Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 119 of 362
Found at i:39209370 original size:71 final size:71
Alignment explanation
Indices: 39209293--39209507 Score: 175
Period size: 71 Copynumber: 3.1 Consensus size: 71
39209283 TATACAATTA
39209293 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
1 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
39209358 TCTTTT
66 TCTTTT
* * * *
39209364 ATATTTTG-ACTGAA--ATTAATTA-ATA-TAATTGT-TTATATT---AAAGTTCAATA--AAAT
1 ATATTTTGTA-TGAATCA-TATTTATATATTAATTATATTCT-TTCCAAAAG---AATATTAATT
* ** *
39209418 AT-ATATAATTA
60 TTCATATCTTTT
* * * * *
39209429 ATATTTTGTATGAATCAAATTCATGTATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
39209494 TCTTTT
66 TCTTTT
39209500 ATATTTTG
1 ATATTTTG
39209508 ACCGAAATTA
Statistics
Matches: 105, Mismatches: 21, Indels: 36
0.65 0.13 0.22
Matches are distributed among these distances:
65 22 0.21
66 8 0.08
67 6 0.06
68 24 0.23
69 7 0.07
70 9 0.09
71 29 0.28
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (71 bp):
ATATTTTGTATGAATCATATTTATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATA
TCTTTT
Found at i:39209498 original size:136 final size:136
Alignment explanation
Indices: 39209185--39209604 Score: 626
Period size: 136 Copynumber: 3.1 Consensus size: 136
39209175 GAAAAAGGAT
* *
39209185 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAACTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * *
39209250 TAATTGTTTATATTAAAAAAATTGGTAAAAATATATACAATTAATATTTTGTATGAATCATATTT
66 TAATTGTTTATATT--AAAAATTAGT-AAAATATATACAATTAATATTTTGTATGAATCAAATTC
39209315 ATATATTAA
128 ATATATTAA
* *
39209324 TTATATTCTTTCCAAAAGAATATTAATTTTCATATCTTTTATATTTTGACTGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * *
39209389 TAATTGTTTATATT-AAAGTTCAATAAAATATATATAATTAATATTTTGTATGAATCAAATTCAT
66 TAATTGTTTATATTAAAAATT-AGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
*
39209453 GTATTAA
130 ATATTAA
*
39209460 TTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATA
1 TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
* * * **
39209525 TAACTATTTATATTAATAAATTTAGTAAATTATATACAATTAATATTTTGTATGGCTCAAATTCA
66 TAATTGTTTATATTAA-AAA-TTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
39209590 TATATTAA
129 TATATTAA
39209598 TTATATT
1 TTATATT
39209605 TATGTTCTCT
Statistics
Matches: 254, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
136 122 0.48
137 2 0.01
138 53 0.21
139 77 0.30
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.46
Consensus pattern (136 bp):
TTATATTCTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCGAAATTAATTAATA
TAATTGTTTATATTAAAAATTAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATA
TATTAA
Found at i:39212412 original size:13 final size:13
Alignment explanation
Indices: 39212396--39212421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39212386 ACCAAGCCCG
39212396 TAAATATTTTTAT
1 TAAATATTTTTAT
39212409 TAAATATTTTTAT
1 TAAATATTTTTAT
39212422 ATTGGTGAAT
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:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TAAATATTTTTAT
Found at i:39230254 original size:12 final size:12
Alignment explanation
Indices: 39230237--39230268 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
39230227 TTAGTGAGTT
39230237 ACACAGCCTAGC
1 ACACAGCCTAGC
*
39230249 ACACAGCCTGGC
1 ACACAGCCTAGC
39230261 ACACAGCC
1 ACACAGCC
39230269 GTCTGTGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.44, G:0.19, T:0.06
Consensus pattern (12 bp):
ACACAGCCTAGC
Found at i:39236242 original size:21 final size:21
Alignment explanation
Indices: 39236198--39236240 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
39236188 ATTTTAATGA
39236198 TTGATGATAGATTATGAAAGT
1 TTGATGATAGATTATGAAAGT
39236219 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
39236239 TT
1 TT
39236241 TGTTTAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 1 0.05
20 10 0.48
21 10 0.48
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:39240233 original size:23 final size:22
Alignment explanation
Indices: 39240196--39240238 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
39240186 TGGATGTGGC
39240196 TGATTTGGTTGTATGTATATGCT
1 TGATTTGGTTGTATGT-TATGCT
39240219 TGATTTGG-TGTTATGTTATG
1 TGATTTGGTTG-TATGTTATG
39240239 TTGTGTAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (22 bp):
TGATTTGGTTGTATGTTATGCT
Found at i:39242504 original size:19 final size:19
Alignment explanation
Indices: 39242461--39242518 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
39242451 ACTATTTTTA
39242461 AAAAATTTTGAAAA-TTATT
1 AAAAATTTT-AAAATTTATT
**
39242480 TTAAATTTTAAAATTTATT
1 AAAAATTTTAAAATTTATT
*
39242499 AAAAA-TATAAAATTT-TT
1 AAAAATTTTAAAATTTATT
39242516 AAA
1 AAA
39242519 TTTTCAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 5 0.15
18 13 0.39
19 15 0.45
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
AAAAATTTTAAAATTTATT
Found at i:39242532 original size:26 final size:26
Alignment explanation
Indices: 39242482--39242532 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
39242472 AAATTATTTT
*
39242482 AAATTTTAAAATTTATTAAAAATATA
1 AAATTTTAAAATTTATCAAAAATATA
*
39242508 AAATTTTTAAATTT-TCAAAAGATAT
1 AAATTTTAAAATTTATCAAAA-ATAT
39242533 GATAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
AAATTTTAAAATTTATCAAAAATATA
Found at i:39242800 original size:32 final size:32
Alignment explanation
Indices: 39242726--39242801 Score: 102
Period size: 32 Copynumber: 2.4 Consensus size: 32
39242716 TAATATTTTT
* *
39242726 ATTTTGTGAAATGGTCCATTTGGGCGAAACAA
1 ATTTTATGAAATGGTCCATTTGGGAGAAACAA
39242758 ATTTTATGAAATGGTCCATTTGGGAGATAGA-AA
1 ATTTTATGAAATGGTCCATTTGGGAGA-A-ACAA
39242791 ATTTT-TGAAAT
1 ATTTTATGAAAT
39242802 CGTTCCTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
32 31 0.77
33 8 0.20
34 1 0.03
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (32 bp):
ATTTTATGAAATGGTCCATTTGGGAGAAACAA
Found at i:39249673 original size:90 final size:91
Alignment explanation
Indices: 39249526--39249693 Score: 232
Period size: 90 Copynumber: 1.9 Consensus size: 91
39249516 TAATAAAAGC
*
39249526 AGGGGCCTAATTACTTTTTTTTTATAAAGTTTGAGGGTCTTTTCAATACATTTTGAAAGTTCAAA
1 AGGGGCCTAATTACTTTTTTTTGATAAAGTTTGAGGGTCTTTTCAATACATTTTGAAAGTTCAAA
*
39249591 TACCCAATTGAGTTAAAAAAAAAGGT
66 TACCCAAATGAGTTAAAAAAAAAGGT
* * ** *
39249617 AGGGGCTTAATTGC-TTTTTTTGA-AAAGGTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAA
1 AGGGGCCTAATTACTTTTTTTTGATAAA-GTTTGAGGGTCTTTTCAATACATTTTGAAAGTTCAA
* *
39249680 GTACCTAAATGAGT
65 ATACCCAAATGAGT
39249694 GCAAAAAAGG
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
89 3 0.04
90 52 0.78
91 12 0.18
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (91 bp):
AGGGGCCTAATTACTTTTTTTTGATAAAGTTTGAGGGTCTTTTCAATACATTTTGAAAGTTCAAA
TACCCAAATGAGTTAAAAAAAAAGGT
Found at i:39263229 original size:51 final size:51
Alignment explanation
Indices: 39263144--39263343 Score: 287
Period size: 51 Copynumber: 3.9 Consensus size: 51
39263134 ACGGATACAC
* * * *
39263144 AGTGACCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTAT-GTCCAAAGCTATTATATTCACAA
*
39263195 AGTGGCCTTCACATAGTGCC-CAACTTATGTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCAC-ACTTATGTCCAAAGCTATTATATTCACAA
* *
39263246 AGTGGCCTTCACATAGTACCACACTTGTGTCTAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTATGTCCAAAGCTATTATATTCACAA
* *
39263297 AGTGGCCTTCACATAATACCACACTTATGTCCAAAGCTATTTTATTC
1 AGTGGCCTTCACATAGTACCACACTTATGTCCAAAGCTATTATATTC
39263344 CTGTGACAGC
Statistics
Matches: 134, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.01
51 131 0.98
52 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTATGTCCAAAGCTATTATATTCACAA
Found at i:39265759 original size:40 final size:40
Alignment explanation
Indices: 39265704--39265970 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
39265694 AACATTGGAT
39265704 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39265744 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39265784 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
39265824 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
39265864 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
39265904 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
39265944 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
39265971 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:39267420 original size:24 final size:24
Alignment explanation
Indices: 39267388--39267534 Score: 136
Period size: 24 Copynumber: 6.0 Consensus size: 24
39267378 CCTTAGCACC
*
39267388 ATGCTATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
39267412 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
**
39267436 ATGCCATGGTTTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
** * *
39267460 CACATTGAAAAT-AACTTACTTCACTTAG
1 ---A-TG-CCATGGACTTATTTCACTTAG
* *
39267488 ATGTCATGGTCTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
*
39267512 ATGCCATAGTA-TTATTTCACTTA
1 ATGCCAT-GGACTTATTTCACTTA
39267535 ACACAATGCC
Statistics
Matches: 99, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
23 2 0.02
24 78 0.79
25 2 0.02
27 1 0.01
28 14 0.14
29 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:39267505 original size:76 final size:76
Alignment explanation
Indices: 39267397--39267539 Score: 232
Period size: 76 Copynumber: 1.9 Consensus size: 76
39267387 CATGCTATGG
* * * *
39267397 ACTTATTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATGGTTTTATTTCACTTAGCA
1 ACTTACTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATAGTATTATTTCACTTAACA
39267462 CATTGAAAATA
66 CATTGAAAATA
* *
39267473 ACTTACTTCACTTAGATGTCATGGTCTTATTTCACTTAGATGCCATAGTATTATTTCACTTAACA
1 ACTTACTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATAGTATTATTTCACTTAACA
39267538 CA
66 CA
39267540 ATGCCATATC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.40
Consensus pattern (76 bp):
ACTTACTTCACTTAGATGCCATGGACTTATTTCACTTAGATGCCATAGTATTATTTCACTTAACA
CATTGAAAATA
Found at i:39269128 original size:11 final size:11
Alignment explanation
Indices: 39269112--39269142 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
39269102 TTTAATTCTT
39269112 TATGTTGATGA
1 TATGTTGATGA
39269123 TATGTTGATGA
1 TATGTTGATGA
*
39269134 CATGTTGAT
1 TATGTTGAT
39269143 AGCAGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.45
Consensus pattern (11 bp):
TATGTTGATGA
Found at i:39274247 original size:24 final size:24
Alignment explanation
Indices: 39274215--39274261 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
39274205 GCAGTAAGTG
39274215 TTAGTTTGACATTGATATGATATC
1 TTAGTTTGACATTGATATGATATC
39274239 TTAGTTTGACATTGATATGATAT
1 TTAGTTTGACATTGATATGATAT
39274262 TTGTTTTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (24 bp):
TTAGTTTGACATTGATATGATATC
Found at i:39293516 original size:40 final size:40
Alignment explanation
Indices: 39293439--39293694 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
39293429 AAACCAAGTA
* * * *
39293439 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
39293478 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39293518 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT-
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
39293557 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
39293597 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
39293637 CCTTCGGG-CTTAGCCC-AAAATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
39293676 CCTTCGGGACCTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39293695 TTATCATCCG
Statistics
Matches: 197, Mismatches: 14, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.01
39 83 0.42
40 112 0.57
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:39293570 original size:79 final size:80
Alignment explanation
Indices: 39293439--39293694 Score: 369
Period size: 79 Copynumber: 3.2 Consensus size: 80
39293429 AAACCAAGTA
* * * *
39293439 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
39293502 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
39293518 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAAT-CCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
39293582 TAACTCGCACAAATG
66 TAACTCGCACAAATG
***
39293597 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCC-AAAATTA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TA
* *
39293660 GTCACTAGCACAAATG
65 GTAACTCGCACAAATG
*
39293676 CCTTCGGGACCTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
39293695 TTATCATCCG
Statistics
Matches: 163, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 134 0.82
80 28 0.17
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:39293680 original size:119 final size:119
Alignment explanation
Indices: 39293472--39293698 Score: 368
Period size: 119 Copynumber: 1.9 Consensus size: 119
39293462 GCTACTTGCT
* **
39293472 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAA
* *
39293537 ATATAGTAACTCGCACAAATCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
66 ATATAGTAACTAGCACAAATCCTTCGGGACCTAGCCCGGTTATAGTAACTCGCA
39293591 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCAA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAA
*
39293655 A-ATTAGTCACTAGCACAAATGCCTTCGGGACCTAGCCCGGTTAT
66 ATA-TAGTAACTAGCACAAAT-CCTTCGGGACCTAGCCCGGTTAT
39293699 CATCCGAATA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
117 1 0.01
118 24 0.24
119 75 0.75
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCAA
ATATAGTAACTAGCACAAATCCTTCGGGACCTAGCCCGGTTATAGTAACTCGCA
Found at i:39295257 original size:25 final size:22
Alignment explanation
Indices: 39295218--39295264 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 22
39295208 CTATCACATT
39295218 TCAAAAGTGTCACACTATCAAGTC
1 TCAAAAGTGTCACAC-AT-AAGTC
39295242 TCAAATAGTGTCACACATAAGTC
1 TCAAA-AGTGTCACACATAAGTC
39295265 CTATTAAACT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 5 0.23
24 7 0.32
25 10 0.45
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (22 bp):
TCAAAAGTGTCACACATAAGTC
Found at i:39301676 original size:40 final size:40
Alignment explanation
Indices: 39301632--39301858 Score: 350
Period size: 40 Copynumber: 5.7 Consensus size: 40
39301622 CTACTTGTAT
* *
39301632 AAATGCCTTCAGGACTTAGCCCGGTTATAGTAACTCACAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
39301672 AAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
*
39301712 AAATGCCTTCGGGACTTAGCTCGGTTATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* *
39301752 AAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
* * *
39301792 AAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCAC
1 AAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCAC
39301831 AAATGCCTTCGGGACTTAGCCCGGTTAT
1 AAATGCCTTCGGGACTTAGCCCGGTTAT
39301859 TATCCGAATA
Statistics
Matches: 173, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 33 0.19
40 138 0.80
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
Found at i:39316909 original size:25 final size:25
Alignment explanation
Indices: 39316877--39316933 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
39316867 CTTGTGCCGA
39316877 TTTCTTCTAGTCAAAATCCTTCTAT
1 TTTCTTCTAGTCAAAATCCTTCTAT
39316902 TTTCTTCTAGTCAAAATCCTTCTAT
1 TTTCTTCTAGTCAAAATCCTTCTAT
39316927 TTTCTTC
1 TTTCTTC
39316934 ATATCTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.25, G:0.04, T:0.51
Consensus pattern (25 bp):
TTTCTTCTAGTCAAAATCCTTCTAT
Found at i:39317880 original size:27 final size:27
Alignment explanation
Indices: 39317846--39317909 Score: 87
Period size: 26 Copynumber: 2.4 Consensus size: 27
39317836 ATTTACTAAA
39317846 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* *
39317873 ATATCCCT-AGGTGCAAAATTACCATT
1 ATACCCCTAAGATGCAAAATTACCATT
39317899 ATACCCCTAAG
1 ATACCCCTAAG
39317910 GTTAATTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 2 0.06
26 21 0.66
27 9 0.28
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:39318051 original size:27 final size:28
Alignment explanation
Indices: 39318013--39318120 Score: 132
Period size: 27 Copynumber: 4.0 Consensus size: 28
39318003 GAGGAAGCGT
* *
39318013 TCTGGTGGCTCTACCACAAATATTTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
39318040 TCTGGTGGCTCTGCCACAAATATCTGTT
1 TCTGGTGGCTCTGCCACAAATATCTGTA
*
39318068 TATGGTGGCTCTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* * *
39318095 TCTGATGACTCTGTCAC-AATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGT
39318121 CCTGGCAGCC
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
27 55 0.77
28 16 0.23
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:39318107 original size:55 final size:54
Alignment explanation
Indices: 39318015--39318120 Score: 142
Period size: 55 Copynumber: 1.9 Consensus size: 54
39318005 GGAAGCGTTC
* * *
39318015 TGGTGGCTCTACCACAAATATTTGATCTGGTGGCTCTGCCACAAATATCTGTTTA
1 TGGTGGCTCTACCACAAATATCTGATCTGATGACTCTGCCAC-AATATCTGTTTA
* *
39318070 TGGTGGCTCTGCCAC-AATATCTGTATCTGATGACTCTGTCACAATATCTGT
1 TGGTGGCTCTACCACAAATATCTG-ATCTGATGACTCTGCCACAATATCTGT
39318121 CCTGGCAGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 16 0.36
55 29 0.64
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (54 bp):
TGGTGGCTCTACCACAAATATCTGATCTGATGACTCTGCCACAATATCTGTTTA
Found at i:39322015 original size:27 final size:26
Alignment explanation
Indices: 39321977--39322076 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 26
39321967 AAGCGTTCTG
39321977 GTGGCTCTGCCACAAATATCTGATCTA
1 GTGGCTCTGCCAC-AATATCTGATCTA
*
39322004 GTGGCTCTGCCACAAATAT-TGCT-TA
1 GTGGCTCTGCCAC-AATATCTGATCTA
*
39322029 TGGTGGCTCTGCCACAATATCTGTATCTG
1 --GTGGCTCTGCCACAATATCTG-ATCTA
* *
39322058 GTGACTCTGTCACAATATC
1 GTGGCTCTGCCACAATATC
39322077 AGTTCTGGCA
Statistics
Matches: 63, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
25 2 0.03
26 8 0.13
27 51 0.81
28 1 0.02
29 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (26 bp):
GTGGCTCTGCCACAATATCTGATCTA
Found at i:39335793 original size:28 final size:28
Alignment explanation
Indices: 39335745--39335835 Score: 139
Period size: 28 Copynumber: 3.2 Consensus size: 28
39335735 GTGACAGAGT
*
39335745 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
39335774 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
39335802 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
39335830 CACCAG
1 CACCAG
39335836 GACGCTTCCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:39335988 original size:28 final size:28
Alignment explanation
Indices: 39335944--39336005 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
39335934 TTAACCCCAA
*
39335944 GGGTATAAAGGTCATTTAGCATACATAG
1 GGGTATAAAGGTAATTTAGCATACATAG
* *
39335972 GGGTATAATGGTAATTTTGCATACATAG
1 GGGTATAAAGGTAATTTAGCATACATAG
39336000 GGGTAT
1 GGGTAT
39336006 TCAAGTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.08, G:0.27, T:0.32
Consensus pattern (28 bp):
GGGTATAAAGGTAATTTAGCATACATAG
Found at i:39336893 original size:39 final size:39
Alignment explanation
Indices: 39336849--39336927 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
39336839 AGAAAGGTAA
39336849 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
1 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
39336888 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
1 AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
39336927 A
1 A
39336928 GGTTTTAGAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (39 bp):
AACGAGAGGGTTTTGCTATGGTCTTGTCGTCAAAAATTG
Found at i:39343635 original size:28 final size:28
Alignment explanation
Indices: 39343587--39343677 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
39343577 GTGACAGAGT
*
39343587 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
39343616 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
39343644 CACTAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
39343672 CACCAG
1 CACCAG
39343678 GACGCTTCCT
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
28 49 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:39343830 original size:28 final size:28
Alignment explanation
Indices: 39343783--39343847 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
39343773 AAATTAACCC
*
39343783 TAGGGGTATAAAGGTCATTTAGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
* *
39343811 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTAGCATACA
39343839 TAGGGGTAT
1 TAGGGGTAT
39343848 TCAAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTAGCATACA
Found at i:39369900 original size:40 final size:40
Alignment explanation
Indices: 39369852--39369989 Score: 258
Period size: 40 Copynumber: 3.5 Consensus size: 40
39369842 TGAGGAATTG
*
39369852 TATCCGGGCTTAAGGACCCGCAGTCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGTCTATATGCTGGAATGT
39369892 TATCCGGGCTTAAAGACCCGCAGTCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGTCTATATGCTGGAATGT
*
39369932 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGT
1 TATCCGGGCTTAAAGACCCGCAGTCTATATGCTGGAATGT
39369972 TATCCGGGCTTAAAGACC
1 TATCCGGGCTTAAAGACC
39369990 TACAGGCTTC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
TATCCGGGCTTAAAGACCCGCAGTCTATATGCTGGAATGT
Found at i:39370010 original size:80 final size:80
Alignment explanation
Indices: 39369852--39370016 Score: 242
Period size: 80 Copynumber: 2.1 Consensus size: 80
39369842 TGAGGAATTG
* * * *
39369852 TATCCGGGCTTAAGGACCCGCAGTCTATATGCTGGAATGTTATCCGGGCTTAAAGACCCGCAGTC
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGTTATCCGGGCTTAAAGACCCACAGGC
* *
39369917 TATATGCTGGAATGT
66 TATATGCTAGAATGC
*
39369932 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGTTATCCGGGCTTAAAGACCTACAGGC
1 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGTTATCCGGGCTTAAAGACCCACAGGC
*
39369997 T-TCGTGCTAGAATGC
66 TAT-ATGCTAGAATGC
39370012 TATCC
1 TATCC
39370017 AAGCTAGAGA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
79 1 0.01
80 75 0.99
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (80 bp):
TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATGTTATCCGGGCTTAAAGACCCACAGGC
TATATGCTAGAATGC
Found at i:39380609 original size:50 final size:50
Alignment explanation
Indices: 39380496--39380873 Score: 323
Period size: 50 Copynumber: 7.5 Consensus size: 50
39380486 AGAACACATC
* * *
39380496 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGTCACGTG
* * *
39380548 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * * *
39380598 TGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGTTTCGATCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGTCACGTG
* * ***
39380649 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGTATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * * * *
39380699 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCA-ATCATGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--GTT-AGGTCACGTG
* * * * * *
39380750 TGTAGTACTAACTGCAGGCTACAACGTGTATCAGATGGATAAGTCACGTG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* * * ** *
39380800 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGCTTGCATG
1 TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
* *
39380850 TATAATACTAAGTGCAGGCTACTA
1 TGTAGTACTAAGTGCAGGCTACTA
39380874 TGCGTACTAG
Statistics
Matches: 259, Mismatches: 59, Indels: 18
0.77 0.18 0.05
Matches are distributed among these distances:
48 2 0.01
49 6 0.02
50 148 0.57
51 75 0.29
52 28 0.11
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
TGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACGTG
Found at i:39380677 original size:101 final size:101
Alignment explanation
Indices: 39380496--39380835 Score: 410
Period size: 101 Copynumber: 3.4 Consensus size: 101
39380486 AGAACACATC
* * *** * * *
39380496 TGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTACTAAGT
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG-TTTCGATCACGTGTGTAGTACTAAGT
* *
39380561 GCAGGCTACTACGTGTACCAAATTGTTAGGTCGCATG
65 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
*
39380598 TGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGTTTCGATCACGTGTGTAGTACTAAGTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTAAGTG
* *
39380663 TAGGCTACTACGTGTACCAGATTGATAGGTCGTATG
66 CAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
* * ** * * *
39380699 TGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCAATCATGTGTGTAGTACTAACTG
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTAAGTG
* * * * * *
39380764 CAGGCTACAACGTGTATCAGATGGATAAGTCACGTG
66 CAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
* * *
39380800 TGTAGTACTAAGTGTAGGCTACTACGTGTACCAGAT
1 TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
39380836 TGATAGCTTG
Statistics
Matches: 205, Mismatches: 33, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
101 174 0.85
102 31 0.15
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
TGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGTTTCGATCACGTGTGTAGTACTAAGTG
CAGGCTACTACGTGTACCAGATTGATAGGTCGCATG
Found at i:39381104 original size:16 final size:16
Alignment explanation
Indices: 39381083--39381114 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39381073 AGAATGGAGT
39381083 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
39381099 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
39381115 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:39381697 original size:180 final size:180
Alignment explanation
Indices: 39381443--39381768 Score: 485
Period size: 180 Copynumber: 1.8 Consensus size: 180
39381433 CCGAGAGCTG
* * ** *
39381443 TACCATGAGATAAATAATTTTTAGTGAAGAGAGGTCGGAACTGTCAGATAGTGAAACAAGGGTAT
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACCATCAGACAGTGAAACAAGGGTAT
* *
39381508 CTTTAATGAATAAACTGTACTAATTGGAAAAACTAAAAA-TTTAGAAAATTTTACGATAAGAATA
66 ATTTAATGAATAAAATGTACTAATTGGAAAAACTAAAAATTTTA-AAAATTTTACGATAAGAATA
39381572 TATATGAGTCTAGTTTCTGTAAAAATTAGTGGTTCTCAATTTGGAGTCTTC
130 TATATGAGTCTAGTTTCTGTAAAAATTAGTGGTTCTCAATTTGGAGTCTTC
** **
39381623 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACCATTGGACAGTG-AATTAGGAGTA
1 TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACCATCAGACAGTGAAACAAGG-GTA
** * *
39381687 TATTTAATGAATAAAATGTACTAATTGGCTAAACTAAAAATTTTAAAAATTTTAGGGTAAGAATA
65 TATTTAATGAATAAAATGTACTAATTGGAAAAACTAAAAATTTTAAAAATTTTACGATAAGAATA
39381752 TATATGAGTCTAGTTTC
130 TATATGAGTCTAGTTTC
39381769 AGAGAAAATT
Statistics
Matches: 129, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
179 5 0.04
180 120 0.93
181 4 0.03
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (180 bp):
TACCATGAAATAAATAATTTTTAGTGAAGAGAGGTCAGAACCATCAGACAGTGAAACAAGGGTAT
ATTTAATGAATAAAATGTACTAATTGGAAAAACTAAAAATTTTAAAAATTTTACGATAAGAATAT
ATATGAGTCTAGTTTCTGTAAAAATTAGTGGTTCTCAATTTGGAGTCTTC
Found at i:39384603 original size:15 final size:15
Alignment explanation
Indices: 39384582--39384625 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
39384572 TATGATATTG
39384582 TATCTTGGATTTC-C
1 TATCTTGGATTTCTC
39384596 TCATCTTGGATTTCTC
1 T-ATCTTGGATTTCTC
*
39384612 TATCTTGGACTTCT
1 TATCTTGGATTTCT
39384626 TAATCCTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.50
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:39384640 original size:30 final size:30
Alignment explanation
Indices: 39384582--39384640 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
39384572 TATGATATTG
* * *
39384582 TATCTTGGATTTCCTCATCTTGGATTTCTC
1 TATCTTGGACTTCCTAATCCTGGATTTCTC
* *
39384612 TATCTTGGACTTCTTAATCCTGGTTTTCT
1 TATCTTGGACTTCCTAATCCTGGATTTCT
39384641 TGTTATCTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (30 bp):
TATCTTGGACTTCCTAATCCTGGATTTCTC
Found at i:39387226 original size:19 final size:19
Alignment explanation
Indices: 39387202--39387238 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39387192 TAAGTATATA
39387202 TATGTGAATAATTTGATGT
1 TATGTGAATAATTTGATGT
* *
39387221 TATGTGATTATTTTGATG
1 TATGTGAATAATTTGATG
39387239 ATATAACGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (19 bp):
TATGTGAATAATTTGATGT
Found at i:39387818 original size:151 final size:150
Alignment explanation
Indices: 39387599--39388028 Score: 522
Period size: 151 Copynumber: 2.8 Consensus size: 150
39387589 TGAGAACACA
* ** *
39387599 TGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACA-GTTTTAGGTCACGTGTGTAGTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTG--TATCACATG-GTTAGGTCACGTGTGTAGTACTA
* * * * *
39387663 AGTGCAGGCTACTACTTGTACTAGATTGTTAGGTCCCATGTGTAGTACTAAGTGTAGGCTATTAT
63 AGTGCAGGCTACTACGTGTAC-AGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
**
39387728 ACAAACCCGATAGTTTCGATCACG
127 ACAAACCCGATAACTTCGATCACG
* *
39387752 TGTGTAGTACTAAGTGCAGGCTACTATATGTATCACATGGTTAGGTCACATGTGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCACATGGTTAGGTCACGTGTGTAGTACTAAGT
* * * * *
39387817 GCAGGCTACTACGTGTACCGAATCGATAGGTCGCATGTGTAGTACTACGTGCAGGCTACTATGCG
66 GCAGGCTACTACGTGTACAG-ATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACA
* * *
39387882 TACCCGTTAACTTCGATCATG
130 AACCCGATAACTTCGATCACG
* * * * * * *
39387903 TGTGTAGTACTAGGTGCATGCTACTACGTGTATCAGATGGATAAGTCACGTATGTA-TACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCACATGGTTAGGTCACGTGTGTAGTACTAAGT
* *
39387967 GCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTATAGTACTAAGTCCAGGCTACTAT
66 GCAGGCTACTACGTGTA-CAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTAT
39388029 GCGTACCAAA
Statistics
Matches: 239, Mismatches: 35, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
150 63 0.26
151 147 0.62
152 1 0.00
153 28 0.12
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (150 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTATCACATGGTTAGGTCACGTGTGTAGTACTAAGT
GCAGGCTACTACGTGTACAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACAA
ACCCGATAACTTCGATCACG
Found at i:39388035 original size:50 final size:50
Alignment explanation
Indices: 39387597--39388036 Score: 278
Period size: 50 Copynumber: 8.7 Consensus size: 50
39387587 TGTGAGAACA
* * *** * ** *
39387597 CATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TG-GATAGGTCG
* * * * * *
39387649 CGTGTGTAGTACTAAGTGCAGGCTACTACTTGTACTAGATTGTTAGGTCC
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAGGTCG
* * ***** * ** * * *
39387699 CATGTGTAGTACTAAGTGTAGGCTATTATACAAACCCGATAGTTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGATAGGTCG
* ** * * * *
39387750 CGTGTGTAGTACTAAGTGCAGGCTACTATATGTATCACATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAGGTCG
*
39387800 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATCGATAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATGGATAGGTCG
* * * * * **
39387850 CATGTGTAGTACTACGTGCAGGCTACTATGCGTACCCG-T-TA-ACTTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAGGTCG
* * * * *
39387897 ATCATGTGTGTAGTACTAGGTGCATGCTACTACGTGTATCAGATGGATAAGTCA
1 --CA--TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAGGTCG
* * *
39387951 CGTATGTA-TACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAGGTCG
* * * *
39388000 CATGTATAGTACTAAGTCCAGGCTACTATGCGTACCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
39388037 AAGAGCTTCA
Statistics
Matches: 301, Mismatches: 76, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
47 4 0.01
48 1 0.00
49 43 0.14
50 148 0.49
51 67 0.22
52 34 0.11
53 1 0.00
54 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAGGTCG
Found at i:39388120 original size:16 final size:16
Alignment explanation
Indices: 39388099--39388130 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39388089 AGAATGGAGT
39388099 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
39388115 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
39388131 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:39391803 original size:34 final size:34
Alignment explanation
Indices: 39391764--39391841 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
39391754 CCTCTTTTTT
*
39391764 AGTAACAGTATCAGTCTGGGCCTGAGCCCATTTC
1 AGTAACAGTATCAGTCTGGGCCTGAGCCCATCTC
* *
39391798 AGTAACAG-AGGCAGTCTGGGCCTTAGCCCATCTC
1 AGTAACAGTA-TCAGTCTGGGCCTGAGCCCATCTC
*
39391832 ACT-ACAGTAT
1 AGTAACAGTAT
39391842 GCAAACAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
33 5 0.14
34 32 0.86
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (34 bp):
AGTAACAGTATCAGTCTGGGCCTGAGCCCATCTC
Found at i:39400127 original size:16 final size:17
Alignment explanation
Indices: 39400106--39400140 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
39400096 ACAACCCATA
39400106 TTTTGGCTTTTCA-CCT
1 TTTTGGCTTTTCAGCCT
39400122 TTTTGGCTTTTCAGCCT
1 TTTTGGCTTTTCAGCCT
39400139 TT
1 TT
39400141 GTCATTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.06, C:0.23, G:0.14, T:0.57
Consensus pattern (17 bp):
TTTTGGCTTTTCAGCCT
Found at i:39403153 original size:6 final size:6
Alignment explanation
Indices: 39403135--39403234 Score: 89
Period size: 6 Copynumber: 16.3 Consensus size: 6
39403125 AAGAAACATT
39403135 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAG-
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * * *
39403182 GTGACAGA ATCAGA ACCAAA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA
1 AT--CAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
39403233 AT
1 AT
39403235 GTGAATGCAA
Statistics
Matches: 76, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
5 4 0.05
6 63 0.83
7 7 0.09
8 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:39403193 original size:31 final size:31
Alignment explanation
Indices: 39403135--39403234 Score: 116
Period size: 31 Copynumber: 3.3 Consensus size: 31
39403125 AAGAAACATT
39403135 ATCAGAA-CTAGAATCA-G-AATCAGAATCAGA
1 ATCAGAATC-AGAATCAGGTAA-CAGAATCAGA
*
39403165 ATCAGAATCAGAATCAGGTGACAGAATCAGA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
* * * *
39403196 ACCAAAATCAGTATCAGGTAACAGAATCAAA
1 ATCAGAATCAGAATCAGGTAACAGAATCAGA
39403227 ATCAGAAT
1 ATCAGAAT
39403235 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
30 14 0.24
31 44 0.75
32 1 0.02
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (31 bp):
ATCAGAATCAGAATCAGGTAACAGAATCAGA
Found at i:39403658 original size:27 final size:27
Alignment explanation
Indices: 39403628--39404094 Score: 414
Period size: 27 Copynumber: 17.3 Consensus size: 27
39403618 GGGGCAAAAT
** *
39403628 GGTAATTTTACCCCCCAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
39403655 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
39403682 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
39403709 GGTAATTCTATCCTAC-AGGAGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
** * * *
39403736 AATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
39403763 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
** * *
39403790 GGT-ATTTCTATGCTATAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * **
39403817 AGTAATTCTACCCTACGGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
39403844 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
39403871 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
39403898 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
39403925 AGTAATTCTACCCTACATA-GGTATTTC
1 GGTAATTTTACCCTACA-AGGGTATTTC
* * *
39403952 GGT-ATTTCTACCTTATAAAGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
39403979 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
39404006 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
39404033 AGT-ATTTCTACCCTATAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
39404060 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
39404087 AGTAATTT
1 GGTAATTT
39404095 CACAAATCAG
Statistics
Matches: 360, Mismatches: 66, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
26 19 0.05
27 324 0.90
28 17 0.05
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:39404002 original size:54 final size:54
Alignment explanation
Indices: 39403646--39404093 Score: 567
Period size: 54 Copynumber: 8.3 Consensus size: 54
39403636 TACCCCCCAA
* * * * * * *
39403646 GGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
* * **
39403700 GGGTATTTCGGTAATTCTATCCTAC-AGGAGTATTTCAATAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACCCTATAG
* * **
39403754 GGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTATGCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
** * * *
39403808 GGGTATTTCAGTAATTCTACCCTACGGGGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
*
39403862 GGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
* * * *
39403916 GGGTATTTTAGTAATTCTACCCTACATA-GGTATTTCGGTATTTCTACCTTATAA
1 GGGTATTTCAGTAATTCTACCCTACA-AGGGTATTTCGGTAATTCTACCCTATAG
* * * *
39403970 AGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
* * * *
39404024 GGGTATTTTAGTATTTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
39404078 GGGTATTTCAGTAATT
1 GGGTATTTCAGTAATT
39404094 TCACAAATCA
Statistics
Matches: 343, Mismatches: 47, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
53 3 0.01
54 336 0.98
55 4 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (54 bp):
GGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAG
Found at i:39404105 original size:27 final size:26
Alignment explanation
Indices: 39404051--39404181 Score: 109
Period size: 27 Copynumber: 4.9 Consensus size: 26
39404041 TACCCTATAA
* * **
39404051 GGGTATTTCGGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTTTA-CAAACAG
*
39404078 GGGTATTTCAGTAATTTCACAAATCAG
1 GGGTATTTCAGTAATTTTACAAA-CAG
**
39404105 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTCAGTAATTTTACAAAC-AG
** ** *
39404132 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTCAGTAATTTTACAAA-CAG
*
39404159 GGGTATTTCAGTAATTTTGCAAA
1 GGGTATTTCAGTAATTTTACAAA
39404182 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
26 3 0.03
27 83 0.95
28 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.37
Consensus pattern (26 bp):
GGGTATTTCAGTAATTTTACAAACAG
Found at i:39404147 original size:81 final size:81
Alignment explanation
Indices: 39403644--39404095 Score: 620
Period size: 81 Copynumber: 5.6 Consensus size: 81
39403634 TTTACCCCCC
*
39403644 AAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
* *
39403709 GGTAATTCTATCCTA-
66 GGTATTTCTACCCTAT
* ** *
39403724 CAGGAGTATTTCAATAATTCTACCCTATAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTT
1 AAGG-GTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTT
**
39403789 CGGTATTTCTATGCTAT
65 CGGTATTTCTACCCTAT
* * * *
39403806 AGGGGTATTTCAGTAATTCTACCCTACGGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
* *
39403871 AGTATTTCTACCCTAC
66 GGTATTTCTACCCTAT
* * *
39403887 AAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTTAGTAATTCTACCCTACATA-GGTATTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACA-AGGGTATTT
*
39403951 CGGTATTTCTACCTTAT
65 CGGTATTTCTACCCTAT
* * * * * * *
39403968 AAAGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTT
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
*
39404033 AGTATTTCTACCCTAT
66 GGTATTTCTACCCTAT
39404049 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTTC
1 AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGT-ATTTC
39404096 ACAAATCAGG
Statistics
Matches: 325, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
80 3 0.01
81 315 0.97
82 7 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
AAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
GGTATTTCTACCCTAT
Found at i:39404163 original size:54 final size:54
Alignment explanation
Indices: 39404105--39404230 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 54
39404095 CACAAATCAG
*** *
39404105 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-TAGAGGGTAAAATGGTAATTCTGTAAACCAA
** * * * *
39404159 GGGTATTTCAGTAATTTTGCAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATAGAGGGTAAAATGGTAATTCTGTAAACCAA
*
39404213 GGGTAGTTTGGTAATTTT
1 GGGTATTTTGGTAATTTT
39404231 CTAAATTGAG
Statistics
Matches: 58, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 2 0.03
54 56 0.97
ACGTcount: A:0.29, C:0.07, G:0.25, T:0.39
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATAGAGGGTAAAATGGTAATTCTGTAAACCAA
Found at i:39404188 original size:27 final size:27
Alignment explanation
Indices: 39404078--39404256 Score: 116
Period size: 27 Copynumber: 6.6 Consensus size: 27
39404068 TACCCTACAG
* **
39404078 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTCGGTAATTTTGCAAATCGA
* * *
39404104 GGGGTATTTTGGTAATTTTACAAA-CTA
1 -GGGTATTTCGGTAATTTTGCAAATCGA
* * * *
39404131 GGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTCGGTAATTTTGCAAATCGA
*
39404159 GGGTATTTCAGTAATTTTGCAAATCGA
1 GGGTATTTCGGTAATTTTGCAAATCGA
** * *
39404186 GGGTAAAAT-GGTAATTCTGTAAATCGA
1 GGGT-ATTTCGGTAATTTTGCAAATCGA
*
39404213 GGGTAGTTT-GGTAATTTT-CTAAATTGA
1 GGGTA-TTTCGGTAATTTTGC-AAATCGA
* *
39404240 GGGCATTTCAGTAATTT
1 GGGTATTTCGGTAATTT
39404257 GGTAAACTAA
Statistics
Matches: 123, Mismatches: 23, Indels: 12
0.78 0.15 0.08
Matches are distributed among these distances:
26 5 0.04
27 114 0.93
28 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTGCAAATCGA
Found at i:39404190 original size:81 final size:81
Alignment explanation
Indices: 39404078--39404256 Score: 193
Period size: 81 Copynumber: 2.2 Consensus size: 81
39404068 TACCCTACAG
*** * *
39404078 GGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATT-T-TACAAACTAGGGGTATTTT
1 GGGTATTTCAGTAATTTCACAAATCAGGGGTAAAATGGTAATTCTGTA-AAACGA-GGGTAGTTT
*
39404141 GGTAATTTTGTAAACCAA
64 GGTAATTTTCTAAACCAA
** *
39404159 GGGTATTTCAGTAATTTTGCAAATC-GAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAGTTTG
1 GGGTATTTCAGTAATTTCACAAATCAG-GGGTAAAATGGTAATTCTGTAAAACGAGGGTAGTTTG
***
39404223 GTAATTTTCTAAATTGA
65 GTAATTTTCTAAACCAA
*
39404240 GGGCATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
39404257 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 74 0.90
82 5 0.06
83 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTCACAAATCAGGGGTAAAATGGTAATTCTGTAAAACGAGGGTAGTTTGG
TAATTTTCTAAACCAA
Found at i:39406797 original size:15 final size:15
Alignment explanation
Indices: 39406765--39406793 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39406755 ATTTTTTGTG
39406765 TTTATAATGTGTGAA
1 TTTATAATGTGTGAA
39406780 TTTAT-ATGTGTGAA
1 TTTATAATGTGTGAA
39406794 ATTTTCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (15 bp):
TTTATAATGTGTGAA
Found at i:39406876 original size:39 final size:39
Alignment explanation
Indices: 39406833--39406908 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
39406823 TGCTCGATTT
39406833 AATAAAAAGGCTTAATCGTGTAAGTTATAAAAGTTGCTA
1 AATAAAAAGGCTTAATCGTGTAAGTTATAAAAGTTGCTA
39406872 AATAAAAAGGCTTAATCGTGTAAGTTATAAAAGTTGC
1 AATAAAAAGGCTTAATCGTGTAAGTTATAAAAGTTGC
39406909 CAACTATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.43, C:0.08, G:0.18, T:0.30
Consensus pattern (39 bp):
AATAAAAAGGCTTAATCGTGTAAGTTATAAAAGTTGCTA
Found at i:39408022 original size:43 final size:43
Alignment explanation
Indices: 39407959--39408088 Score: 174
Period size: 43 Copynumber: 3.0 Consensus size: 43
39407949 CATAGGATTT
*
39407959 TCGATATGTGTTCTCATGTAAGACCACATCTGGGACGTTGGCA
1 TCGATATGTGTTCTCATGTAAGACCACATCTGGGACATTGGCA
* * *
39408002 TCGATATGTGTTCTCGTGTAAGACC-CTGTCTGGGACACTGGCA
1 TCGATATGTGTTCTCATGTAAGACCAC-ATCTGGGACATTGGCA
* *
39408045 TCGATATGTGATT-ACATGTAAGACCACACCTGGGACATTGGCA
1 TCGATATGTG-TTCTCATGTAAGACCACATCTGGGACATTGGCA
39408088 T
1 T
39408089 TGTACGATAT
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 1 0.01
43 71 0.95
44 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (43 bp):
TCGATATGTGTTCTCATGTAAGACCACATCTGGGACATTGGCA
Found at i:39411138 original size:39 final size:39
Alignment explanation
Indices: 39411094--39411231 Score: 213
Period size: 39 Copynumber: 3.5 Consensus size: 39
39411084 ATTCACTTTT
* * *
39411094 AAGCATATATTACAATATTCATATAATCACATAACATCC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
39411133 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
39411172 AAGCATATATGACAATACTCATATAATCACATAACTTTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
39411211 AAGCATATATAACAGTACTCA
1 AAGCATATATCACAATACTCA
39411232 AAAACATGTT
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 92 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:39414997 original size:16 final size:15
Alignment explanation
Indices: 39414973--39415028 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 15
39414963 TACAGTTGTC
*
39414973 TCACTATCTATCATTT
1 TCACAATCTAT-ATTT
*
39414989 TCACAATCTAGAGTTT
1 TCACAATCTATA-TTT
* *
39415005 TCACAGTCTATAGTT
1 TCACAATCTATATTT
39415020 TCA-AATCTA
1 TCACAATCTA
39415029 AAAAAAATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
14 5 0.15
15 6 0.18
16 22 0.67
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.41
Consensus pattern (15 bp):
TCACAATCTATATTT
Found at i:39417329 original size:19 final size:19
Alignment explanation
Indices: 39417305--39417344 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
39417295 TGTGTCATCA
*
39417305 TAAATTCATAGGCATAGCT
1 TAAATTCATAGGCATAACT
*
39417324 TAAATTTATAGGCATAACT
1 TAAATTCATAGGCATAACT
39417343 TA
1 TA
39417345 CATATTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGGCATAACT
Found at i:39421429 original size:48 final size:48
Alignment explanation
Indices: 39421373--39421650 Score: 360
Period size: 48 Copynumber: 5.8 Consensus size: 48
39421363 CACCATATTA
* * * *
39421373 ATGTGTGCCAGTGTAAGACTATGTTTGGGACATGGAATCGACAATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* *
39421421 ATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * *
39421469 ATGTATGCCAGTGTAAGACCATGTCTGAGACATGGCATTGGCGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * *
39421517 ATGTATGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGTGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGAT
* * *
39421565 ATGTTTGCCAGTGTAAGACCAGGTATGGGACATGGCATCGACGATGAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
* * * *
39421613 ATGTGTGCTAGTATAAGACCTTGTTTGGGACATGGCAT
1 ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCAT
39421651 TGTCACTGAC
Statistics
Matches: 200, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
48 199 1.00
49 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.28
Consensus pattern (48 bp):
ATGTGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGAT
Found at i:39422765 original size:31 final size:27
Alignment explanation
Indices: 39422708--39422765 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
39422698 CTTACTAAGC
*
39422708 TTTAAGCTTACTCTCTCATTTTCTTTA
1 TTTAAGCTGACTCTCTCATTTTCTTTA
*
39422735 TTTAAGCTGACTCTCTCATTTTCTTTC
1 TTTAAGCTGACTCTCTCATTTTCTTTA
39422762 TTTA
1 TTTA
39422766 GTGATGTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.22, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTAAGCTGACTCTCTCATTTTCTTTA
Found at i:39428300 original size:23 final size:23
Alignment explanation
Indices: 39428248--39428418 Score: 136
Period size: 23 Copynumber: 7.4 Consensus size: 23
39428238 GTCATGGTTG
*
39428248 GTAAGCTCCTCTTGAGCTGATGAACA
1 GTAAGCT-CTATTGAGCTGA--AACA
*
39428274 GTAAGCTCTATTGAGCTGAAACG
1 GTAAGCTCTATTGAGCTGAAACA
**
39428297 GTAAGCTCTATCAAGCT-AAACA
1 GTAAGCTCTATTGAGCTGAAACA
*
39428319 GTAAGCT-TATACGAGCTGAAACA
1 GTAAGCTCTAT-TGAGCTGAAACA
*
39428342 GTAAGCTTTATTGAGCTG-AACA
1 GTAAGCTCTATTGAGCTGAAACA
* * * *
39428364 TTAGGCTCT-TTCAAGCT-AAACCG
1 GTAAGCTCTATT-GAGCTGAAA-CA
* *
39428387 GTAAGCTCCAATGAGCTGAAACA
1 GTAAGCTCTATTGAGCTGAAACA
*
39428410 GTAAACTCT
1 GTAAGCTCT
39428419 TCCGAGCTAT
Statistics
Matches: 117, Mismatches: 20, Indels: 19
0.75 0.13 0.12
Matches are distributed among these distances:
21 5 0.04
22 32 0.27
23 55 0.47
24 7 0.06
25 11 0.09
26 7 0.06
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (23 bp):
GTAAGCTCTATTGAGCTGAAACA
Found at i:39428348 original size:68 final size:68
Alignment explanation
Indices: 39428261--39428418 Score: 185
Period size: 68 Copynumber: 2.3 Consensus size: 68
39428251 AGCTCCTCTT
*
39428261 GAGCTGATGAACAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATCAAGCTAAA-CAGTAAGC
1 GAGCTGA--AACAGTAAGCTCTATTGAGCTG-AACAGTAAGCTCTATCAAGCTAAACCAGTAAGC
*
39428325 T-TATAC
63 TCCA-AC
* * * * *
39428331 GAGCTGAAACAGTAAGCTTTATTGAGCTGAACATTAGGCTCTTTCAAGCTAAACCGGTAAGCTCC
1 GAGCTGAAACAGTAAGCTCTATTGAGCTGAACAGTAAGCTCTATCAAGCTAAACCAGTAAGCTCC
*
39428396 AAT
66 AAC
*
39428399 GAGCTGAAACAGTAAACTCT
1 GAGCTGAAACAGTAAGCTCT
39428419 TCCGAGCTAT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
67 20 0.26
68 48 0.63
69 1 0.01
70 7 0.09
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (68 bp):
GAGCTGAAACAGTAAGCTCTATTGAGCTGAACAGTAAGCTCTATCAAGCTAAACCAGTAAGCTCC
AAC
Found at i:39432801 original size:22 final size:22
Alignment explanation
Indices: 39432774--39432855 Score: 96
Period size: 22 Copynumber: 3.7 Consensus size: 22
39432764 CCTGAGCTGA
*
39432774 TGAACAGTAAGCTCTATAAAGC
1 TGAACAGTAAGCTCTATAGAGC
39432796 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTATA-GAGC
* *
39432818 TGAAACGGTAAGCT-TCATTGAGC
1 TG-AACAGTAAGCTCT-ATAGAGC
39432841 TGAACAGTAAGCTCT
1 TGAACAGTAAGCTCT
39432856 TTCGAGCTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 3 0.06
22 29 0.57
23 17 0.33
24 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATAGAGC
Found at i:39432842 original size:45 final size:45
Alignment explanation
Indices: 39432793--39432896 Score: 129
Period size: 45 Copynumber: 2.3 Consensus size: 45
39432783 AGCTCTATAA
* * *
39432793 AGCTGAACAGTAAGCTCATACGAGCTGAAA-CGGTAAGCTTCATTG
1 AGCTGAACAGTAAGCTCATACGAGCT-AAATCGGCAAGCTCCAATG
* * *
39432838 AGCTGAACAGTAAGCTCTTTCGAGCTAAATCTGCAAGCTCCAATG
1 AGCTGAACAGTAAGCTCATACGAGCTAAATCGGCAAGCTCCAATG
39432883 AGCTGAAACAGTAA
1 AGCTG-AACAGTAA
39432897 ACTCTTCCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 3 0.06
45 40 0.78
46 8 0.16
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (45 bp):
AGCTGAACAGTAAGCTCATACGAGCTAAATCGGCAAGCTCCAATG
Found at i:39452900 original size:93 final size:93
Alignment explanation
Indices: 39452792--39452963 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
39452782 CGCCCATAAG
* * *
39452792 CGAACACGGACTCAACTCAACGAGCTCAGG-CGTTTGGATCCATAAGTGAACTCGGACTCAACTC
1 CGAACACGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
39452856 AACAAGTTCGGATGCCTAGTTACATCTCA
65 AACAAGTTCGGATGCCTAGTTACATCTCA
* *
39452885 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39452950 ACAAGTTCGGATGC
66 ACAAGTTCGGATGC
39452964 TCAATCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACACGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGGATGCCTAGTTACATCTCA
Found at i:39452958 original size:46 final size:45
Alignment explanation
Indices: 39452785--39452960 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
39452775 TGTAACCCGC
* * * * *
39452785 CCATAAGCGAACACGGACTCAACTCAACGAGCTCAGG-CGTTTGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTC-GGAC-ATTGCAT
* *
39452831 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGA---C-A-TTGCAT
* *
39452881 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATT-GCAT
*
39452924 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGA
39452961 TGCTCAATCA
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 58 0.55
47 28 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACAAGTTCGGACATTGCAT
Found at i:39452979 original size:46 final size:46
Alignment explanation
Indices: 39452829--39452979 Score: 141
Period size: 46 Copynumber: 3.2 Consensus size: 46
39452819 AGGCGTTTGG
39452829 ATCCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGC-CTAGTTAC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTC-A--T-C
* * * *** *
39452879 AT-CTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GC
1 ATCCTAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCATC
39452922 ATCCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCAATC
1 ATCC-TAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTC-ATC
39452970 ATCCT-AGTGA
1 ATCCTAAGTGA
39452980 CATGTCACTT
Statistics
Matches: 81, Mismatches: 14, Indels: 16
0.73 0.13 0.14
Matches are distributed among these distances:
43 3 0.04
44 1 0.01
45 2 0.02
46 35 0.43
47 29 0.36
48 8 0.10
49 1 0.01
50 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (46 bp):
ATCCTAAGTGAACTCGGACTCAACTCAACAAGTTCGGATGCTCATC
Found at i:39454409 original size:51 final size:52
Alignment explanation
Indices: 39454332--39454465 Score: 193
Period size: 52 Copynumber: 2.6 Consensus size: 52
39454322 CGTATACTCG
* * *
39454332 GTGGCCTGCACCTAGTACCACCCTTGTAGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
* *
39454383 GTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-TCAAAGCTATCCTTCTTCACAAA
39454435 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCA
39454466 CTAGTGACAT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.01
51 34 0.46
52 39 0.53
ACGTcount: A:0.27, C:0.31, G:0.16, T:0.27
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTATCCTTCTTCACAAA
Found at i:39460451 original size:21 final size:21
Alignment explanation
Indices: 39460425--39460495 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 21
39460415 AATTACATGG
39460425 TAAATATCAAATCACCTTAAA
1 TAAATATCAAATCACCTTAAA
** * *
39460446 TAAATAT-AAGCCA-ATTACATGG
1 TAAATATCAAATCACCTTA-A--A
39460468 TAAATATCAAATCACCTTAAA
1 TAAATATCAAATCACCTTAAA
*
39460489 CAAATAT
1 TAAATAT
39460496 AAGCCAATAC
Statistics
Matches: 36, Mismatches: 9, Indels: 10
0.65 0.16 0.18
Matches are distributed among these distances:
19 3 0.08
20 5 0.14
21 13 0.36
22 7 0.19
23 5 0.14
24 3 0.08
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAATATCAAATCACCTTAAA
Found at i:39460522 original size:43 final size:43
Alignment explanation
Indices: 39460404--39460507 Score: 185
Period size: 43 Copynumber: 2.5 Consensus size: 43
39460394 TCATTTTAGC
39460404 CAAA-ATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
1 CAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
*
39460446 TAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
1 CAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
39460489 CAAATATAAGCCAA-TACAT
1 CAAATATAAGCCAATTACAT
39460508 TTGGCAAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
42 8 0.14
43 51 0.86
ACGTcount: A:0.50, C:0.18, G:0.07, T:0.25
Consensus pattern (43 bp):
CAAATATAAGCCAATTACATGGTAAATATCAAATCACCTTAAA
Found at i:39466475 original size:20 final size:20
Alignment explanation
Indices: 39466447--39466484 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39466437 ATGGTTTGAC
*
39466447 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
39466467 ATGAAATGCACATGATAT
1 ATGAAATGCACATGATAT
39466485 ATTCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:39466598 original size:25 final size:25
Alignment explanation
Indices: 39466530--39466598 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
39466520 GAGGAAGTGA
* *
39466530 AAAAGGGTTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
* *
39466555 AAAAGGGCTTTGGCTTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
39466580 AAAAGGGCTTTGCCCTAGT
1 AAAAGGGCTTTGCCCTAGT
39466599 ATTAAAGGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCG
Found at i:39474341 original size:20 final size:20
Alignment explanation
Indices: 39474313--39474350 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
39474303 ATGGTTTGAC
*
39474313 ATGATATGCACATGATATGT
1 ATGAAATGCACATGATATGT
39474333 ATGAAATGCACATGATAT
1 ATGAAATGCACATGATAT
39474351 ATTCATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (20 bp):
ATGAAATGCACATGATATGT
Found at i:39474461 original size:25 final size:25
Alignment explanation
Indices: 39474396--39474464 Score: 120
Period size: 25 Copynumber: 2.8 Consensus size: 25
39474386 GAGGAAGTGA
*
39474396 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
*
39474421 AAAAGGGCTTTGCCCTAGTTTATCG
1 AAAAGGGCTTTGCCCTAGTTTACCG
39474446 AAAAGGGCTTTGCCCTAGT
1 AAAAGGGCTTTGCCCTAGT
39474465 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTACCG
Found at i:39483654 original size:43 final size:43
Alignment explanation
Indices: 39483505--39483661 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
39483495 ATATTGTACA
* *
39483505 ATGCCAACGTCTCAGACGTGGTCTTACATGCT-ATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAATCACATATCG
* ** * * *
39483548 ATGCGATTGTCCTAGACAG-GGTCTTACATG-AATCAAATAT-G
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* * * *
39483589 ATGCCGATGTCCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
39483632 ATTCCAACGTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG
39483662 AGAACACATT
Statistics
Matches: 90, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
41 23 0.26
42 17 0.19
43 49 0.54
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:39484642 original size:25 final size:25
Alignment explanation
Indices: 39484605--39484699 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
39484595 CTCTTTTAAT
*
39484605 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
39484630 AATTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTGA-TA
* *
39484655 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
39484680 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
39484700 AGAATTTCCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 5 0.08
25 52 0.87
26 3 0.05
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:39484664 original size:50 final size:50
Alignment explanation
Indices: 39484605--39484699 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
39484595 CTCTTTTAAT
* *
39484605 AACTAGGGCAAAGCCCTTTTTGATAAATTGGGGCAAAGCCCTTTTCAGTA
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCAGTA
* * *
39484655 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTT
39484700 AGAATTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.27
Consensus pattern (50 bp):
AACTAGGGCAAAGCCCTTTTCGATAAACTGGGGCAAAGCCCTTTTCAGTA
Found at i:39484940 original size:27 final size:27
Alignment explanation
Indices: 39484901--39485091 Score: 247
Period size: 27 Copynumber: 7.0 Consensus size: 27
39484891 GGGGCAAAAT
* * *
39484901 GGTAATTTTTACCCCACAAGGGTATCTC
1 GGTAA-TTCTACCCTACAAGGGTATTTC
* *
39484929 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39484956 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
39484983 GATAATTCTACCATACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
39485010 AATAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39485037 GGTAATTCTACCCTACAAGGATATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
39485064 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
39485091 G
1 G
39485092 ATATTTTACA
Statistics
Matches: 141, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 136 0.96
28 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:39485171 original size:54 final size:53
Alignment explanation
Indices: 39485094--39485286 Score: 203
Period size: 54 Copynumber: 3.6 Consensus size: 53
39485084 GTATTTCGAT
* * * * *
39485094 ATTTTACAAATCAAGAGTATTTTGATAATTTCACATATCACGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTAATTTTACATATCA-GGGTATTTTGGTA
* * * *
39485148 ATTTTACAAGCCAGGGGTGTTTTGGTAATTTTACA-AGCCAAGGGTATTTTAGTA
1 ATTTTACAAACCAGGGGTATTTTGGTAATTTTACATA-TC-AGGGTATTTTGGTA
39485202 ATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-TGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAGGGGTATTTTGGTAATTTTACAT-ATC-AGGGTATTTTGGTA
** * *
39485256 ATTTTGTAAACCAAGGGTA-TTTAGTAATTTT
1 ATTTTACAAACCAGGGGTATTTTGGTAATTTT
39485287 GTAAATTGGG
Statistics
Matches: 117, Mismatches: 18, Indels: 9
0.81 0.12 0.06
Matches are distributed among these distances:
53 12 0.10
54 103 0.88
55 2 0.02
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (53 bp):
ATTTTACAAACCAGGGGTATTTTGGTAATTTTACATATCAGGGTATTTTGGTA
Found at i:39485204 original size:81 final size:81
Alignment explanation
Indices: 39485094--39485285 Score: 228
Period size: 81 Copynumber: 2.4 Consensus size: 81
39485084 GTATTTCGAT
* * * *
39485094 ATTTTACAAATCAAGAGTATTTT-GATAATTTCACATATCACGGGTATTTTGGTAATTTTAC-AA
1 ATTTTACAAACCAAGGGTATTTTAG-TAATTTCACAAACCACGGGTATTTTGGTAATTTTACTAA
*
39485157 GCCAGGGGTGTTTTGGTA
65 GCCA-GGGTATTTTGGTA
* * * * *
39485175 ATTTTACAAGCCAAGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGAT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCACGGGTATTTTGGTAATTTTACTAAG
*
39485240 CGAGGGTATTTTGGTA
66 CCAGGGTATTTTGGTA
**
39485256 ATTTTGTAAACCAAGGGTA-TTTAGTAATTT
1 ATTTTACAAACCAAGGGTATTTTAGTAATTT
39485286 TGTAAATTGG
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
80 11 0.12
81 80 0.84
82 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (81 bp):
ATTTTACAAACCAAGGGTATTTTAGTAATTTCACAAACCACGGGTATTTTGGTAATTTTACTAAG
CCAGGGTATTTTGGTA
Found at i:39485260 original size:27 final size:27
Alignment explanation
Indices: 39485079--39485286 Score: 174
Period size: 27 Copynumber: 7.8 Consensus size: 27
39485069 TTCTACCCTA
* *
39485079 CAGGGGTATTTCGAT-ATTTTACAAAT-
1 CAGGGGTATTTTGGTAATTTTAC-AATC
* * * *
39485105 CAAGAGTATTTTGATAATTTCACATAT-
1 CAGGGGTATTTTGGTAATTTTACA-ATC
* *
39485132 CACGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAATC
* *
39485159 CAGGGGTGTTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAATC
* * *
39485186 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAATC
*
39485213 CAGGGGTATTTTGGTAATTTTACTGATC
1 CAGGGGTATTTTGGTAATTTTAC-AATC
* ** *
39485241 GA-GGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGGTAATTTTACAATC
* *
39485267 CAAGGGTA-TTTAGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
39485287 GTAAATTGGG
Statistics
Matches: 151, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
26 28 0.19
27 120 0.79
28 3 0.02
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAATC
Found at i:39485317 original size:27 final size:27
Alignment explanation
Indices: 39485296--39485662 Score: 502
Period size: 27 Copynumber: 13.6 Consensus size: 27
39485286 TGTAAATTGG
*
39485296 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
39485323 GGGTAAAATGGTAATTCTGTGAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
39485350 GGGTAAAACGATAATTCTATAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
39485377 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
39485404 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
39485431 GGGTAAAGCGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
39485458 GGGTAGAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
39485485 GGGTAAAATC-GTAATTCTGTAAATCGA
1 GGGTAAAA-CGGTAATTCTATAAATCGA
* *
39485512 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* * *
39485539 GGGTAAAATGGTAATTCTGTAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
39485566 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
39485593 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACGGTAATTCTATAAATCGA
* *
39485620 TGGTAAAACGGTAATTCTATAAATCAA
1 GGGTAAAACGGTAATTCTATAAATCGA
*
39485647 GGGTAAAACGATAATT
1 GGGTAAAACGGTAATT
39485663 TTACAAACTG
Statistics
Matches: 303, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
26 1 0.00
27 302 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (27 bp):
GGGTAAAACGGTAATTCTATAAATCGA
Found at i:39488777 original size:40 final size:40
Alignment explanation
Indices: 39488682--39488941 Score: 341
Period size: 40 Copynumber: 6.5 Consensus size: 40
39488672 CCAAGCCAAG
* * *
39488682 TGCCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AA
1 TGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAA
* * *
39488720 TGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACCAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
39488760 TGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
39488800 TGCCTTCGGGACTTAGCCCGGATGTAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
* * *
39488840 TGCCTTCGGGACTTAGCCCGGATGTAATAACTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
*
39488880 TGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAA
1 TGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAA
39488921 TGCCTTCGGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
39488942 TTATCATCCA
Statistics
Matches: 199, Mismatches: 17, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 13 0.07
39 17 0.09
40 142 0.71
41 24 0.12
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAA
Found at i:39496973 original size:24 final size:24
Alignment explanation
Indices: 39496939--39497012 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
39496929 GGCTTTTTGG
39496939 TTTTTACTTTTTATTATTA-TACTA
1 TTTTTA-TTTTTATTATTATTACTA
* *
39496963 TTTTTATTTTTATTAATATTAATA
1 TTTTTATTTTTATTATTATTACTA
39496987 -TTTTACTTTTTTATT-TTATTACTA
1 TTTTTA--TTTTTATTATTATTACTA
39497011 TT
1 TT
39497013 ATTAGTAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 16 0.38
24 17 0.40
25 9 0.21
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTTATTTTTATTATTATTACTA
Found at i:39497031 original size:48 final size:48
Alignment explanation
Indices: 39496940--39497042 Score: 111
Period size: 48 Copynumber: 2.1 Consensus size: 48
39496930 GCTTTTTGGT
* * ** *
39496940 TTTTAC-TTTTTATTATTATACTATTTTTATTTTTATTAATATTAATA
1 TTTTACTTTTTTATTATTATACTATTATTAGTAATAGTAATATTAATA
* *
39496987 TTTTACTTTTTTATT-TTATTACTATTATTAGTAATAGTACTATTATTA
1 TTTTACTTTTTTATTATTA-TACTATTATTAGTAATAGTAATATTAATA
39497035 TTCTTACT
1 TT-TTACT
39497043 ATTATGCTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 9 0.20
48 32 0.70
49 5 0.11
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (48 bp):
TTTTACTTTTTTATTATTATACTATTATTAGTAATAGTAATATTAATA
Found at i:39506682 original size:42 final size:42
Alignment explanation
Indices: 39506563--39506718 Score: 145
Period size: 42 Copynumber: 3.7 Consensus size: 42
39506553 AGTACCACAC
* * ** **
39506563 CAATGCAACATCCCAGATATGGTCTTACATGGGATCTTGTA-
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATAT
* * * * * *
39506604 CTGATGCCAATAGCCTAGCTATGATCTTACACGAAATCTCATAT
1 C-AATGCC-ATATCCCAGATATGGTCTTACATGAAATCTCATAT
*
39506648 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCAAAAT
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCTC-ATAT
*
39506691 -GATGCCATATCCCAGATATGGTCTTACA
1 CAATGCCATATCCCAGATATGGTCTTACA
39506719 CATAGTCTCA
Statistics
Matches: 91, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
41 1 0.01
42 57 0.63
43 32 0.35
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGAAATCTCATAT
Found at i:39511255 original size:27 final size:27
Alignment explanation
Indices: 39511225--39511286 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
39511215 AGTTTATAAA
39511225 ATACCCCTAAGTATG-AAAATTACCATT
1 ATACCCCTAAG-ATGCAAAATTACCATT
* * *
39511252 ATACCTCT-AGGTGCAAAATTACTATT
1 ATACCCCTAAGATGCAAAATTACCATT
39511278 ATACCCCTA
1 ATACCCCTA
39511287 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.07
26 20 0.69
27 7 0.24
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (27 bp):
ATACCCCTAAGATGCAAAATTACCATT
Found at i:39511458 original size:27 final size:27
Alignment explanation
Indices: 39511400--39511470 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
39511390 GTTCTGGTGG
* * *
39511400 CTCTGCCACAAATATCTATTTCCGGTGG
1 CTCTGCCAC-AATATCTATATCCAGTGA
*
39511428 CTCTGCCACAATATCTATATCTAGTGA
1 CTCTGCCACAATATCTATATCCAGTGA
*
39511455 CTCTGTCACAATATCT
1 CTCTGCCACAATATCT
39511471 GTTCTGGCAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
27 29 0.76
28 9 0.24
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.34
Consensus pattern (27 bp):
CTCTGCCACAATATCTATATCCAGTGA
Found at i:39525402 original size:40 final size:40
Alignment explanation
Indices: 39525308--39525532 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
39525298 TATTCGAATG
*
39525308 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * * *
39525349 ATAACCAGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * *
39525389 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
39525429 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
39525469 ATATCCGAGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* *
39525509 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
39525533 CTTGTGCAAG
Statistics
Matches: 154, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.81
41 28 0.18
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:39525488 original size:80 final size:80
Alignment explanation
Indices: 39525308--39525568 Score: 294
Period size: 80 Copynumber: 3.3 Consensus size: 80
39525298 TATTCGAATG
* * * * *
39525308 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
39525373 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
39525389 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
39525454 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * * *
39525469 ATATCCGAGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
39525534 TT-GTGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
39525548 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
39525569 ATTACTTGAG
Statistics
Matches: 152, Mismatches: 26, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
78 13 0.09
79 14 0.09
80 93 0.61
81 32 0.21
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:39525522 original size:120 final size:120
Alignment explanation
Indices: 39525308--39525568 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
39525298 TATTCGAATG
* * *
39525308 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
* * * * *
39525373 ATTCGTGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGA-TT
66 ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGC-CTTGTGCAAG-GAGTT
* *
39525429 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCC-GAGCTAAG-TCCCGAAG
1 ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGA-CTAAGAT-CCGAAG
* * *
39525491 GCATTTATGCTAG-TGACCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTT
64 GCATTCATGCGAGTTG-CCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
39525548 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
39525569 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 14, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
118 15 0.12
119 21 0.17
120 55 0.45
121 31 0.25
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (120 bp):
ATATCCGGGCTAAATCCCGAAGGCATTTGTGCTAGGCGACTATAACCAGACTAAGATCCGAAGGC
ATTCATGCGAGTTGCCACATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGGAGTT
Found at i:39539664 original size:11 final size:10
Alignment explanation
Indices: 39539644--39539682 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
39539634 AATGATGATG
39539644 AAAA-AAAGA
1 AAAAGAAAGA
39539653 AAAGAGAAAGA
1 AAA-AGAAAGA
*
39539664 AAAAGAAAAA
1 AAAAGAAAGA
39539674 AAAAGAAAG
1 AAAAGAAAG
39539683 GCTCTCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:39540995 original size:40 final size:40
Alignment explanation
Indices: 39540940--39541157 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
39540930 TGGATGATAA
* * *
39540940 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
39540980 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39541020 CCGGGCTAAGTCCCGATGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39541060 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39541100 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39541140 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39541158 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39547747 original size:11 final size:10
Alignment explanation
Indices: 39547727--39547765 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
39547717 AATGATGATG
39547727 AAAA-AAAGA
1 AAAAGAAAGA
39547736 AAAGAGAAAGA
1 AAA-AGAAAGA
*
39547747 AAAAGAAAAA
1 AAAAGAAAGA
39547757 AAAAGAAAG
1 AAAAGAAAG
39547766 GCTCTCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:39549077 original size:40 final size:40
Alignment explanation
Indices: 39549022--39549238 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
39549012 TGGATGATAA
* * *
39549022 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
39549062 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
39549102 CCGGGCTAAGTCCCG-AGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
39549141 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
39549181 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
39549221 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
39549239 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 54 0.33
40 109 0.67
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:39549154 original size:79 final size:80
Alignment explanation
Indices: 39549022--39549238 Score: 298
Period size: 79 Copynumber: 2.7 Consensus size: 80
39549012 TGGATGATAA
* * * *
39549022 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
*
39549086 GTGCGAGTTACTATGT
65 GTGCGAGTTACTATAT
*
39549102 CCGGGCTAAGTCCCG-AGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
39549166 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * * *
39549181 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
39549239 TACTTGGCTT
Statistics
Matches: 124, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
78 1 0.01
79 87 0.70
80 36 0.29
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTATAT
Found at i:39553160 original size:23 final size:23
Alignment explanation
Indices: 39553126--39553238 Score: 72
Period size: 23 Copynumber: 4.9 Consensus size: 23
39553116 AAAAGACGAG
39553126 TGAACAAG-AAATATTCTCTGGCA
1 TGAAC-AGTAAATATTCTCTGGCA
* **
39553149 TGAATAGTAAATATTCTCTATCA
1 TGAACAGTAAATATTCTCTGGCA
* **
39553172 TGAACAGTGGAA-A-TCTCTAACA
1 TGAACAGT-AAATATTCTCTGGCA
*
39553194 -GAAACAGTAAAGATTCTCTGGTGCA
1 TG-AACAGTAAATATTCTCT-G-GCA
* *
39553219 TGAATAGTGAATATTCTCTG
1 TGAACAGTAAATATTCTCTG
39553239 TAGTTTATAT
Statistics
Matches: 70, Mismatches: 12, Indels: 15
0.72 0.12 0.15
Matches are distributed among these distances:
21 3 0.04
22 17 0.24
23 30 0.43
24 3 0.04
25 16 0.23
26 1 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (23 bp):
TGAACAGTAAATATTCTCTGGCA
Found at i:39555846 original size:41 final size:43
Alignment explanation
Indices: 39555770--39555907 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 43
39555760 TCTCAGACGT
* *
39555770 GGTCTTACATGTAATCACATATCGATGCCACTGTCCTAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
*
39555813 GGTCTTACATG-AATCAAATA-CGATGCCGA-TGTCCCAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCC-ACTGTCCCAGACAG
* * * *
39555854 GGTATTACACGTAACCACATATATTGATGCCAAC-GTCCCAGAC-G
1 GGTCTTACATGTAATCA-A-ATATCGATGCC-ACTGTCCCAGACAG
39555898 TGGTCTTACA
1 -GGTCTTACA
39555908 CGAGAACACG
Statistics
Matches: 78, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
41 26 0.33
42 13 0.17
43 12 0.15
44 3 0.04
45 24 0.31
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
Found at i:39563147 original size:39 final size:39
Alignment explanation
Indices: 39563064--39563158 Score: 104
Period size: 39 Copynumber: 2.5 Consensus size: 39
39563054 TGAAACCAAT
*
39563064 TACCAGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAA
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
* * * *
39563102 TACCAGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATAT
1 TACCAGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAA
* *
39563141 TTCCAGCACGTAGCCTGC
1 TACCAGCACGAAGCCTGC
39563159 TGACCTTAAG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
38 14 0.30
39 33 0.70
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.20
Consensus pattern (39 bp):
TACCAGCACGAAGCCTGCGGGAATTTAAACCCGGCATAA
Found at i:39563186 original size:78 final size:78
Alignment explanation
Indices: 39563097--39563248 Score: 182
Period size: 78 Copynumber: 1.9 Consensus size: 78
39563087 TTAAACCCGG
* * * * * *
39563097 TATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCCTGCT
1 TATAATACCAGCAC-ATAGCCTGC-GGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCG
*
39563160 GACCTTAAGTCAGAA
64 GACCCTAAGTCAGAA
* * *
39563175 TATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAGCCTGCGGA
1 TATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
39563240 CCCTAAGTC
66 CCCTAAGTC
39563249 TGGATATACA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
77 4 0.06
78 58 0.94
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (78 bp):
TATAATACCAGCACATAGCCTGCGGACCCTAAGCCCGGACATAATTCCAGCACATAGCCTGCGGA
CCCTAAGTCAGAA
Found at i:39563254 original size:39 final size:39
Alignment explanation
Indices: 39563141--39563256 Score: 178
Period size: 39 Copynumber: 3.0 Consensus size: 39
39563131 CCGGACATAT
* * * *
39563141 TTCCAGCACGTAGCCTGCTGACCTTAAGTCAGAATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCAGGATATAA
*
39563180 TTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCAGGATATAA
*
39563219 TTCCAGCACATAGCCTGCGGACCCTAAGTCTGGATATA
1 TTCCAGCACATAGCCTGCGGACCCTAAGTCAGGATATA
39563257 CATCAGTGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCCTAAGTCAGGATATAA
Found at i:39569459 original size:29 final size:29
Alignment explanation
Indices: 39569405--39569460 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
39569395 CCCTTTTTCT
*
39569405 TTTCTTTATTATTATTGTTTCGTTATTTA
1 TTTCTTTATTATTATTGTTTCATTATTTA
* *
39569434 TTTCTTTATTATTATTTTTTTATTATT
1 TTTCTTTATTATTATTGTTTCATTATT
39569461 GGTTTTACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.05, G:0.04, T:0.73
Consensus pattern (29 bp):
TTTCTTTATTATTATTGTTTCATTATTTA
Found at i:39571134 original size:26 final size:27
Alignment explanation
Indices: 39571069--39571136 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
39571059 TTGTTTTATT
* *
39571069 TTATTTTTATTTTTATATTTATTGGAC
1 TTATTTTTATTTTTATACTTATTGAAC
**
39571096 TTA-TTTTGGTTTTAT-CTT-TTGAAC
1 TTATTTTTATTTTTATACTTATTGAAC
39571120 TATATTTTTATTTTTAT
1 T-TATTTTTATTTTTAT
39571137 TGTTTCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 6 0.18
25 4 0.12
26 20 0.61
27 3 0.09
ACGTcount: A:0.21, C:0.04, G:0.07, T:0.68
Consensus pattern (27 bp):
TTATTTTTATTTTTATACTTATTGAAC
Found at i:39575357 original size:17 final size:18
Alignment explanation
Indices: 39575337--39575370 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
39575327 ACTAATAAAT
39575337 AATATAATTT-ATATTAA
1 AATATAATTTGATATTAA
*
39575354 AATATTATTTGATATTA
1 AATATAATTTGATATTA
39575371 CTTTATTTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
AATATAATTTGATATTAA
Found at i:39575485 original size:39 final size:39
Alignment explanation
Indices: 39575442--39575521 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
39575432 CAAAGTTGAT
39575442 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
1 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
39575481 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
1 AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
39575520 AA
1 AA
39575522 AATAAAAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.50
Consensus pattern (39 bp):
AATAATTACATATTAGTTATTATCACCTTTATTTATTTA
Found at i:39587155 original size:28 final size:28
Alignment explanation
Indices: 39587123--39587192 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
39587113 AATGAGATTG
*
39587123 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
39587151 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
39587179 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
39587193 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:39590571 original size:30 final size:30
Alignment explanation
Indices: 39590537--39590593 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
39590527 TTCCCGAGCC
39590537 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * *
39590567 TAGGGGCAAAATTGTAATTTTGCAAAA
1 TAGGGGCAAAAGTGTAAATATGCAAAA
39590594 TTTTGAGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.07, G:0.25, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:39602075 original size:21 final size:21
Alignment explanation
Indices: 39602049--39602091 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39602039 ACGTGTGACC
39602049 CCTGTTTTTATAAAAAAAATT
1 CCTGTTTTTATAAAAAAAATT
39602070 CCTGTTTTTATAAAAAAAATT
1 CCTGTTTTTATAAAAAAAATT
39602091 C
1 C
39602092 TAAGTGTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (21 bp):
CCTGTTTTTATAAAAAAAATT
Found at i:39607512 original size:50 final size:50
Alignment explanation
Indices: 39607437--39607572 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 50
39607427 ATGACCCATT
*
39607437 GTGAGTTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAG-A-TG
1 GTGAG-TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGTATTG
*
39607487 GTGAGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGTATTG
1 GTGA-GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGTATTG
* * *
39607538 TTGA-TCGCATGTGTAGTACTAAGTGTAGGCTACTA
1 GTGAGTCACATGTGTAGTACTAAGTGCAGGCTACTA
39607573 TGCGTACCAG
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
49 31 0.40
50 41 0.53
51 6 0.08
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (50 bp):
GTGAGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGTATTG
Found at i:39612858 original size:46 final size:49
Alignment explanation
Indices: 39612786--39612890 Score: 144
Period size: 46 Copynumber: 2.2 Consensus size: 49
39612776 GACAGGACAG
* * *
39612786 GACAGAAATGAGCCATGTAAGTCCATA-TCA-A-ATATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATTCATATATATATGGCATTGGA
*
39612832 GACAGGAATGAGCCATGTAAGCCCATATTTGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATA-TTCATATATATATGGCATTGGA
39612882 GACAGGAAT
1 GACAGGAAT
39612891 AATTCATATA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 25 0.49
48 2 0.04
49 1 0.02
50 23 0.45
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (49 bp):
GACAGGAATGAGCCATGTAAGCCCATATTCATATATATATGGCATTGGA
Found at i:39619284 original size:42 final size:42
Alignment explanation
Indices: 39619222--39619319 Score: 137
Period size: 42 Copynumber: 2.3 Consensus size: 42
39619212 ATCGAGACTA
* *
39619222 TGTGTAAGACCATATCTGGGATATGGTATC-AT-TATGATATT
1 TGTGTAAGACCATATCTGGGATATGGCATCAATATAGGAT-TT
*
39619263 TCGTGTAAGACCATATTTGGGATATGGCATCAATATAGGATTT
1 T-GTGTAAGACCATATCTGGGATATGGCATCAATATAGGATTT
39619306 TGTGTAAGACCATA
1 TGTGTAAGACCATA
39619320 ACTAGGCTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
41 1 0.02
42 40 0.78
43 5 0.10
44 5 0.10
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (42 bp):
TGTGTAAGACCATATCTGGGATATGGCATCAATATAGGATTT
Found at i:39620599 original size:27 final size:27
Alignment explanation
Indices: 39620562--39620615 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
39620552 TCACACGGGC
*
39620562 GTGTGGCTCTTAAAACATGAAAAATTT
1 GTGTCGCTCTTAAAACATGAAAAATTT
39620589 GTGTCGCTCTTAAAACATGAAAAATTT
1 GTGTCGCTCTTAAAACATGAAAAATTT
39620616 TCTAAGTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (27 bp):
GTGTCGCTCTTAAAACATGAAAAATTT
Found at i:39623702 original size:37 final size:37
Alignment explanation
Indices: 39623649--39623751 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
39623639 CGAATAGTCC
* *
39623649 CCACACATAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
39623686 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
39623723 CCACACGTAGTCATCGAGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
39623752 ATATATTTCC
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:39623954 original size:48 final size:48
Alignment explanation
Indices: 39623898--39624418 Score: 886
Period size: 48 Copynumber: 10.9 Consensus size: 48
39623888 ACACATCTGC
*
39623898 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39623946 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39623994 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39624042 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39624090 TATATATTTCACATTAGCCATTCGGCTTTACCACATAT--ATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39624136 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
39624184 TACATATTTCACACTAGCCATTCGGTTTTACCACATATACATATCCCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
39624232 TATATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39624280 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39624328 TA-ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
39624375 TACATATTTCACACTAGCCATTCGGCTTTACCACATATATATAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
39624419 TTATCTTGTA
Statistics
Matches: 449, Mismatches: 21, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
46 44 0.10
47 45 0.10
48 360 0.80
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:39624226 original size:190 final size:191
Alignment explanation
Indices: 39623898--39624418 Score: 929
Period size: 190 Copynumber: 2.7 Consensus size: 191
39623888 ACACATCTGC
*
39623898 TACATATTTCACATTAGCCATTCGGCTTTACCAAATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA-ATATCTCATACATATTTCACACTAG
39623963 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
65 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
39624028 ATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
130 ATATACATATCCCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
39624090 TATATATTTCACATTAGCCATTCGGCTTTACCACATAT-ATATCTCATACATATTTCATATTAGC
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATCTCATACATATTTCACACTAGC
*
39624154 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACA
66 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
*
39624219 TATACATATCCCATATATATTTCACATTAGCCATTCGGCTTTACCACATATATATATCTCA
131 TATACATATCCCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
39624280 TACATATTTCATATTAGCCATTCGGCTTTACCACATATACATATCTCATA-ATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA-ATATCTCATACATATTTCACACTAG
39624344 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
65 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCAC
*
39624409 ATATATATAT
130 ATATACATAT
39624419 TTATCTTGTA
Statistics
Matches: 314, Mismatches: 13, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
190 183 0.58
191 85 0.27
192 46 0.15
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (191 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATAATATCTCATACATATTTCACACTAGC
CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
TATACATATCCCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:39624329 original size:37 final size:39
Alignment explanation
Indices: 39624279--39624376 Score: 101
Period size: 47 Copynumber: 2.4 Consensus size: 39
39624269 TATATATCTC
*
39624279 ATACATATTTCATA-T-TAGCCATTCGGCTTTACCACAT
1 ATACATATCTCATATTCTAGCCATTCGGCTTTACCACAT
39624316 ATACATATCTCATAATATTTCACACTAGCCATTCGGCTTTACCACAT
1 ATACATATCTC---ATA-TT----CTAGCCATTCGGCTTTACCACAT
39624363 ATACATATCTCATA
1 ATACATATCTCATA
39624377 CATATTTCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
37 10 0.20
40 3 0.06
42 1 0.02
44 3 0.06
47 33 0.66
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.36
Consensus pattern (39 bp):
ATACATATCTCATATTCTAGCCATTCGGCTTTACCACAT
Found at i:39629956 original size:27 final size:27
Alignment explanation
Indices: 39629915--39629967 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
39629905 TGTCATGTGA
* *
39629915 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
39629942 AATTGAATGTTAAATTACTATTACAT
1 AATTGAATGGCAAATTACTATTACAT
39629968 AGGTTGTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:39630294 original size:48 final size:50
Alignment explanation
Indices: 39630215--39630446 Score: 272
Period size: 50 Copynumber: 4.7 Consensus size: 50
39630205 ATCTATTGTG
*
39630215 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
39630264 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * * **
39630314 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
39630364 AGGTAACGTGTGTAGTGCTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
39630414 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
39630447 TGCGTACTAG
Statistics
Matches: 150, Mismatches: 30, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
48 42 0.28
49 28 0.19
50 43 0.29
51 37 0.25
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Done.