTTTTTGTGTGTTTTTTTTGTTTTTGTTTTGTTTTTTTTTTG
1 TTTTTTTGTGTGTTTTTTTTGTTTTTGTCTTGTTGACTTTTTG
*
269857 TTTTTTTGTGTTTTTTTTTTGTTTTTGTACTT-TTGACTTTTT
1 TTTTTTTGTGTGTTTTTTTTGTTTTTGT-CTTGTTGACTTTTT
269899 CATCATTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.81
Consensus pattern (43 bp):
TTTTTTTGTGTGTTTTTTTTGTTTTTGTCTTGTTGACTTTTTG
Found at i:271927 original size:21 final size:21
Alignment explanation
Indices: 271900--271957 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
271890 AAAAATTATC
*
271900 CAAATGTATCGATACATTTGTA
1 CAAATGTATCGATACA-TTCTA
*
271922 -AAATGTATTGATACATTCTA
1 CAAATGTATCGATACATTCTA
271942 CAAATGTATCGATACA
1 CAAATGTATCGATACA
271958 GGGTCCAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (21 bp):
CAAATGTATCGATACATTCTA
Found at i:272017 original size:19 final size:18
Alignment explanation
Indices: 271991--272059 Score: 76
Period size: 19 Copynumber: 4.0 Consensus size: 18
271981 AATTTCAGCG
271991 ATTTGTATCGATACATAA
1 ATTTGTATCGATACATAA
272009 ATGTTGTATCGATAC---A
1 AT-TTGTATCGATACATAA
272025 A--TGTATCGATACATAA
1 ATTTGTATCGATACATAA
*
272041 GTATTGTATCGATACATAA
1 AT-TTGTATCGATACATAA
272060 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
16 3 0.07
18 2 0.05
19 27 0.63
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (18 bp):
ATTTGTATCGATACATAA
Found at i:272030 original size:32 final size:32
Alignment explanation
Indices: 271994--272056 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
271984 TTCAGCGATT
*
271994 TGTATCGATACATAAATGTTGTATCGATACAA
1 TGTATCGATACATAAATATTGTATCGATACAA
*
272026 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAATATTGTATCGATACA
272057 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAATATTGTATCGATACAA
Found at i:272031 original size:13 final size:13
Alignment explanation
Indices: 272013--272037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
272003 ACATAAATGT
272013 TGTATCGATACAA
1 TGTATCGATACAA
272026 TGTATCGATACA
1 TGTATCGATACA
272038 TAAGTATTGT
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:272117 original size:13 final size:13
Alignment explanation
Indices: 272099--272124 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
272089 CATTTTTCTG
272099 TGTATCGATACAT
1 TGTATCGATACAT
272112 TGTATCGATACAT
1 TGTATCGATACAT
272125 CTATTCTTTG
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:272142 original size:34 final size:33
Alignment explanation
Indices: 272079--272145 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
272069 GCCAAGGGAA
*
272079 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
272112 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
272146 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:274557 original size:51 final size:52
Alignment explanation
Indices: 274502--274605 Score: 133
Period size: 53 Copynumber: 2.0 Consensus size: 52
274492 GACATCCCAT
* * *
274502 CTCCGATTTTATTT-TC-AAAACACTAA-TTTTCTATAATCGAGGATACTCCAA
1 CTCCGATTTTATTTCCCAAAAACACCAATTTTTC-ACAATCGAGGAT-CTCCAA
*
274553 CTCCGATTTTATTTCCCAAAAACACCAATTTTTCACAATCGGGGATCTCCAA
1 CTCCGATTTTATTTCCCAAAAACACCAATTTTTCACAATCGAGGATCTCCAA
274605 C
1 C
274606 CCCGTTATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
51 14 0.30
52 8 0.17
53 19 0.41
54 5 0.11
ACGTcount: A:0.32, C:0.26, G:0.09, T:0.34
Consensus pattern (52 bp):
CTCCGATTTTATTTCCCAAAAACACCAATTTTTCACAATCGAGGATCTCCAA
Found at i:274635 original size:28 final size:30
Alignment explanation
Indices: 274590--274665 Score: 108
Period size: 28 Copynumber: 2.7 Consensus size: 30
274580 ATTTTTCACA
*
274590 ATCGGGGAT-CTCCAACCCCGTTA-TTTC-
1 ATCGGGGATACTCCAACCCCGTTACCTTCG
274617 ATCGGGGATACTCCAACCCCGTTACCTTCG
1 ATCGGGGATACTCCAACCCCGTTACCTTCG
274647 A--GGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
274666 GCTTTATTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 9 0.20
28 32 0.71
29 3 0.07
30 1 0.02
ACGTcount: A:0.21, C:0.36, G:0.21, T:0.22
Consensus pattern (30 bp):
ATCGGGGATACTCCAACCCCGTTACCTTCG
Found at i:274768 original size:79 final size:79
Alignment explanation
Indices: 274620--274823 Score: 196
Period size: 79 Copynumber: 2.6 Consensus size: 79
274610 TTATTTCATC
* *
274620 GGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
274685 GATTTCTCATAATT
66 GATTTCTCATAATT
* * * * * * *
274699 GGGGATACTCCAACCTCGTTA-TTTCCGAGGGGATACTCCAATCCCGATTTTTTTTCC-TAATCA
1 GGGGATACTCCAACCCCGTTACCTT-CGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
* **
274762 TCGATTTCTCACAACC
64 TCGATTTCTCATAATT
* * * * ** * *
274778 GAGGATACTCCAGCCCTGTCATTTTCAAGGGGACACTCCAACCCCG
1 GGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCG
274824 TTATTATCTC
Statistics
Matches: 102, Mismatches: 20, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
78 5 0.05
79 94 0.92
80 3 0.03
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTACCTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
GATTTCTCATAATT
Found at i:287235 original size:1 final size:1
Alignment explanation
Indices: 287224--287285 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
287214 CCTTCTCTTT
* * * * * * *
287224 AAAAAAGAAAAAAAAACAAAAAAACAAAAAAACAAAAAAACAAAACAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
287286 TCTGCTTAAG
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:287237 original size:8 final size:8
Alignment explanation
Indices: 287233--287285 Score: 81
Period size: 8 Copynumber: 6.6 Consensus size: 8
287223 TAAAAAAGAA
287233 AAAAAAAC
1 AAAAAAAC
287241 AAAAAAAC
1 AAAAAAAC
287249 AAAAAAAC
1 AAAAAAAC
287257 AAAAAAAC
1 AAAAAAAC
287265 AAAACAAA-
1 AAAA-AAAC
*
287273 AAAAAAAG
1 AAAAAAAC
287281 AAAAA
1 AAAAA
287286 TCTGCTTAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 3 0.07
8 37 0.86
9 3 0.07
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:287253 original size:24 final size:26
Alignment explanation
Indices: 287224--287285 Score: 92
Period size: 25 Copynumber: 2.5 Consensus size: 26
287214 CCTTCTCTTT
*
287224 AAAAAAGAAAAAAAAACAAAA-AAAC
1 AAAAAAGAAAAAAAAACAAAACAAAA
*
287249 AAAAAA-ACAAAAAAACAAAACAAAA
1 AAAAAAGAAAAAAAAACAAAACAAAA
287274 AAAAAAGAAAAA
1 AAAAAAGAAAAA
287286 TCTGCTTAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.41
25 15 0.47
26 4 0.12
ACGTcount: A:0.89, C:0.08, G:0.03, T:0.00
Consensus pattern (26 bp):
AAAAAAGAAAAAAAAACAAAACAAAA
Found at i:288362 original size:55 final size:55
Alignment explanation
Indices: 288278--288597 Score: 439
Period size: 55 Copynumber: 6.0 Consensus size: 55
288268 GATGCCTTTT
*
288278 CCTTTCGAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACA
*
288333 CCTTTCAAAGCCCACACAAGTTGGTGG-------CA-TCCTCAAAGAGCAGGGCA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
* * *
288380 CCTCTTC-AAGCCTACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
288435 CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACA
* * *
288490 CCTCTT-AAAGCCCACACAAGTTGGGGGCACCTTTCAGTCCTCAAAGAGCAGGACG
1 CCT-TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
*
288545 CCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGA
288598 TACACTTTAT
Statistics
Matches: 237, Mismatches: 14, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
47 39 0.16
48 5 0.02
54 10 0.04
55 178 0.75
56 5 0.02
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (55 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA
Found at i:289442 original size:19 final size:19
Alignment explanation
Indices: 289418--289471 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
289408 TTTCAGCGAT
*
289418 TTGTATCGATACATAAATG
1 TTGTATCGATACATAAATA
*
289437 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAATA
289456 TTGTATCGATACATAA
1 TTGTATCGATACATAA
289472 TTAGCTACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAATA
Found at i:289529 original size:13 final size:13
Alignment explanation
Indices: 289511--289536 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
289501 CATTTTTCTG
289511 TGTATCGATACAT
1 TGTATCGATACAT
289524 TGTATCGATACAT
1 TGTATCGATACAT
289537 CTATTTTTTG
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:291951 original size:51 final size:52
Alignment explanation
Indices: 291894--292016 Score: 162
Period size: 51 Copynumber: 2.4 Consensus size: 52
291884 CAATTCTCCG
* * *
291894 TAATCGGGGATA-TCCCATCTCCGATTTTATTTTC-AAAACACTAA-TTTTCTA
1 TAATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-A
291945 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCA
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTTTTCA
*
291998 CAATCGGGGATACTCCAAC
1 TAATCGGGGATACTCCAAC
292017 CCTGTTATTT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
51 30 0.47
52 1 0.02
53 28 0.44
54 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (52 bp):
TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCA
Found at i:292007 original size:53 final size:51
Alignment explanation
Indices: 291895--292016 Score: 158
Period size: 53 Copynumber: 2.4 Consensus size: 51
291885 AATTCTCCGT
* * * *
291895 AATCGGGGATA-TCCCATCTCCGATTTTATTTTCAAAACACTAATTTTCTAT
1 AATCGGGGATACT-CCAACTCCGATTTTATTTCCAAAACACCAATTTTCTAC
291946 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAATTTTCT-AC
291999 AATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
292017 CCTGTTATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
51 29 0.46
52 2 0.03
53 32 0.51
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTTCTAC
Found at i:292064 original size:28 final size:29
Alignment explanation
Indices: 292003--292076 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
291993 TTTCACAATC
* **
292003 GGGGATACTCCAACCCTGTTATTTCATCGA
1 GGGGATACTCCAACCCCGTTACCTCA-CGA
292033 --GGATACTCCAACCCCGTTACCTC-CGA
1 GGGGATACTCCAACCCCGTTACCTCACGA
292059 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
292077 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
26 3 0.08
28 36 0.92
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.22
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGTTACCTCACGA
Found at i:296346 original size:20 final size:20
Alignment explanation
Indices: 296319--296412 Score: 104
Period size: 20 Copynumber: 4.7 Consensus size: 20
296309 TCTACCCAGA
296319 TGTATCGATACATTTTGCAT
1 TGTATCGATACATTTTGCAT
*
296339 TATATCGATACA--TTGCTTAT
1 TGTATCGATACATTTTGC--AT
*
296359 TGTATCGATACATTGCT-CAT
1 TGTATCGATACATT-TTGCAT
* *
296379 TGTATCGATACATTTTACAA
1 TGTATCGATACATTTTGCAT
296399 TGTATCGATACATT
1 TGTATCGATACATT
296413 CAGGCATTTT
Statistics
Matches: 63, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
18 4 0.06
19 1 0.02
20 56 0.89
22 1 0.02
23 1 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.43
Consensus pattern (20 bp):
TGTATCGATACATTTTGCAT
Found at i:296403 original size:40 final size:39
Alignment explanation
Indices: 296318--296413 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 39
296308 ATCTACCCAG
*
296318 ATGTATCGATACATTTTGCATTATATCGATACATTGCTTA
1 ATGTATCGATACATTCTGCATTATATCGATACATT-CTTA
* *
296358 TTGTATCGATACATTGCT-CATTGTATCGATACATT-TTACA
1 ATGTATCGATACATT-CTGCATTATATCGATACATTCTT--A
296398 ATGTATCGATACATTC
1 ATGTATCGATACATTC
296414 AGGCATTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 45 0.92
41 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCATTATATCGATACATTCTTA
Found at i:298744 original size:79 final size:79
Alignment explanation
Indices: 298579--298764 Score: 232
Period size: 79 Copynumber: 2.4 Consensus size: 79
298569 TCCAAAACGT
**
298579 CAATTTTTCTTAATCGGGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACTCCGATTT
1 CAATTTTTCACAATCGGGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACTCCGATTT
*
298644 TATTCCAAAAACGC
66 TATTCCAAAAACAC
* * *
298658 CAGTTTTTCACCATCGGGGATACTCCAATC-CTGTTATTTTTGAGGGGATACTCCAAC-CTCGAT
1 CAATTTTTCACAATCGGGGATACTCCAATCTC-GTTATTTTCGAGGGGATACTCCAACTC-CGAT
* * * *
298721 TTTATTTCTAAAATAT
64 TTTATTCCAAAAACAC
* *
298737 CAATTTTTCACAATCGGAGATATTCCAA
1 CAATTTTTCACAATCGGGGATACTCCAA
298765 CTCCAGTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 2 0.02
79 89 0.98
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (79 bp):
CAATTTTTCACAATCGGGGATACTCCAATCTCGTTATTTTCGAGGGGATACTCCAACTCCGATTT
TATTCCAAAAACAC
Found at i:298775 original size:51 final size:51
Alignment explanation
Indices: 298704--298816 Score: 165
Period size: 51 Copynumber: 2.2 Consensus size: 51
298694 TTTTTGAGGG
* * *
298704 GATACTCCAACCTCGA-TTTTATTTCTAAAATATCAATTTTTCACAATCGGA
1 GATACTCCAA-CTCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGA
* *
298755 GATATTCCAACTCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGG
1 GATACTCCAACTCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGA
298806 GATACTCCAAC
1 GATACTCCAAC
298817 CCCGTTATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 4 0.07
51 51 0.93
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (51 bp):
GATACTCCAACTCCAGTTTTATTTCTAAAACACCAATTTTTCACAATCGGA
Found at i:308795 original size:24 final size:24
Alignment explanation
Indices: 308746--308796 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
308736 ATATTTTTTA
* *
308746 TTTTTTAAAACAAATAAAGATCAT
1 TTTTTTAAAAAAAATAAAGATAAT
*
308770 TTTTTTAAAAAAAAATAAATA-AAT
1 TTTTTT-AAAAAAAATAAAGATAAT
308794 TTT
1 TTT
308797 GAACTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (24 bp):
TTTTTTAAAAAAAATAAAGATAAT
Found at i:310676 original size:32 final size:32
Alignment explanation
Indices: 310620--311145 Score: 673
Period size: 32 Copynumber: 16.8 Consensus size: 32
310610 AAAATGGTGA
* ** *
310620 TTTGAAAAGGGTTGCCACTAACTTGCGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
310652 TTTTAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
310684 TTTGAAAAGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
310716 TTTGAAATGGGTTGCCACCTACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
310748 TTTGGAATGGGTTGCCACCGAATTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
310780 TTTGAAATGGGTTGCCATCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
310812 TTTGAAAAGGGTTGCCACCGACGTGTGTGGGA
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
310844 TTTCAAATGGGTTGCCACCGACGTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
310876 TTTGAAATAGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
310908 TTTGAAATGGGTTGCCATCGACGTGTGTGAGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
310940 TTTGAAATGGGTTGCCACCGACTTGTATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
310972 TTTGAAATGGGTTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
311002 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
311034 TTTGAAAT-GG-TACCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
311062 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
311090 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* **
311120 TTTGAAAAGGG-TGCCACTAACTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
311146 GGCTTAAAAA
Statistics
Matches: 442, Mismatches: 45, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
27 2 0.00
28 49 0.11
29 2 0.00
30 49 0.11
31 18 0.04
32 322 0.73
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:311180 original size:28 final size:27
Alignment explanation
Indices: 311113--311920 Score: 1104
Period size: 27 Copynumber: 29.5 Consensus size: 27
311103 CACCAACTTG
** *
311113 TGTGGACTTTGAAAAGGGTGCCACTAACT
1 TGTGGAC-TT-AAAAGGGTGCCACGGAGT
* * **
311142 TGTGGGCTTAAAAAGGTGCCATAGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
* *
311169 TGTGGATTTTAAAAGAGTGCCACGGAGT
1 TGTGGA-CTTAAAAGGGTGCCACGGAGT
* **
311197 T-TGGACTTAAAAGAGATGCCATAGAGT
1 TGTGGACTTAAAAG-GGTGCCACGGAGT
* *
311224 TGTGGACTTAAAAGAGATGCCACAGAGT
1 TGTGGACTTAAAAG-GGTGCCACGGAGT
*
311252 TATGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
* *
311279 TATGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
* **
311306 TATGGACTTAAAAGAATGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
* *
311333 TGTGGACTTTAAAAGGATGCCACGAAGT
1 TGTGGAC-TTAAAAGGGTGCCACGGAGT
* * *
311361 TGTGGACTTTAAAAGGATGCCATGAAGT
1 TGTGGAC-TTAAAAGGGTGCCACGGAGT
*
311389 TGTGGACTTAAAAGGGATGCCACAGAGT
1 TGTGGACTTAAAAGGG-TGCCACGGAGT
* *
311417 TATGGACTTAAAAGGGTGCCACGAAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
*
311444 TGTGGACTTAAAAGGGTGCCATGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
311471 TGTGGACTTAAAA----GCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
311494 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
311521 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGAC-TTAAAAGGGTGCCACGGAGT
311549 TGTGGACTTAAAAGGGGATGCCACGGAGT
1 TGTGGACTTAAAA-GGG-TGCCACGGAGT
311578 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
311605 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
311632 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
*
311659 TGTGGACTTAAAAGGGATGCCACAGAGT
1 TGTGGACTTAAAAGGG-TGCCACGGAGT
311687 TGTGGACTTAAAAGGGATGCCACGGAGT
1 TGTGGACTTAAAAGGG-TGCCACGGAGT
*
311715 TGTGGACTTAAAAGGGTGCCACCGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
* *
311742 TGTGGACTTAAAAGAGTGCCACAGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
311769 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
* *
311796 TGTGGACTTTAAAAAGGTGCCACAGAGT
1 TGTGGAC-TTAAAAGGGTGCCACGGAGT
*
311824 TGTGGACTTTAAAAGGGTGCCACCGAGT
1 TGTGGAC-TTAAAAGGGTGCCACGGAGT
311852 TGTGGACTTAAAAGGGATGCCACGGAGT
1 TGTGGACTTAAAAGGG-TGCCACGGAGT
311880 TGTGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTAAAAGGGTGCCACGGAGT
*
311907 TGTGGACTTTAAAG
1 TGTGGACTTAAAAG
311921 AGGTCACAGT
Statistics
Matches: 711, Mismatches: 53, Indels: 32
0.89 0.07 0.04
Matches are distributed among these distances:
23 22 0.03
26 7 0.01
27 357 0.50
28 295 0.41
29 30 0.04
ACGTcount: A:0.30, C:0.14, G:0.33, T:0.24
Consensus pattern (27 bp):
TGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:319168 original size:22 final size:23
Alignment explanation
Indices: 319120--319169 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
319110 AATATTTTTT
* *
319120 ATTTTTTAAAACAAATAAAGATC
1 ATTTTTTAAAAAAAATAAAGATA
*
319143 ATTTTTTAAAAAAAATAAATA-A
1 ATTTTTTAAAAAAAATAAAGATA
319165 ATTTT
1 ATTTT
319170 GAACTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (23 bp):
ATTTTTTAAAAAAAATAAAGATA
Found at i:319315 original size:2 final size:2
Alignment explanation
Indices: 319308--319342 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
319298 GATTTTCAAA
*
319308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
319343 AATAAAACAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:319741 original size:17 final size:17
Alignment explanation
Indices: 319719--319767 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
319709 ATTTCATATT
* *
319719 TTTTTCTTTTTTTTTTC
1 TTTTTCTTTCTTTCTTC
319736 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
**
319753 TTCATC-TTCTTTCTT
1 TTTTTCTTTCTTTCTT
319768 TGTTTTTTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:325013 original size:1 final size:1
Alignment explanation
Indices: 325009--325098 Score: 54
Period size: 1 Copynumber: 90.0 Consensus size: 1
324999 ATTCTTTTTC
* * * * * * * * * *
325009 AAAAAAAAACAAAAAACAATAACAAAAAACAAAAACATAAAAAAACAAAAAAAACAAAAAAACAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
325074 AAAACAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
325099 GAGAGAAAAG
Statistics
Matches: 61, Mismatches: 28, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.02
Consensus pattern (1 bp):
A
Found at i:325024 original size:7 final size:7
Alignment explanation
Indices: 325012--325082 Score: 78
Period size: 7 Copynumber: 10.6 Consensus size: 7
325002 CTTTTTCAAA
325012 AAAAAAC
1 AAAAAAC
325019 AAAAAAC
1 AAAAAAC
*
325026 -AATAAC
1 AAAAAAC
325032 AAAAAAC
1 AAAAAAC
325039 -AAAAAC
1 AAAAAAC
*
325045 ATAAAA-
1 AAAAAAC
*
325051 AAACAA-
1 AAAAAAC
325057 AAAAAAC
1 AAAAAAC
325064 AAAAAAAC
1 -AAAAAAC
325072 AAAAAAC
1 AAAAAAC
325079 AAAA
1 AAAA
325083 CAAAACAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
6 20 0.37
7 27 0.50
8 7 0.13
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (7 bp):
AAAAAAC
Found at i:325034 original size:13 final size:13
Alignment explanation
Indices: 325009--325087 Score: 85
Period size: 13 Copynumber: 6.2 Consensus size: 13
324999 ATTCTTTTTC
325009 AAAA-AAAAACAA
1 AAAACAAAAACAA
*
325021 AAAACAATAACAA
1 AAAACAAAAACAA
325034 AAAACAAAAACATA
1 AAAACAAAAACA-A
325048 AAAA-AACAAA-AA
1 AAAACAA-AAACAA
*
325060 AAACAAAAAAACAA
1 AAA-ACAAAAACAA
325074 AAAAC-AAAACAA
1 AAAACAAAAACAA
325086 AA
1 AA
325088 CAAAGAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 12
0.79 0.04 0.16
Matches are distributed among these distances:
12 17 0.29
13 26 0.45
14 15 0.26
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAACAAAAACAA
Found at i:325088 original size:25 final size:25
Alignment explanation
Indices: 325011--325096 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 25
325001 TCTTTTTCAA
325011 AAAAAAACAAAAAACAATAACAAAA-
1 AAAAAAACAAAAAACAA-AACAAAAC
325036 AACAAAAACATAAAAAAACAAAA-AAAAC
1 AA-AAAAAC---AAAAAACAAAACAAAAC
325064 AAAAAAACAAAAAACAAAACAAAAC
1 AAAAAAACAAAAAACAAAACAAAAC
325089 AAAGAAAA
1 AAA-AAAA
325097 AAGAGAGAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
24 11 0.20
25 10 0.19
26 10 0.19
27 10 0.19
28 4 0.07
29 9 0.17
ACGTcount: A:0.84, C:0.13, G:0.01, T:0.02
Consensus pattern (25 bp):
AAAAAAACAAAAAACAAAACAAAAC
Found at i:325097 original size:45 final size:45
Alignment explanation
Indices: 325010--325098 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
325000 TTCTTTTTCA
*
325010 AAAAAAAACAAAAAACAATAACAAAAAACAAAAACATAAAAAAAC
1 AAAAAAAACAAAAAACAATAACAAAAAACAAAAACAAAAAAAAAC
325055 AAAAAAAACAAAAAAACAA-AA-AACAAAAC-AAAACAAAGAAAAAA
1 AAAAAAAAC-AAAAAACAATAACAA-AAAACAAAAACAAA-AAAAAA
325099 GAGAGAAAAG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
44 9 0.22
45 22 0.55
46 9 0.22
ACGTcount: A:0.84, C:0.12, G:0.01, T:0.02
Consensus pattern (45 bp):
AAAAAAAACAAAAAACAATAACAAAAAACAAAAACAAAAAAAAAC
Found at i:325964 original size:13 final size:13
Alignment explanation
Indices: 325946--325971 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
325936 TACACCAAGT
325946 ATGTATCGATACA
1 ATGTATCGATACA
325959 ATGTATCGATACA
1 ATGTATCGATACA
325972 CCAAAAATTA
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:328218 original size:21 final size:21
Alignment explanation
Indices: 328185--328229 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
328175 TTGCAAGTTG
*
328185 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
328207 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
328227 AAA
1 AAA
328230 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:330053 original size:15 final size:15
Alignment explanation
Indices: 330033--330063 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
330023 TAAAAATGTC
*
330033 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
330048 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
330063 C
1 C
330064 CAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:331773 original size:13 final size:13
Alignment explanation
Indices: 331755--331780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
331745 AATTTTTTTG
331755 TGTATCGATACAT
1 TGTATCGATACAT
331768 TGTATCGATACAT
1 TGTATCGATACAT
331781 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:334200 original size:21 final size:20
Alignment explanation
Indices: 334154--334200 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
334144 TTTGATGCTA
334154 ATTTTGATGAAAAACGAAGT
1 ATTTTGATGAAAAACGAAGT
334174 -TATTTGAAGTGAAAAAC-AAGT
1 AT-TTTG-A-TGAAAAACGAAGT
334195 ATTTTG
1 ATTTTG
334201 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.04
20 4 0.17
21 9 0.39
22 9 0.39
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.34
Consensus pattern (20 bp):
ATTTTGATGAAAAACGAAGT
Found at i:334339 original size:13 final size:13
Alignment explanation
Indices: 334321--334359 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
334311 ATAATCACCC
334321 TGTATCGATACAA
1 TGTATCGATACAA
334334 TGTATCGATACAA
1 TGTATCGATACAA
334347 TGTATCGATACAA
1 TGTATCGATACAA
334360 AGAAAAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:334370 original size:20 final size:20
Alignment explanation
Indices: 334345--334383 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
334335 GTATCGATAC
334345 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
334365 AATGTATCGATACATAGAA
1 AATGTATCGATACAAAGAA
334384 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:336450 original size:15 final size:15
Alignment explanation
Indices: 336430--336460 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
336420 ATTTCGTTTG
*
336430 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
336445 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
336460 G
1 G
336461 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:338292 original size:21 final size:21
Alignment explanation
Indices: 338263--338307 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
338253 AAGTTTTCAT
*
338263 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
338283 TTTTCATTAGCCAACTTCCTTA
1 TTTTC-TTAGCCAACTTCATTA
338305 TTT
1 TTT
338308 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:0.22, G:0.04, T:0.51
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:340541 original size:13 final size:13
Alignment explanation
Indices: 340523--340548 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
340513 AATTTTTTGG
340523 TGTATCGATACAT
1 TGTATCGATACAT
340536 TGTATCGATACAT
1 TGTATCGATACAT
340549 ACTTTGCTGT
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:340565 original size:33 final size:34
Alignment explanation
Indices: 340502--340567 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 34
340492 TACAAGCCAA
** *
340502 TGTATCGATACAATTTTTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTTGCTGTATCGATACAT
340536 TGTATCGATAC-ATACTTTGCTGTATCGATACA
1 TGTATCGATACAATACTTTGCTGTATCGATACA
340568 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 18 0.62
34 11 0.38
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.41
Consensus pattern (34 bp):
TGTATCGATACAATACTTTGCTGTATCGATACAT
Done.