Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold483
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: 459596
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 3 of 3
Found at i:343838 original size:52 final size:52
Alignment explanation
Indices: 343768--343888 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
343758 GAAAATTTAT
*
343768 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
343820 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGT
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
343872 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
343889 AAGATCTGTG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:343915 original size:13 final size:13
Alignment explanation
Indices: 343897--343921 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
343887 CAAAGATCTG
343897 TGTATCGATACAA
1 TGTATCGATACAA
343910 TGTATCGATACA
1 TGTATCGATACA
343922 TTTGAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:343999 original size:33 final size:33
Alignment explanation
Indices: 343962--344028 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
343952 AGTAGCTTAA
343962 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
343995 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
344028 A
1 A
344029 AATCATTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:344002 original size:13 final size:13
Alignment explanation
Indices: 343984--344008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
343974 CAAAAAAATA
343984 TGTATCGATACAT
1 TGTATCGATACAT
343997 TGTATCGATACA
1 TGTATCGATACA
344009 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:344349 original size:13 final size:13
Alignment explanation
Indices: 344331--344424 Score: 84
Period size: 13 Copynumber: 7.2 Consensus size: 13
344321 AGTGTCTACA
*
344331 GATACAAAAGAGG
1 GATACAAGAGAGG
344344 GATACAAGAGAGG
1 GATACAAGAGAGG
*
344357 GATACAAGAGAGA
1 GATACAAGAGAGG
** *
344370 GATACTTGAGAGA
1 GATACAAGAGAGG
*
344383 GATGCTTAAGAGA--
1 GATAC--AAGAGAGG
* *
344396 GATACTAGAAAGG
1 GATACAAGAGAGG
344409 GATACAAGAGAGG
1 GATACAAGAGAGG
344422 GAT
1 GAT
344425 GCTTGAGAGG
Statistics
Matches: 65, Mismatches: 12, Indels: 8
0.76 0.14 0.09
Matches are distributed among these distances:
11 4 0.06
13 57 0.88
15 4 0.06
ACGTcount: A:0.46, C:0.07, G:0.33, T:0.14
Consensus pattern (13 bp):
GATACAAGAGAGG
Found at i:344368 original size:26 final size:26
Alignment explanation
Indices: 344331--344436 Score: 99
Period size: 26 Copynumber: 4.1 Consensus size: 26
344321 AGTGTCTACA
* *
344331 GATACAAAAGAGGGATACAAGAGAGG
1 GATACAAGAGAGGGATACTAGAGAGG
* * *
344357 GATACAAGAGAGAGATACTTGAGAGA
1 GATACAAGAGAGGGATACTAGAGAGG
* *
344383 GATGCTTAAGAGA--GATACTAGAAAGG
1 GATAC--AAGAGAGGGATACTAGAGAGG
* *
344409 GATACAAGAGAGGGATGCTTGAGAGG
1 GATACAAGAGAGGGATACTAGAGAGG
344435 GA
1 GA
344437 GGAGTGAGCC
Statistics
Matches: 63, Mismatches: 13, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
24 6 0.10
26 51 0.81
28 6 0.10
ACGTcount: A:0.43, C:0.08, G:0.35, T:0.14
Consensus pattern (26 bp):
GATACAAGAGAGGGATACTAGAGAGG
Found at i:344400 original size:39 final size:39
Alignment explanation
Indices: 344352--344433 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
344342 GGGATACAAG
* * **
344352 AGAGGGATACAAGAGAGAGATACTTGAGAGAGATGCTTA
1 AGAGAGATACAAGAAAGAGATACAAGAGAGAGATGCTTA
* * * *
344391 AGAGAGATACTAGAAAGGGATACAAGAGAGGGATGCTTG
1 AGAGAGATACAAGAAAGAGATACAAGAGAGAGATGCTTA
344430 AGAG
1 AGAG
344434 GGAGGAGTGA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.41, C:0.07, G:0.35, T:0.16
Consensus pattern (39 bp):
AGAGAGATACAAGAAAGAGATACAAGAGAGAGATGCTTA
Found at i:344436 original size:13 final size:13
Alignment explanation
Indices: 344364--344433 Score: 59
Period size: 13 Copynumber: 5.4 Consensus size: 13
344354 AGGGATACAA
344364 GAGAGAGATACTT
1 GAGAGAGATACTT
*
344377 GAGAGAGATGCTT
1 GAGAGAGATACTT
* *
344390 AAGAGAGATACTA
1 GAGAGAGATACTT
* * **
344403 GAAAGGGATACAA
1 GAGAGAGATACTT
* *
344416 GAGAGGGATGCTT
1 GAGAGAGATACTT
344429 GAGAG
1 GAGAG
344434 GGAGGAGTGA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.40, C:0.07, G:0.36, T:0.17
Consensus pattern (13 bp):
GAGAGAGATACTT
Found at i:344573 original size:27 final size:26
Alignment explanation
Indices: 344516--344589 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 26
344506 AAACAACATG
*
344516 CCACCATTTTTGACAAATAAAAAAAA
1 CCACCATTTTTGACAAACAAAAAAAA
* **
344542 TCACCATTTTTGACAAACACAAAGTAA
1 CCACCATTTTTGACAAACA-AAAAAAA
344569 CCACCATTTTTGACAAACAAA
1 CCACCATTTTTGACAAACAAA
344590 GGGTGGTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.47, C:0.23, G:0.05, T:0.24
Consensus pattern (26 bp):
CCACCATTTTTGACAAACAAAAAAAA
Found at i:346761 original size:13 final size:13
Alignment explanation
Indices: 346743--346826 Score: 80
Period size: 13 Copynumber: 6.5 Consensus size: 13
346733 AGAATTGAAA
346743 AGGGATACAAGAG
1 AGGGATACAAGAG
*
346756 AGGGATACAAAAG
1 AGGGATACAAGAG
**
346769 AGGGATACTTGAG
1 AGGGATACAAGAG
** * *
346782 AGTAATGCTTA-AG
1 AGGGATAC-AAGAG
*
346795 AGGGATACTAGAG
1 AGGGATACAAGAG
346808 AGGGATACAAGAG
1 AGGGATACAAGAG
346821 AGGGAT
1 AGGGAT
346827 GCTTGAGAGG
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
12 2 0.04
13 54 0.95
14 1 0.02
ACGTcount: A:0.42, C:0.07, G:0.36, T:0.15
Consensus pattern (13 bp):
AGGGATACAAGAG
Found at i:346773 original size:26 final size:26
Alignment explanation
Indices: 346743--346838 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
346733 AGAATTGAAA
*
346743 AGGGATACAAGAGAGGGATACAAAAG
1 AGGGATACTAGAGAGGGATACAAAAG
* ** * **
346769 AGGGATACTTGAGAGTAATGCTTAAG
1 AGGGATACTAGAGAGGGATACAAAAG
*
346795 AGGGATACTAGAGAGGGATACAAGAG
1 AGGGATACTAGAGAGGGATACAAAAG
* *
346821 AGGGATGCTTGAGAGGGA
1 AGGGATACTAGAGAGGGA
346839 AGGAGAGCCT
Statistics
Matches: 54, Mismatches: 16, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.40, C:0.07, G:0.38, T:0.16
Consensus pattern (26 bp):
AGGGATACTAGAGAGGGATACAAAAG
Found at i:346810 original size:39 final size:39
Alignment explanation
Indices: 346754--346838 Score: 107
Period size: 39 Copynumber: 2.2 Consensus size: 39
346744 GGGATACAAG
** *
346754 AGAGGGATACAAAAGAGGGATACTTGAGAGTAATGCTTA
1 AGAGGGATACAAAAGAGGGATACAAGAGAGGAATGCTTA
* * * *
346793 AGAGGGATACTAGAGAGGGATACAAGAGAGGGATGCTTG
1 AGAGGGATACAAAAGAGGGATACAAGAGAGGAATGCTTA
346832 AGAGGGA
1 AGAGGGA
346839 AGGAGAGCCT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.38, T:0.16
Consensus pattern (39 bp):
AGAGGGATACAAAAGAGGGATACAAGAGAGGAATGCTTA
Found at i:346834 original size:13 final size:13
Alignment explanation
Indices: 346743--346838 Score: 75
Period size: 13 Copynumber: 7.4 Consensus size: 13
346733 AGAATTGAAA
**
346743 AGGGATACAAGAG
1 AGGGATACTTGAG
***
346756 AGGGATACAAAAG
1 AGGGATACTTGAG
346769 AGGGATACTTGAG
1 AGGGATACTTGAG
** * *
346782 AGTAATGCTTAAG
1 AGGGATACTTGAG
*
346795 AGGGATACTAGAG
1 AGGGATACTTGAG
**
346808 AGGGATACAAGAG
1 AGGGATACTTGAG
*
346821 AGGGATGCTTGAG
1 AGGGATACTTGAG
346834 AGGGA
1 AGGGA
346839 AGGAGAGCCT
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 66 1.00
ACGTcount: A:0.40, C:0.07, G:0.38, T:0.16
Consensus pattern (13 bp):
AGGGATACTTGAG
Found at i:347685 original size:9 final size:9
Alignment explanation
Indices: 347671--347712 Score: 66
Period size: 9 Copynumber: 4.4 Consensus size: 9
347661 GACGAATCCA
347671 TTTTAGGAC
1 TTTTAGGAC
347680 TTTTAGGAC
1 TTTTAGGAC
347689 TTTTAGGACC
1 TTTTAGGA-C
347699 TTTTTAGGAC
1 -TTTTAGGAC
347709 TTTT
1 TTTT
347713 TGTTAAGCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 21 0.68
10 2 0.06
11 8 0.26
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (9 bp):
TTTTAGGAC
Found at i:347705 original size:20 final size:18
Alignment explanation
Indices: 347671--347712 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
347661 GACGAATCCA
347671 TTTTAGGACTTTTAGGAC
1 TTTTAGGACTTTTAGGAC
347689 TTTTAGGACCTTTTTAGGAC
1 TTTTAGGA-C-TTTTAGGAC
347709 TTTT
1 TTTT
347713 TGTTAAGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 8 0.36
19 1 0.05
20 13 0.59
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (18 bp):
TTTTAGGACTTTTAGGAC
Found at i:347912 original size:19 final size:17
Alignment explanation
Indices: 347868--347920 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 17
347858 TTGAATTTCA
347868 ATAATTTGTATCGATAC
1 ATAATTTGTATCGATAC
347885 --AATTTGTATCGATAC
1 ATAATTTGTATCGATAC
347900 ATAAGTGTTGTATCGATAC
1 ATAA-T-TTGTATCGATAC
347919 AT
1 AT
347921 TGTATTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 15 0.47
17 2 0.06
18 1 0.03
19 14 0.44
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.40
Consensus pattern (17 bp):
ATAATTTGTATCGATAC
Found at i:347989 original size:13 final size:13
Alignment explanation
Indices: 347971--347996 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
347961 TATTATTCAA
347971 TGTATCGATACAT
1 TGTATCGATACAT
347984 TGTATCGATACAT
1 TGTATCGATACAT
347997 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:350456 original size:51 final size:50
Alignment explanation
Indices: 350338--350467 Score: 147
Period size: 51 Copynumber: 2.6 Consensus size: 50
350328 GTTTCTTAAT
* *
350338 TTTTCATAATCGGGG-TACTCCAACCCCGATTTTATTTTTAAATCACTAA
1 TTTTCATAATCGGGGATACTCCAACCCCGATTTTATTCTAAAATCACTAA
** * * *
350387 TTTTCTATAATCAAGGATACTCCAACTCCGATTTTATTCCTAAAAT-ATTGA
1 TTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATT-CTAAAATCACTAA
*
350438 TTTCTCACAATCGGGGATACTCCAACCCCG
1 TTT-TCATAATCGGGGATACTCCAACCCCG
350468 TTATTTCCGA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
49 5 0.08
50 8 0.12
51 46 0.70
52 7 0.11
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (50 bp):
TTTTCATAATCGGGGATACTCCAACCCCGATTTTATTCTAAAATCACTAA
Found at i:350534 original size:79 final size:78
Alignment explanation
Indices: 350401--350653 Score: 425
Period size: 79 Copynumber: 3.2 Consensus size: 78
350391 CTATAATCAA
* *
350401 GGATACTCCAACTCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
*
350466 CGTTATTTCCGAG
66 CGTTATTTTCGAG
*
350479 GGTATACTCCAACCCCGGCTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
1 GG-ATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACC
*
350544 CCGTTATTTTTGATG
65 CCGTTATTTTCGA-G
350559 GGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
1 GGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
*
350624 CGTTATTTTCGCGG
66 CGTTATTTTCG-AG
350638 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
350654 TTATTTTTGA
Statistics
Matches: 164, Mismatches: 8, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
78 2 0.01
79 159 0.97
80 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (78 bp):
GGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCC
CGTTATTTTCGAG
Found at i:350647 original size:28 final size:28
Alignment explanation
Indices: 350607--350679 Score: 119
Period size: 28 Copynumber: 2.6 Consensus size: 28
350597 TTCTCACAAT
350607 CGGGGATACTCCAACCCCGTTATTTTCG
1 CGGGGATACTCCAACCCCGTTATTTTCG
*
350635 CGGGGATACTCCAACCCCGTTATTTTTG
1 CGGGGATACTCCAACCCCGTTATTTTCG
* *
350663 AGAGGATACTCCAACCC
1 CGGGGATACTCCAACCC
350680 TGATTTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (28 bp):
CGGGGATACTCCAACCCCGTTATTTTCG
Found at i:350654 original size:107 final size:107
Alignment explanation
Indices: 350528--350760 Score: 294
Period size: 107 Copynumber: 2.2 Consensus size: 107
350518 TTCTCACAAT
* *
350528 CGGGGATACTCCAACCCCGTTATTTTTGATG-GGATACTCCAACCCCGGTTTTATTC-CTAAAAT
1 CGGGGATACTCCAACCCCGTTATTTTTGA-GAGGATACTCCAACCCCGATTTTATTCTC-AAAAC
* * * *
350591 ATTGA-TTTCTCACAATCGGGGATACTCCAACCCCGTTATTT-TCG
64 ACTAATTTTCT-ACAATCAGGGATACTCCAACCCCGTTATTTCT-A
* *
350635 CGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCTGATTTTATTTTCAAAACAC
1 CGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTCTCAAAACAC
* * *
350700 TAATTTTCTATAATTAGGGATACTCCAACCCTGTTATTTCTA
66 TAATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTCTA
*
350742 AGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCG
350761 ATTTTATTTC
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
106 1 0.01
107 102 0.93
108 7 0.06
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (107 bp):
CGGGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCCGATTTTATTCTCAAAACAC
TAATTTTCTACAATCAGGGATACTCCAACCCCGTTATTTCTA
Found at i:350720 original size:79 final size:80
Alignment explanation
Indices: 350637--350812 Score: 239
Period size: 79 Copynumber: 2.2 Consensus size: 80
350627 TATTTTCGCG
* * * * *
350637 GGGATACTCCAACCCCGTTATTTTTGAGAGGATACTCCAACCCTGATTTTATTTTCAAAACACTA
1 GGGATACTCCAACCCCGTTATTTCTAAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
*
350702 ATTTTCTATAATT-A
66 ATTTTCCATAATTAA
* * * *
350716 GGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCCAACCCCGATTTTATTTCCAGAACACCG
1 GGGATACTCCAACCCCGTTATTTCTAAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
350781 ATTTTCCATAATTAA
66 ATTTTCCATAATTAA
*
350796 GGG-TACTCCAGCCCCGT
1 GGGATACTCCAACCCCGT
350813 CGTCATTTCC
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 80 0.95
80 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (80 bp):
GGGATACTCCAACCCCGTTATTTCTAAGAGGATACTCCAACCCCGATTTTATTTCCAAAACACCA
ATTTTCCATAATTAA
Found at i:350720 original size:158 final size:163
Alignment explanation
Indices: 350353--350730 Score: 381
Period size: 158 Copynumber: 2.4 Consensus size: 163
350343 ATAATCGGGG
* * * * *
350353 TACTCCAACCCCGATTTTATTTTTAAATCACTAATTTTCTATAATCAAGGATACTCCAACTCCGA
1 TACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATTAGGGATACTCCAACCCCGA
*
350418 TTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGTA
66 TTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGA
* *
350483 TACTCCAACCCCGGCTTTATTCCTAAAATATTGAT
131 TACTCCAACCCCGGC-TTATT-CTAAAAGATGGAT
* *** * * * * * *
350518 TTCTCACAATCGGGGA---TA--CTCCAACCCCGTTA-TTT-T-TGA-T-GGGATACTCCAACCC
1 TACTC-CAA-CCCCGATTTTATTTTCAAAACAC-TAATTTTCTATAATTAGGGATACTCCAACCC
* * *
350573 CGGTTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGCGG
63 CGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGG
***
350638 GGATACTCCAACCCC-G-TTATT-TTTGAGA-GGA-
128 GGATACTCCAACCCCGGCTTATTCTAAAAGATGGAT
*
350669 TACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTCTATAATTAGGGATACTCCAACCC
1 TACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATTAGGGATACTCCAACCC
350731 TGTTATTTCT
Statistics
Matches: 167, Mismatches: 33, Indels: 33
0.72 0.14 0.14
Matches are distributed among these distances:
149 3 0.02
150 3 0.02
151 4 0.02
152 4 0.02
153 5 0.03
154 9 0.05
155 6 0.04
156 2 0.01
157 2 0.01
158 104 0.62
160 2 0.01
161 1 0.01
162 8 0.05
163 2 0.01
164 2 0.01
165 4 0.02
166 3 0.02
167 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (163 bp):
TACTCCAACCCCGATTTTATTTTCAAAACACTAATTTTCTATAATTAGGGATACTCCAACCCCGA
TTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGA
TACTCCAACCCCGGCTTATTCTAAAAGATGGAT
Found at i:350805 original size:186 final size:186
Alignment explanation
Indices: 350449--350812 Score: 407
Period size: 186 Copynumber: 2.0 Consensus size: 186
350439 TTCTCACAAT
* * *
350449 CGGGGATACTCCAACCCCGTTATTTCCGAGGGTATACTCCAACCCCGGCTTTATTCCTAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGTATACTCCAACCCCGACTTTATTCCTAAAACAC
* * * * * *
350514 TGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTTGATGGGATACTCCAACCCCGGTTT
66 TAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGATTT
* ** **
350579 TATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCG
131 TATTCCTAAAACACCGATTTCTCACAATAAGGGATACTCCAACCCCGTTATTTTCG
** * * *
350635 CGGGGATACTCCAACCCCGTTATTTTTGAGAGG-ATACTCCAACCCTGATTTTATT-TTCAAAAC
1 CGGGGATACTCCAACCCCGTTATTTCCGAG-GGTATACTCCAACCCCGACTTTATTCCT-AAAAC
* * *
350698 ACTAATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTTCTAAGGGGATACTCCAACCCCGA
64 ACTAATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGA
* * *
350762 TTTTATTTCC-AGAACACCGATTT-TCCATAATTAAGGG-TACTCCAGCCCCGT
128 TTTTA-TTCCTAAAACACCGATTTCT-CACAA-TAAGGGATACTCCAACCCCGT
350813 CGTCATTTCC
Statistics
Matches: 147, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
185 4 0.03
186 133 0.90
187 10 0.07
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (186 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGTATACTCCAACCCCGACTTTATTCCTAAAACAC
TAATTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCTAAGGGGATACTCCAACCCCGATTT
TATTCCTAAAACACCGATTTCTCACAATAAGGGATACTCCAACCCCGTTATTTTCG
Found at i:355696 original size:20 final size:19
Alignment explanation
Indices: 355668--355742 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
355658 TCATACCCTG
*
355668 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTAT-A
* *
355688 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTAT-A
*
355708 ATGTATCGATATATTCTATA
1 ATGTATCGATACATT-TATA
355728 ATGTATCGATACATT
1 ATGTATCGATACATT
355743 ATGTCTTTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (19 bp):
ATGTATCGATACATTTATA
Found at i:355735 original size:40 final size:39
Alignment explanation
Indices: 355668--355745 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
355658 TCATACCCTG
*
355668 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTTATCAATATATCGATACAT-TATGA
* *
355708 ATGTATCGATATATTCTAT-AATGTATCGATACATTATG
1 ATGTATCGATACATT-TATCAATATATCGATACATTATG
355746 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 28 0.82
41 2 0.06
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTTATCAATATATCGATACATTATGA
Found at i:362438 original size:19 final size:18
Alignment explanation
Indices: 362414--362512 Score: 74
Period size: 19 Copynumber: 5.9 Consensus size: 18
362404 AATTCAATGA
362414 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAA-T
362433 TTTGTATCGATAC---A-
1 TTTGTATCGATACATAAT
*
362447 -TTGTATCGATACAAAACT
1 TTTGTATCGATACATAA-T
*
362465 TATGTATCGATAC--AA-
1 TTTGTATCGATACATAAT
362480 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAA-T
*
362497 ATTGTATCGATACATA
1 TTTGTATCGATACATA
362513 GTTAGCTACT
Statistics
Matches: 67, Mismatches: 1, Indels: 24
0.73 0.01 0.26
Matches are distributed among these distances:
13 23 0.34
15 2 0.03
16 2 0.03
17 2 0.03
19 38 0.57
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAT
Found at i:362451 original size:32 final size:32
Alignment explanation
Indices: 362415--362511 Score: 149
Period size: 32 Copynumber: 3.0 Consensus size: 32
362405 ATTCAATGAT
362415 TTGTATCGATACATAAGTTTTGTATCGATACA
1 TTGTATCGATACATAAGTTTTGTATCGATACA
* * *
362447 TTGTATCGATACAAAACTTATGTATCGATACA
1 TTGTATCGATACATAAGTTTTGTATCGATACA
* *
362479 ATGTATCGATACATAAGTATTGTATCGATACA
1 TTGTATCGATACATAAGTTTTGTATCGATACA
362511 T
1 T
362512 AGTTAGCTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACATAAGTTTTGTATCGATACA
Found at i:362452 original size:13 final size:13
Alignment explanation
Indices: 362434--362492 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 13
362424 TACATAAGTT
362434 TTGTATCGATACA
1 TTGTATCGATACA
362447 TTGTATCGATACAAAA
1 TTGTATCGATAC---A
362463 CTTATGTATCGATACA
1 --T-TGTATCGATACA
*
362479 ATGTATCGATACA
1 TTGTATCGATACA
362492 T
1 T
362493 AAGTATTGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 24 0.63
16 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:362571 original size:13 final size:13
Alignment explanation
Indices: 362553--362578 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
362543 CATTTTTCTG
362553 TGTATCGATACAT
1 TGTATCGATACAT
362566 TGTATCGATACAT
1 TGTATCGATACAT
362579 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:362575 original size:33 final size:33
Alignment explanation
Indices: 362533--362599 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
362523 GCCAAGGGAA
***
362533 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
362566 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
362599 T
1 T
362600 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:365120 original size:28 final size:27
Alignment explanation
Indices: 365053--365125 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
365043 CTTCACAATC
* *
365053 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
365080 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
365108 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
365126 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:365170 original size:51 final size:51
Alignment explanation
Indices: 365108--365278 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
365098 TTATTTCTGA
* * *
365108 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
365159 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
365212 GGGGATACTCCAATTCCGATTTTATTTCTAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTT-TCAAAATACCAATTTTTCATAATC
*
365264 GAGGATACTCCAACC
1 GGGGATACTCCAACC
365279 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 31 0.32
54 12 0.12
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:365297 original size:28 final size:28
Alignment explanation
Indices: 365261--365342 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 28
365251 ATTTTTCACA
*
365261 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
365289 ATCGGGGATACTCCAATCC-CGTTACTTC
1 ATCGGGGATACTCCAA-CCTCGTTATTTC
*
365317 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
365343 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
26 2 0.04
27 5 0.11
28 37 0.80
29 2 0.04
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:370710 original size:1 final size:1
Alignment explanation
Indices: 370706--370794 Score: 52
Period size: 1 Copynumber: 89.0 Consensus size: 1
370696 CATTCTTTTT
* ** * * * * * * * *
370706 AAAAAAAAACAACCAAAAAAACAAAAAACAAAAACAACAAAAAAAAAACAAAAACAACAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
370771 AAAACAAAGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAA
370795 GAGAGAAGAA
Statistics
Matches: 62, Mismatches: 26, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:370733 original size:20 final size:19
Alignment explanation
Indices: 370708--370793 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
370698 TTCTTTTTAA
370708 AAAAAAACAACCAAAAA-AAC
1 AAAAAAACAA--AAAAACAAC
*
370728 -AAAAAACAAAAACAACAAA
1 AAAAAAACAAAAA-AACAAC
*
370747 AAAAAAACAAAAACAACAAA
1 AAAAAAACAAAAA-AACAAC
*
370767 AAATAAAACAAAGAAAA-AAG
1 AAA-AAAACAAA-AAAACAAC
370787 AAAAAAA
1 AAAAAAA
370794 AGAGAGAAGA
Statistics
Matches: 59, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.05
18 2 0.03
19 15 0.25
20 27 0.46
21 10 0.17
22 2 0.03
ACGTcount: A:0.84, C:0.13, G:0.02, T:0.01
Consensus pattern (19 bp):
AAAAAAACAAAAAAACAAC
Found at i:370742 original size:25 final size:26
Alignment explanation
Indices: 370706--370762 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
370696 CATTCTTTTT
* *
370706 AAAA-AAAAACAACCAAAAAAACA-A
1 AAAACAAAAACAACAAAAAAAAAACA
370730 AAAACAAAAACAACAAAAAAAAAACA
1 AAAACAAAAACAACAAAAAAAAAACA
370756 AAAACAA
1 AAAACAA
370763 CAAAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 4 0.14
25 17 0.59
26 8 0.28
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAACAAAAACAACAAAAAAAAAACA
Found at i:370784 original size:36 final size:35
Alignment explanation
Indices: 370707--370794 Score: 101
Period size: 35 Copynumber: 2.5 Consensus size: 35
370697 ATTCTTTTTA
370707 AAAAAAAACAACCAAAAAAACAAAAAACAAAAACAAC
1 AAAAAAAA-AA-CAAAAAAACAAAAAACAAAAACAAC
*
370744 AAAAAAAAAACAAAAACAACAAAAAA-TAAAACAA-
1 AAAAAAAAAACAAAAA-AACAAAAAACAAAAACAAC
* *
370778 AGAAAAAAGA-AAAAAAA
1 AAAAAAAAAACAAAAAAA
370795 GAGAGAAGAA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
32 2 0.04
33 5 0.11
34 8 0.17
35 13 0.28
36 11 0.23
37 8 0.17
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.01
Consensus pattern (35 bp):
AAAAAAAAAACAAAAAAACAAAAAACAAAAACAAC
Found at i:370796 original size:9 final size:9
Alignment explanation
Indices: 370707--370794 Score: 65
Period size: 9 Copynumber: 9.7 Consensus size: 9
370697 ATTCTTTTTA
370707 AAAAAAAAC
1 AAAAAAAAC
370716 AACCAAAAAA-
1 AA--AAAAAAC
*
370726 ACAAAAAAC
1 AAAAAAAAC
*
370735 AAAAACAAC
1 AAAAAAAAC
370744 AAAAAAAA-
1 AAAAAAAAC
*
370752 AACAAAAAC
1 AAAAAAAAC
*
370761 AACAAAAAAT
1 AA-AAAAAAC
* *
370771 AAAACAAAG
1 AAAAAAAAC
370780 AAAAAAGAA-
1 AAAAAA-AAC
370789 AAAAAA
1 AAAAAA
370795 GAGAGAAGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
8 13 0.21
9 34 0.54
10 10 0.16
11 6 0.10
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:370796 original size:16 final size:16
Alignment explanation
Indices: 370720--370794 Score: 78
Period size: 16 Copynumber: 4.4 Consensus size: 16
370710 AAAAACAACC
*
370720 AAAAAAACAAAAAACA
1 AAAAAAACAAAAAAAA
*
370736 AAAACAACAAAAAAAA
1 AAAAAAACAAAAAAAA
370752 AACAAAAACAACAAAAAA
1 AA-AAAAACAA-AAAAAA
*
370770 TAAAACAAAGAAAAAAGAA
1 -AAAA-AAACAAAAAA-AA
370789 AAAAAA
1 AAAAAA
370795 GAGAGAAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
16 16 0.32
17 9 0.18
18 16 0.32
19 9 0.18
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (16 bp):
AAAAAAACAAAAAAAA
Found at i:371869 original size:55 final size:55
Alignment explanation
Indices: 371754--372288 Score: 578
Period size: 55 Copynumber: 9.4 Consensus size: 55
371744 CTCCTTTCAC
* * * * *
371754 TTTTCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAACCTACACAAGTCGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACGCCTTTT-C----AAAGCCCACACAAGTTGGTGGCA
*
371814 CCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
371869 CCTTTCAGTCCTCAAAGAGCAGGACGCC-TTTCAAAGCTCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
371924 TTTTCTAGTCCTCAAAGAGCATGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
371979 TTTTCCAGTCTTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTTGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
372034 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* *
372089 TTTTCCAATCCTCAAAGAGCAGGATGCC-TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
372144 TTTTCCAATCCTCAAAGAGCATGATGCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACGC-----CTTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * *
372205 CCTTCAGTCCTTAAAGAGTAGGACGCCTTCTACTTTTAAAGCCCACACAAGTTAGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACG-C--CT--TTTCAAAGCCCACACAAGTTGGTGGCA
* * *
372265 CTTCCTAGTCCTTAAAGAGCAGGA
1 TTTTC-AGTCCTCAAAGAGCAGGA
372289 TACTCTCTCC
Statistics
Matches: 427, Mismatches: 32, Indels: 30
0.87 0.07 0.06
Matches are distributed among these distances:
54 7 0.02
55 293 0.69
56 5 0.01
58 4 0.01
59 1 0.00
60 50 0.12
61 67 0.16
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (55 bp):
TTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:371899 original size:26 final size:26
Alignment explanation
Indices: 371814--371901 Score: 70
Period size: 26 Copynumber: 3.3 Consensus size: 26
371804 GTCGGTGGCA
371814 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
* * * * ** *
371840 CTTTTCAAAGCCCACACAAGTTGGTGG-CA
1 CCTTTC--AGTCCTCA-AAG-AGCAGGACG
371869 CCTTTCAGTCCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAGGACG
371895 CCTTTCA
1 CCTTTCA
371902 AAGCTCACAC
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
25 3 0.07
26 16 0.37
27 6 0.14
28 6 0.14
29 9 0.21
30 3 0.07
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (26 bp):
CCTTTCAGTCCTCAAAGAGCAGGACG
Found at i:371982 original size:27 final size:27
Alignment explanation
Indices: 371952--372092 Score: 66
Period size: 27 Copynumber: 5.1 Consensus size: 27
371942 GCATGACGCC
371952 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * ** * ** ** *
371979 TTTTCCAGTCTTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
*
372007 TTTTAAAGCCCACACAAGTTTGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
** * * * ** ** *
372034 TTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACA-AGTTGGTGGCA
372062 TTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTAAAGCCCACACAAGTTGGTGGCA
372089 TTTT
1 TTTT
372093 CCAATCCTCA
Statistics
Matches: 68, Mismatches: 44, Indels: 4
0.59 0.38 0.03
Matches are distributed among these distances:
27 36 0.53
28 32 0.47
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.28
Consensus pattern (27 bp):
TTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:372357 original size:215 final size:214
Alignment explanation
Indices: 372097--372496 Score: 536
Period size: 215 Copynumber: 1.9 Consensus size: 214
372087 CATTTTCCAA
* * * **
372097 TCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGA
1 TCCTCAAAGAGCAAGATGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTT-CAATCCTCAAAGA
* * * * * *
372162 GCATGATGCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCAC-CTTCAGTCCTTAAAGAGTAG
65 GCAGGACGCTTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACTCTTCAATCCTCAAAGAGTAG
*
372226 GACGCCTTCTACTTTT-AAAGCCCACACAAGTTAGTGGCA-CTTCCTAGTCCTTAAAGAGCAGGA
130 GACGCCTTCT--TTTTCAAAGCCCACACAAGTTAGTGGCACCTTCC-AGTCCTCAAAGAGCAGGA
372289 TACTCTCTCCTTTCGTCTTTTTG
192 TACTCTCTCCTTTCGTCTTTTTG
* *
372312 TCCTCAAAGAGCAAGATGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTCATTCCTTAAAGAG
1 TCCTCAAAGAGCAAGATGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAAAGAG
* * * *
372377 TAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGGGTAGG
66 CAGGACGCTTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACTCTTCAATCCTCAAAGAGTAGG
* * * *
372442 ATGCTTTCTTTTTGCAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
131 ACGCCTTCTTTTT-CAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAG
372497 GCATGACGTC
Statistics
Matches: 159, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
213 4 0.03
214 49 0.31
215 101 0.64
216 5 0.03
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (214 bp):
TCCTCAAAGAGCAAGATGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTCAATCCTCAAAGAG
CAGGACGCTTTCTCCTTTTAAAGCCCACACAAGCTGGTGGCACTCTTCAATCCTCAAAGAGTAGG
ACGCCTTCTTTTTCAAAGCCCACACAAGTTAGTGGCACCTTCCAGTCCTCAAAGAGCAGGATACT
CTCTCCTTTCGTCTTTTTG
Found at i:372402 original size:275 final size:269
Alignment explanation
Indices: 372041--372542 Score: 645
Period size: 275 Copynumber: 1.8 Consensus size: 269
372031 GCATTTTCCA
* * * **
372041 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAG
1 GTCCTCAAAGAGCAAGACGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTCCAATCCTCAAAG
*
372106 AGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCATGATG
66 AGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAATCCTCAAAGAGCAGGATG
* *
372170 CTTTTTCTTTTT-AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTTAAAGAGTAGGACGCCT
130 C--TTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTCCAGTCCTCAAAG-GCAGGACGCCT
*
372233 TCTACTTTT-AAAGCCCACACAAGTTAGTGGCACTTCCTAGTCCTTAAAGAGCAGGATACTCTCT
192 T-TACTTTTCAAAGCCCACACAAGTTAGTAGCACTTCCTAGTCCTTAAAGAGCAGGATACTCTCT
372297 CCTTTCGTCTTTTT
256 CCTTTCGTCTTTTT
* * *
372311 GTCCTCAAAGAGCAAGATGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTT-CATTCCTTAAAG
1 GTCCTCAAAGAGCAAGACGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTCCAATCCTCAAAG
* * * * *
372375 AGTAGGACGCTTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGGGTA
66 AGCAGGA-----T-GCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGAGCA
* * *
372440 GGATGCTTTCTTTTTGCAAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGCATGACG
125 GGATGCTTTCTTTTT-CAAAGCCCACACAAGCTGGTGGCACCTTCCAGTCCTCAAAGGCAGGACG
* * * *
372505 TCTTTTCTTTTCAAAGCCCACACTAGTTGGTAGCACTT
189 CCTTTACTTTTCAAAGCCCACACAAGTTAGTAGCACTT
372543 TTCAGTCATC
Statistics
Matches: 197, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
269 16 0.08
270 46 0.23
273 9 0.05
274 7 0.04
275 104 0.53
276 15 0.08
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (269 bp):
GTCCTCAAAGAGCAAGACGCCTTTAAAAGCCCACACAAGCTGGTGGCACCTTCCAATCCTCAAAG
AGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGAGCAGGATGC
TTTCTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTCCAGTCCTCAAAGGCAGGACGCCTTTAC
TTTTCAAAGCCCACACAAGTTAGTAGCACTTCCTAGTCCTTAAAGAGCAGGATACTCTCTCCTTT
CGTCTTTTT
Found at i:372470 original size:61 final size:61
Alignment explanation
Indices: 372336--372564 Score: 261
Period size: 61 Copynumber: 3.8 Consensus size: 61
372326 GATGCCTTTA
* * * *
372336 AAAGCCCACACAAGCTGGTGGCAC-CTTCATTCCTTAAAGAGTAGGACGCTTTCTCCTTTT-
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGACGCTTTCT-CTTTTC
* * *
372396 AAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGGGTAGGATGCTTTCT-TTTTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGACGCTTTCTCTTTT-C
* * * * *
372457 AAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAG-GCATGACGTCTTT-TCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGACG-CTTTCTCTTTTC
* * *
372517 AAAGCCCACACTAGTTGGTAGCACTTTTCAGTCATCAAAGAGTAGGAC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGAC
372565 ACACTTCCTT
Statistics
Matches: 142, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
59 4 0.03
60 64 0.45
61 74 0.52
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGACGCTTTCTCTTTTC
Found at i:372521 original size:121 final size:121
Alignment explanation
Indices: 372336--372563 Score: 309
Period size: 121 Copynumber: 1.9 Consensus size: 121
372326 GATGCCTTTA
* * *
372336 AAAGCCCACACAAGCTGGTGGCACCTTCATTCCTTAAAGAGTAGGACGCTTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGC
* * *
372401 CCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGGGTAGGATGCTTTCTTTTTGC
66 CCACACAAGTTGGTAGCACTTTTCAATCATCAAAGAGTAGGATGCTTTCTTTTTGC
* * *
372457 AAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAG-GCATGACGTCTTT-T-CTTTTCAA
1 AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACG-CTTTCTCCTTTT-AA
* *
372519 AGCCCACACTAGTTGGTAGCACTTTTCAGTCATCAAAGAGTAGGA
63 AGCCCACACAAGTTGGTAGCACTTTTCAATCATCAAAGAGTAGGA
372564 CACACTTCCT
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
120 5 0.05
121 74 0.80
122 14 0.15
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCTTTCTCCTTTTAAAGC
CCACACAAGTTGGTAGCACTTTTCAATCATCAAAGAGTAGGATGCTTTCTTTTTGC
Found at i:372549 original size:60 final size:58
Alignment explanation
Indices: 372336--372556 Score: 219
Period size: 60 Copynumber: 3.7 Consensus size: 58
372326 GATGCCTTTA
* * * * * *
372336 AAAGCCCACACAAGCTGGTGGCAC-CTTCATTCCTTAAAGAGTAGGACGCTTTCTCCTTTT
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG-GCAGGACGCTTTCT--TTTC
* * *
372396 AAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAAGGGTAGGATGCTTTCTTTTTGC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAA-GGCAGGACGCTTTC-TTTT-C
* * * *
372457 AAAGCCCATACAAGTTGGTGGCACCTTCCAGTCCTCAAAGGCATGACGTCTTTTCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGGCAGGACG-C-TTTCTTTTC
* * *
372517 AAAGCCCACACTAGTTGGTAGCACTTTTCAGTCATCAAAG
1 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
372557 AGTAGGACAC
Statistics
Matches: 136, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
60 67 0.49
61 63 0.46
62 6 0.04
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (58 bp):
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGGCAGGACGCTTTCTTTTC
Found at i:372628 original size:45 final size:42
Alignment explanation
Indices: 372551--372652 Score: 98
Period size: 42 Copynumber: 2.4 Consensus size: 42
372541 TTTTCAGTCA
* *
372551 TCAAAGAGTAGGACACACTTCCTTCCCTTTTTTTCTCTTTTATCC
1 TCAAAGAGTAGGACGCACTTACTTCCC--TTTTT-TCTTTTATCC
* * *
372596 TCAAAGAGTAGGACGCACTTTATTTTCC-TTTTTCTTTTGTCC
1 TCAAAGAGTAGGACGCAC-TTACTTCCCTTTTTTCTTTTATCC
* *
372638 TCAGAGAGCAGGACG
1 TCAAAGAGTAGGACG
372653 TATTTCGTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
42 22 0.45
43 4 0.08
45 17 0.35
46 6 0.12
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (42 bp):
TCAAAGAGTAGGACGCACTTACTTCCCTTTTTTCTTTTATCC
Found at i:372651 original size:42 final size:42
Alignment explanation
Indices: 372581--372681 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
372571 CCTTCCCTTT
* * *
372581 TTTTCTCTTTTATCCTCAAAGAGTAGGACGCACTTT-ATTTTCC
1 TTTT-TCTTTTGTCCTCAAAGAGCAGGACGCA-TTTCATTTCCC
* * *
372624 TTTTTCTTTTGTCCTCAGAGAGCAGGACGTATTTCGTTTCCC
1 TTTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCC
*
372666 TTTTTCCTTTGTCCTC
1 TTTTTCTTTTGTCCTC
372682 GAAAAATGGG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.06
42 43 0.86
43 4 0.08
ACGTcount: A:0.15, C:0.25, G:0.14, T:0.47
Consensus pattern (42 bp):
TTTTTCTTTTGTCCTCAAAGAGCAGGACGCATTTCATTTCCC
Found at i:372718 original size:120 final size:119
Alignment explanation
Indices: 372579--372810 Score: 253
Period size: 120 Copynumber: 1.9 Consensus size: 119
372569 TTCCTTCCCT
* * * *
372579 TTTTTTCTCTTTTATCCTCAA-AGAGTAGGACGCACTTT-ATTTTCCTT-T-TTCTTTTGTCCTC
1 TTTTTTCACTTTTATCCTCAAGA-AGCAGGA--CACTTTCATTTT-CTTCTCTCCCTTTGTCCTC
* * *
372640 -AGAGAGCAGGACGTATTTCGTTTCCCTTTTTCCTTTGTCCTCGAAAAA-TGGGATGTACTC
62 AAG-GAGCAAGACCTATTTC-ATTCCC-TTTTCCTTTGTCCTC-AAAAAGTGGGATGTACTC
* *
372700 TTTTTTCAC-TTTGTCCTCAAGAAGCAGGACACTTTCCTTTTCTTCTCTCCCTTTGTCCTCAAGG
1 TTTTTTCACTTTTATCCTCAAGAAGCAGGACACTTTCATTTTCTTCTCTCCCTTTGTCCTCAAGG
*
372764 AGCAAGACCTATTTCATTCTCTTTTCCTTTGTCCTCAAAAAGTGGGA
66 AGCAAGACCTATTTCATTCCCTTTTCCTTTGTCCTCAAAAAGTGGGA
372811 CACCCATTCC
Statistics
Matches: 95, Mismatches: 10, Indels: 15
0.79 0.08 0.12
Matches are distributed among these distances:
117 5 0.05
118 29 0.31
119 9 0.09
120 41 0.43
121 11 0.12
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (119 bp):
TTTTTTCACTTTTATCCTCAAGAAGCAGGACACTTTCATTTTCTTCTCTCCCTTTGTCCTCAAGG
AGCAAGACCTATTTCATTCCCTTTTCCTTTGTCCTCAAAAAGTGGGATGTACTC
Found at i:375962 original size:51 final size:51
Alignment explanation
Indices: 375907--376038 Score: 149
Period size: 51 Copynumber: 2.6 Consensus size: 51
375897 CAAGTTTCTC
* * *
375907 AATTTTTCATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTCCTAAAACACT
* * * * *
375958 AA-TTTTCTATAATTGGGGATACTCCAACTCTGATTTTATTCCTAAAATATT
1 AATTTTTC-ATAATCGGGGATACTCCAACCCCGATTTTATTCCTAAAACACT
* * *
376009 AATTTCTCACAATCGGGGATACTTCAACCC
1 AATTTTTCATAATCGGGGATACTCCAACCC
376039 TGTTATTTTT
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
50 5 0.08
51 57 0.86
52 4 0.06
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (51 bp):
AATTTTTCATAATCGGGGATACTCCAACCCCGATTTTATTCCTAAAACACT
Found at i:376106 original size:79 final size:79
Alignment explanation
Indices: 375976--376198 Score: 322
Period size: 79 Copynumber: 2.8 Consensus size: 79
375966 ATAATTGGGG
* * * * * *
375976 ATACTCCAACTCTGATTTTATTCCTAAAATATTAATTTCTCACAATCGGGGATACTTCAACCCTG
1 ATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG
*
376041 TTATTTTTG-AGGA
66 TTATTTCTGAAGGA
* * *
376054 GATACTCCAACCCCGGCTTTATTCCTAAAATACTGATTTCTCATAATCGGGGATACTCCAACCCC
1 -ATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCC
376119 GTTATTTCTGAAGGA
65 GTTATTTCTGAAGGA
* *
376134 ATACTCCAACCCTGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG
1 ATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG
376199 ATTTTATTCC
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
79 124 0.97
80 4 0.03
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
ATACTCCAACCCCGACTTTATTCCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCG
TTATTTCTGAAGGA
Found at i:376193 original size:51 final size:51
Alignment explanation
Indices: 376134--376249 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
376124 TTCTGAAGGA
* *
376134 ATACTCCAACCCTGATTTTATTCCTAAAATATTGATTTCTCACAATCGGGG
1 ATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGAG
*
376185 ATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCATAATCGGAG
1 ATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGAG
*
376236 ATACTTCAACCCCG
1 ATACTCCAACCCCG
376250 TTATTTTCGC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (51 bp):
ATACTCCAACCCCGATTTTATTCCTAAAATATTGATTTCTCACAATCGGAG
Found at i:376273 original size:28 final size:28
Alignment explanation
Indices: 376232--376302 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
376222 TCTCATAATC
*
376232 GGAGATACTTCAACCCCGTTATTTTCGCA
1 GGAGATACTCCAACCCCGTTATTTTCG-A
*
376261 -GAGATACTCCAACCCCGTTATTTTTGA
1 GGAGATACTCCAACCCCGTTATTTTCGA
*
376288 GGGGATACTCCAACC
1 GGAGATACTCCAACC
376303 TTGATTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 37 0.97
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (28 bp):
GGAGATACTCCAACCCCGTTATTTTCGA
Found at i:376346 original size:79 final size:79
Alignment explanation
Indices: 376263--376436 Score: 240
Period size: 79 Copynumber: 2.2 Consensus size: 79
376253 TTTTCGCAGA
*** * *
376263 GATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCTTGATTTTATTTTTAAAACACCAAT
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAAT
* *
376328 TTTCTATAATTAGG
66 TTTCCATAATCAGG
* * *
376342 GATACTCCAACCCTGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTTCAGAACACCGAT
1 GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAAT
376407 TTTCCATAATCAGG
66 TTTCCATAATCAGG
* *
376421 GGTACTCCAGCCCCGT
1 GATACTCCAACCCCGT
376437 CGTCATCTCC
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.33
Consensus pattern (79 bp):
GATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCTCGATTTTATTTTCAAAACACCAAT
TTTCCATAATCAGG
Found at i:378706 original size:32 final size:32
Alignment explanation
Indices: 378665--378727 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
378655 AAATAACTCG
378665 AACCCAAAATGA-CCTGAATCC-AGAATGACCCA
1 AACCCAAAATGATCC-GAATCCGA-AATGACCCA
378697 AACCCAAAATGATCCGAATCCGAAATGACCC
1 AACCCAAAATGATCCGAATCCGAAATGACCC
378728 GAATAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 26 0.90
33 3 0.10
ACGTcount: A:0.43, C:0.32, G:0.13, T:0.13
Consensus pattern (32 bp):
AACCCAAAATGATCCGAATCCGAAATGACCCA
Found at i:378707 original size:16 final size:16
Alignment explanation
Indices: 378644--378730 Score: 75
Period size: 16 Copynumber: 5.4 Consensus size: 16
378634 AAAGTCAACA
* * *
378644 ACCCAAACCCGAAATA
1 ACCCGAACCCAAAATG
*
378660 ACTCGAACCCAAAATG
1 ACCCGAACCCAAAATG
* * *
378676 ACCTGAATCCAGAATG
1 ACCCGAACCCAAAATG
*
378692 ACCCAAACCCAAAATG
1 ACCCGAACCCAAAATG
* * *
378708 ATCCGAATCCGAAATG
1 ACCCGAACCCAAAATG
378724 ACCCGAA
1 ACCCGAA
378731 TAATTAACCC
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.44, C:0.32, G:0.13, T:0.11
Consensus pattern (16 bp):
ACCCGAACCCAAAATG
Found at i:379706 original size:15 final size:15
Alignment explanation
Indices: 379682--379712 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
379672 ACGAATGTTA
*
379682 AACCCGATTAACCCG
1 AACCCAATTAACCCG
379697 AACCCAATTAACCCG
1 AACCCAATTAACCCG
379712 A
1 A
379713 GTGTTAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.39, G:0.10, T:0.13
Consensus pattern (15 bp):
AACCCAATTAACCCG
Found at i:379782 original size:16 final size:16
Alignment explanation
Indices: 379738--379847 Score: 96
Period size: 16 Copynumber: 6.9 Consensus size: 16
379728 GACTTGAACT
**
379738 CGAAATGATTCGAATC
1 CGAAATGACCCGAATC
**
379754 CGAAACAACCCGAATC
1 CGAAATGACCCGAATC
* *
379770 CGAAATGATCCGAACC
1 CGAAATGACCCGAATC
*
379786 CGAAATGACCCAAATC
1 CGAAATGACCCGAATC
*
379802 C-AAAGTGACCCGAACC
1 CGAAA-TGACCCGAATC
* **
379818 CAAAATGACTTGAATC
1 CGAAATGACCCGAATC
*
379834 CAAAATGACCCGAA
1 CGAAATGACCCGAA
379848 CCTGAAAACA
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
15 3 0.04
16 68 0.92
17 3 0.04
ACGTcount: A:0.42, C:0.29, G:0.15, T:0.14
Consensus pattern (16 bp):
CGAAATGACCCGAATC
Found at i:379789 original size:32 final size:32
Alignment explanation
Indices: 379738--379861 Score: 97
Period size: 32 Copynumber: 3.8 Consensus size: 32
379728 GACTTGAACT
** *
379738 CGAAATGATTCGAATCCGAAACAACCCGAATC
1 CGAAATGACCCGAACCCGAAACAACCCGAATC
* ** *
379770 CGAAATGATCCGAACCCGAAATGACCCAAATC
1 CGAAATGACCCGAACCCGAAACAACCCGAATC
* ** **
379802 C-AAAGTGACCCGAACCCAAAATGACTTGAATC
1 CGAAA-TGACCCGAACCCGAAACAACCCGAATC
* *
379834 CAAAATGACCCGAACCTGAAAACAACCC
1 CGAAATGACCCGAACCCG-AAACAACCC
379862 AAAAATTTTA
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
31 3 0.04
32 62 0.85
33 8 0.11
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.13
Consensus pattern (32 bp):
CGAAATGACCCGAACCCGAAACAACCCGAATC
Found at i:379897 original size:15 final size:15
Alignment explanation
Indices: 379879--379917 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 15
379869 TTATAACTCG
379879 AAATAA-CTCAACCTA
1 AAATAATCT-AACCTA
379894 AAATAATCTAACCTA
1 AAATAATCTAACCTA
379909 AAATCAATC
1 AAAT-AATC
379918 CGACTCATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAATCTAACCTA
Found at i:381290 original size:70 final size:73
Alignment explanation
Indices: 381121--381295 Score: 178
Period size: 70 Copynumber: 2.4 Consensus size: 73
381111 CAAAAAATCC
* * ** * *
381121 TAAACTTTTTACAAATAAAAATAAATTATGCTTTTAAAAATTTAAATTTATATAATCATATCTAA
1 TAAAC-TTTTACAAAT-AAAATAAATTATACTTCTAAAAATTTAAATCCACATAATCATATATAA
381186 AAAACATATT
64 AAAACATATT
* *
381196 TAAAATTTTACAAATCAAAATAAATTATAC-TCTAAAAATTTAAATCCGCATAATCA-A-ATAAA
1 TAAACTTTTACAAAT-AAAATAAATTATACTTCTAAAAATTTAAATCCACATAATCATATATAAA
**
381258 AATTA-ATT
65 AAACATATT
* *
381266 TAAACTTCTACAAATAAAAGTAAATAATAC
1 TAAACTTTTACAAATAAAA-TAAATTATAC
381296 CTTTAATTAA
Statistics
Matches: 85, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
69 4 0.05
70 25 0.29
71 7 0.08
72 1 0.01
73 21 0.25
74 23 0.27
75 4 0.05
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (73 bp):
TAAACTTTTACAAATAAAATAAATTATACTTCTAAAAATTTAAATCCACATAATCATATATAAAA
AACATATT
Found at i:381416 original size:19 final size:18
Alignment explanation
Indices: 381386--381450 Score: 55
Period size: 18 Copynumber: 3.6 Consensus size: 18
381376 TTAAACTTGT
381386 ATAATT-AT-ATTAAAAA
1 ATAATTAATAATTAAAAA
381402 ATAATTTAATAATT-AAAA
1 ATAA-TTAATAATTAAAAA
* *
381420 ATAAATAATATCTTAAAAA
1 ATAATTAATA-ATTAAAAA
*
381439 ATTACTTAATAA
1 A-TAATTAATAA
381451 ATTTTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
16 4 0.11
17 7 0.18
18 12 0.32
19 8 0.21
20 7 0.18
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
ATAATTAATAATTAAAAA
Found at i:382049 original size:18 final size:17
Alignment explanation
Indices: 382005--382062 Score: 52
Period size: 17 Copynumber: 3.5 Consensus size: 17
381995 TGATTAAATG
382005 TATAATAATTTATAT-AA
1 TATAA-AATTTATATAAA
*
382022 TAT-GAA-TTAT-TAATA
1 TATAAAATTTATATAA-A
382037 TATCAAAATTTATATAAA
1 TAT-AAAATTTATATAAA
382055 TATAAAAT
1 TATAAAAT
382063 AAAATATCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
13 1 0.03
14 5 0.15
15 6 0.18
17 10 0.30
18 8 0.24
19 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TATAAAATTTATATAAA
Found at i:391223 original size:2 final size:2
Alignment explanation
Indices: 391216--391249 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
391206 AACAGGTGAA
*
391216 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
391250 GGAAAAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:391709 original size:18 final size:18
Alignment explanation
Indices: 391682--391716 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
391672 TGCTCCTTGT
* *
391682 CCCATTCCCATATTCATC
1 CCCATGCCCAGATTCATC
391700 CCCATGCCCAGATTCAT
1 CCCATGCCCAGATTCAT
391717 AAAATTGAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.43, G:0.06, T:0.29
Consensus pattern (18 bp):
CCCATGCCCAGATTCATC
Found at i:392253 original size:77 final size:77
Alignment explanation
Indices: 392126--392348 Score: 419
Period size: 77 Copynumber: 2.9 Consensus size: 77
392116 CTTGCATAAC
* *
392126 TATTCATTTTAGGAAAAATAACACTTTACCCCTTACCACGACGCAGAACCTTTCCTAAAGCATTA
1 TATTCATTTTAGGAAAAATAACACTTTACCCCTTACTATGACGCAGAACCTTTCCTAAAGCATTA
392191 CCATCTACGGCA
66 CCATCTACGGCA
*
392203 TATTCATTTTAGGAAAAATAACACTTTACCCCTTACTATGATGCAGAACCTTTCCTAAAGCATTA
1 TATTCATTTTAGGAAAAATAACACTTTACCCCTTACTATGACGCAGAACCTTTCCTAAAGCATTA
392268 CCATCTACGGCA
66 CCATCTACGGCA
392280 TATTCATTTTAGGAAAAATAACACTTTACCCCTTACTATGACGCAGAACCTTTCCTAAAGCATTA
1 TATTCATTTTAGGAAAAATAACACTTTACCCCTTACTATGACGCAGAACCTTTCCTAAAGCATTA
392345 CCAT
66 CCAT
392349 GTATTTAAAA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 142 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (77 bp):
TATTCATTTTAGGAAAAATAACACTTTACCCCTTACTATGACGCAGAACCTTTCCTAAAGCATTA
CCATCTACGGCA
Found at i:395965 original size:22 final size:23
Alignment explanation
Indices: 395938--395983 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
395928 AATTTACCAA
* *
395938 AATAAAATTATTTAAAT-TTAAT
1 AATAAAAATATATAAATATTAAT
395960 AATAAAAATATATAAATATTAAT
1 AATAAAAATATATAAATATTAAT
395983 A
1 A
395984 TTTTTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AATAAAAATATATAAATATTAAT
Found at i:396101 original size:12 final size:12
Alignment explanation
Indices: 396084--396117 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
396074 TAAGTGCCAT
*
396084 ATATTATTTTTA
1 ATATTATTATTA
*
396096 ATATTAATATTA
1 ATATTATTATTA
396108 ATATTATTAT
1 ATATTATTAT
396118 GTATTATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:396211 original size:2 final size:2
Alignment explanation
Indices: 396204--396231 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
396194 ACCGAGTTAA
396204 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
396232 TAGAAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:397809 original size:406 final size:405
Alignment explanation
Indices: 397032--397840 Score: 1316
Period size: 407 Copynumber: 2.0 Consensus size: 405
397022 AACCTAATGA
397032 ATTTATTTATTATTGTCACCTCACATGGAATATTGAATATGTATCACCATCACTCTTTATCAAAA
1 ATTTATTTATTATTGTCACCTCACATGGAATATTGAATATGTATCACCATCACTCTTTATCAAAA
* *
397097 ATAAAAGTCATTAACGCTCATTCGTTTTGTTTTTGAAATAATCTCATTCTTTTATTATACATGTC
66 ATAAAAGTCATTAACACTCATTCGTTTTGTTTTTGAAATAATCTCATTCATTTATTATACATGTC
*
397162 ATATTGAAGGAAATTATGTTAATTTTGCATATACAACCTTATAATGTGACAATGGCTTGCCTTTC
131 ATATTGAAAGAAATTATGTTAATTTTGCATATACAACCTTATAATGTGACAATGGCTTGCCTTTC
* *
397227 GAATAATAAAAGTATGTATTGCGCTTGCCTTTCTAATGGCTCTGTTTGCCTATAATTGTGATAAT
196 AAATAATAAAAGTATGTATTGCGCTTGCCTTTCTAATAGCTCTGTTTGCCTATAATTGTGATAAT
*
397292 TGTAAGAATCACATATGCCTTCTATGTGTAACTCTAGTTCTTGGTGCTCTTAACATGTCAAGGGC
261 TGTAAGAATCACATAGGCCTTCTATGTGTAACTCTAGTTCTTGGTGCTCTTAACATGTCAAGGGC
* *
397357 ATCAACACCAGTGCATTGCTTGTTCATAGGCCCATTGTAAAGACTGCAAATTTGCTTTAGATTTG
326 ATCAACACCAGTGCATTGCTTGTTCATAGACCCATTGTAAAGACTGCAAATTTGCTTTAGATTAG
397422 GTATGTGTTAGACGG
391 GTATGTGTTAGACGG
* * *
397437 ATTTGTTTATTATTGTTCACCTCACATTGAATATTGAATATGTATCACCATCA-TGTTTTATCAA
1 ATTTATTTATTATTG-TCACCTCACATGGAATATTGAATATGTATCACCATCACT-CTTTATCAA
* * * *
397501 AAATAAAAGTCATTAACACTCATTCGTTTTGTTTTTGAAATAGTTCTCGTTCATTTGTTATGCAT
64 AAATAAAAGTCATTAACACTCATTCGTTTTGTTTTTGAAATA-ATCTCATTCATTTATTATACAT
* * * *
397566 GTGATATTGAAAGAAATTTTGTTACTTTTGCATATGCAACCTTATAATGTGACAATGGCTTGCCT
128 GTCATATTGAAAGAAATTATGTTAATTTTGCATATACAACCTTATAATGTGACAATGGCTTGCCT
* * * *
397631 TTCAAATAATAAGAGTATGTATTGTGCTTGCCTTTCTAATAGCTTTGTTTGTCTATAATTGTGAT
193 TTCAAATAATAAAAGTATGTATTGCGCTTGCCTTTCTAATAGCTCTGTTTGCCTATAATTGTGAT
* *
397696 AATTGTAAGGATCACATAGGCCTTCTATGTGTAACTCTTGTTCTTGGTGCTC-TAACATGTCAAG
258 AATTGTAAGAATCACATAGGCCTTCTATGTGTAACTCTAGTTCTTGGTGCTCTTAACATGTCAAG
* * * *
397760 GGCATGAGCCCCAGTGCATTGCTTGTTCATAGACTCATTGTAAAGACTGCAAATTTGCTTTAGAT
323 GGCATCAACACCAGTGCATTGCTTGTTCATAGACCCATTGTAAAGACTGCAAATTTGCTTTAGAT
397825 TAGGTATGTGTTAGAC
388 TAGGTATGTGTTAGAC
397841 TACCAAATAC
Statistics
Matches: 372, Mismatches: 29, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
405 15 0.04
406 172 0.46
407 185 0.50
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (405 bp):
ATTTATTTATTATTGTCACCTCACATGGAATATTGAATATGTATCACCATCACTCTTTATCAAAA
ATAAAAGTCATTAACACTCATTCGTTTTGTTTTTGAAATAATCTCATTCATTTATTATACATGTC
ATATTGAAAGAAATTATGTTAATTTTGCATATACAACCTTATAATGTGACAATGGCTTGCCTTTC
AAATAATAAAAGTATGTATTGCGCTTGCCTTTCTAATAGCTCTGTTTGCCTATAATTGTGATAAT
TGTAAGAATCACATAGGCCTTCTATGTGTAACTCTAGTTCTTGGTGCTCTTAACATGTCAAGGGC
ATCAACACCAGTGCATTGCTTGTTCATAGACCCATTGTAAAGACTGCAAATTTGCTTTAGATTAG
GTATGTGTTAGACGG
Found at i:399757 original size:77 final size:77
Alignment explanation
Indices: 399630--399784 Score: 301
Period size: 77 Copynumber: 2.0 Consensus size: 77
399620 TGAAGTAATG
*
399630 ATACATTCCTTTCTCCTCTCATGGAGTATTACGAAGCCTAGCTTTTGGGTTTTTGGACAACTTTG
1 ATACATTCCTTTCTCCTCTCATGGAGTATTACGAAGCCTAGCTTTTGGGTTTTTGGACAACTTCG
399695 CTTCCTTTGTCC
66 CTTCCTTTGTCC
399707 ATACATTCCTTTCTCCTCTCATGGAGTATTACGAAGCCTAGCTTTTGGGTTTTTGGACAACTTCG
1 ATACATTCCTTTCTCCTCTCATGGAGTATTACGAAGCCTAGCTTTTGGGTTTTTGGACAACTTCG
399772 CTTCCTTTGTCC
66 CTTCCTTTGTCC
399784 A
1 A
399785 GCCTTATGAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (77 bp):
ATACATTCCTTTCTCCTCTCATGGAGTATTACGAAGCCTAGCTTTTGGGTTTTTGGACAACTTCG
CTTCCTTTGTCC
Found at i:401512 original size:2 final size:2
Alignment explanation
Indices: 401505--401534 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
401495 ACAGGTGAAA
*
401505 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
401535 GGAAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:401994 original size:18 final size:18
Alignment explanation
Indices: 401967--402008 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
401957 TGCTCCTTAT
* *
401967 CCCATTCCCATATTCATC
1 CCCATGCCCAGATTCATC
*
401985 CCCATGCCCAGATTCATG
1 CCCATGCCCAGATTCATC
402003 CCCATG
1 CCCATG
402009 TTGTTCACCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.43, G:0.10, T:0.26
Consensus pattern (18 bp):
CCCATGCCCAGATTCATC
Found at i:402114 original size:12 final size:12
Alignment explanation
Indices: 402097--402132 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
402087 CAGGACCACC
*
402097 ACTCATTCCCAT
1 ACTCATACCCAT
402109 ACTCATACCCAT
1 ACTCATACCCAT
*
402121 ACCCATACCCAT
1 ACTCATACCCAT
402133 GCCGGAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (12 bp):
ACTCATACCCAT
Found at i:402987 original size:33 final size:32
Alignment explanation
Indices: 402893--403173 Score: 177
Period size: 33 Copynumber: 8.2 Consensus size: 32
402883 TGGTTGCGTT
* * * * * *
402893 GGTTGGTCATATGGATTGGCACTCGGCAGTAC
1 GGTTGGCCATATGGATTAGCATTTGGCTGTGC
* * *
402925 AGGTTGGCCGTACGTATTAGCATTTGGCTGTGC
1 -GGTTGGCCATATGGATTAGCATTTGGCTGTGC
* *
402958 GGATTGCCCATATGGATTAACATTTGGCTGTGC
1 GG-TTGGCCATATGGATTAGCATTTGGCTGTGC
* *
402991 GGGTTGGCCATGTGGATTAGCAATTGGCTGTGC
1 -GGTTGGCCATATGGATTAGCATTTGGCTGTGC
*
403024 AGGTTGGCCATAGGGATTAGCACTTGGCTGTGCCAGTTGTGC
1 -GGTTGGCCATATGGATTAGCA-TT---TG-G-C---TGTGC
* * *
403066 GGATTGGCCATATGCATTAGAATTTGGCT-TCC
1 GG-TTGGCCATATGGATTAGCATTTGGCTGTGC
* * * *
403098 TGGGTTGGTCATATGGGTAAAGCACTTGGCTGTGC
1 --GGTTGGCCATATGGAT-TAGCATTTGGCTGTGC
* *
403133 AGGTTGGTCATATGGATTAGCATTTGGCTGTGTG
1 -GGTTGGCCATATGGATTAGCATTTGGCTGTG-C
403167 GGTTGGC
1 GGTTGGC
403174 TGTATATATT
Statistics
Matches: 192, Mismatches: 39, Indels: 34
0.72 0.15 0.13
Matches are distributed among these distances:
32 4 0.02
33 124 0.65
34 29 0.15
35 2 0.01
36 1 0.01
37 3 0.02
38 3 0.02
39 1 0.01
41 4 0.02
42 21 0.11
ACGTcount: A:0.17, C:0.16, G:0.34, T:0.32
Consensus pattern (32 bp):
GGTTGGCCATATGGATTAGCATTTGGCTGTGC
Found at i:403104 original size:75 final size:76
Alignment explanation
Indices: 402986--403132 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 76
402976 AACATTTGGC
* * * * *
402986 TGTGCGGGTTGGCCATGTGGATTAGCAATTGGCTGTGCAGGTTGGCCATA-GGG-ATTAGCACTT
1 TGTGCGGATTGGCCATATGCATTAGCAATTGGCTGTCCAGGTTGGCCATATGGGTA-AAGCACTT
403049 GGCTGTGCCAGT
65 GGCTGTGCCAGT
* *
403061 TGTGCGGATTGGCCATATGCATTAG-AATTTGGCT-TCCTGGGTTGGTCATATGGGTAAAGCACT
1 TGTGCGGATTGGCCATATGCATTAGCAA-TTGGCTGTCC-AGGTTGGCCATATGGGTAAAGCACT
403124 TGGCTGTGC
64 TGGCTGTGC
403133 AGGTTGGTCA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
74 4 0.07
75 38 0.62
76 18 0.30
77 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (76 bp):
TGTGCGGATTGGCCATATGCATTAGCAATTGGCTGTCCAGGTTGGCCATATGGGTAAAGCACTTG
GCTGTGCCAGT
Found at i:403162 original size:109 final size:108
Alignment explanation
Indices: 402953--403164 Score: 284
Period size: 108 Copynumber: 2.0 Consensus size: 108
402943 AGCATTTGGC
* * * *
402953 TGTGCGGATTGCCCATATGGATTAACATTTGGCTGTGCGGGTTGGCCATGTGGATTAGCAATTGG
1 TGTGCGGATTGCCCATATGCATTAACATTTGGCTGTCCGGGTTGGCCATATGGATAAGCAATTGG
403018 CTGTGCAGGTTGGCCATAGGGATTAGCACTTGGCTGTGCCAGT
66 CTGTGCAGGTTGGCCATAGGGATTAGCACTTGGCTGTGCCAGT
* * * *
403061 TGTGCGGATTGGCCATATGCATTAGA-ATTTGGCT-TCCTGGGTTGGTCATATGGGTAAAGCACT
1 TGTGCGGATTGCCCATATGCATTA-ACATTTGGCTGTCC-GGGTTGGCCATATGGAT-AAGCAAT
* * *
403124 TGGCTGTGCAGGTTGGTCATATGGATTAGCATTTGGCTGTG
63 TGGCTGTGCAGGTTGGCCATAGGGATTAGCACTTGGCTGTG
403165 TGGGTTGGCT
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
107 2 0.02
108 44 0.49
109 44 0.49
ACGTcount: A:0.18, C:0.16, G:0.33, T:0.33
Consensus pattern (108 bp):
TGTGCGGATTGCCCATATGCATTAACATTTGGCTGTCCGGGTTGGCCATATGGATAAGCAATTGG
CTGTGCAGGTTGGCCATAGGGATTAGCACTTGGCTGTGCCAGT
Found at i:416480 original size:1 final size:1
Alignment explanation
Indices: 416474--416499 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
416464 TGACAATGCG
416474 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
416500 CTCCAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:417150 original size:22 final size:21
Alignment explanation
Indices: 417116--417178 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
417106 TAAAATACAA
*
417116 AATTTA-TTATTTTAATATATT
1 AATTTATTTATTTTAA-ATAAT
417137 AATTTATTTATTTTTAAATAAT
1 AATTTATTTA-TTTTAAATAAT
* *
417159 AATTAATTTAGTTTAAATAA
1 AATTTATTTATTTTAAATAA
417179 AAATAATATA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 15 0.41
22 16 0.43
23 6 0.16
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
AATTTATTTATTTTAAATAAT
Found at i:417447 original size:16 final size:17
Alignment explanation
Indices: 417408--417448 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
417398 AAATATATTT
*
417408 AAATTAAATTTAATATA
1 AAATAAAATTTAATATA
*
417425 TAA-AAAATTT-ATATA
1 AAATAAAATTTAATATA
417440 AAATAAAAT
1 AAATAAAAT
417449 AAATTAAGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 7 0.35
16 11 0.55
17 2 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (17 bp):
AAATAAAATTTAATATA
Found at i:417866 original size:11 final size:13
Alignment explanation
Indices: 417813--417879 Score: 61
Period size: 13 Copynumber: 5.3 Consensus size: 13
417803 TAATACACAT
417813 ATATATAAAAAT-
1 ATATATAAAAATA
*
417825 ATACAT-AAAATA
1 ATATATAAAAATA
*
417837 A-A-ATAAATTATTA
1 ATATATAAA--AATA
*
417850 ATATATAAAAAAA
1 ATATATAAAAATA
417863 ATATATAAAAATA
1 ATATATAAAAATA
417876 ATAT
1 ATAT
417880 TTTAAATACA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
10 2 0.05
11 8 0.18
12 6 0.14
13 22 0.50
14 1 0.02
15 5 0.11
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATATAAAAATA
Found at i:418374 original size:24 final size:23
Alignment explanation
Indices: 418346--418391 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
418336 TAAAAATACG
* *
418346 ATATAAATACATGAATATATTAAA
1 ATATAAATAAATAAATA-ATTAAA
*
418370 ATATAGATAAATAAATAATTAA
1 ATATAAATAAATAAATAATTAA
418392 CGTGTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (23 bp):
ATATAAATAAATAAATAATTAAA
Found at i:418577 original size:24 final size:26
Alignment explanation
Indices: 418521--418577 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
418511 TACATATAAA
*
418521 AATATATATAAAATAAATAAATTATT
1 AATATATAAAAAATAAATAAATTATT
*
418547 AATATATAAAAAATATATAAAATTA-T
1 AATATATAAAAAATAAAT-AAATTATT
418573 AATAT
1 AATAT
418578 TTTATATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 22 0.79
27 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
AATATATAAAAAATAAATAAATTATT
Found at i:419117 original size:6 final size:6
Alignment explanation
Indices: 419098--419131 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
419088 AAAAATTATC
*
419098 TATCTA TAATCTA TATCTA TATCTG TATCTA TAT
1 TATCTA T-ATCTA TATCTA TATCTA TATCTA TAT
419132 TTATTTACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (6 bp):
TATCTA
Found at i:419190 original size:20 final size:20
Alignment explanation
Indices: 419144--419190 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
419134 ATTTACCAAT
* *
419144 ATTTATACTTTATATTTATA
1 ATTTATAATTTATATTTAAA
*
419164 ATATATAATTTATATTTAAA
1 ATTTATAATTTATATTTAAA
419184 ATTTATA
1 ATTTATA
419191 TATAATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTATAATTTATATTTAAA
Found at i:419202 original size:33 final size:33
Alignment explanation
Indices: 419142--419204 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
419132 TTATTTACCA
* * *
419142 ATATTTATACTTTATATTTATAATATATAATTT
1 ATATTTAAAATTTATATTAATAATATATAATTT
419175 ATATTTAAAATTTATATATAAT-ATATATAA
1 ATATTTAAAATTTATAT-TAATAATATATAA
419205 AAATATGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
ATATTTAAAATTTATATTAATAATATATAATTT
Found at i:419223 original size:17 final size:18
Alignment explanation
Indices: 419190--419230 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
419180 TAAAATTTAT
*
419190 ATAT-AATATATATAAAA
1 ATATGAATATATAAAAAA
419207 ATATGAATATA-AAAAAA
1 ATATGAATATATAAAAAA
*
419224 ATTTGAA
1 ATATGAA
419231 CTCATTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATGAATATATAAAAAA
Found at i:427353 original size:128 final size:128
Alignment explanation
Indices: 427191--427438 Score: 370
Period size: 128 Copynumber: 1.9 Consensus size: 128
427181 CCCTGTGATT
* * *** *
427191 TAAACAAATATGAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGAT
1 TAAACAAATATGAATCATTTTTAATCTTTTATATTCCTATGGATATCAACAGGGGTATAAAAAAT
* *
427256 TTCAAAAACTTTTCGTATCTTTTCGGGTTTCCATTAAGGTACGAAATAATTTTTTTCCAAAAA
66 TTCAAAAACTTTTCGTATCTTTTCGGGCTTCCATTAAGGTACAAAATAATTTTTTTCCAAAAA
* * *
427319 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGATATCAACAGGGGTATAAAAAAT
1 TAAACAAATATGAATCATTTTTAATCTTTTATATTCCTATGGATATCAACAGGGGTATAAAAAAT
* * *
427384 TTCAAAAACTTTTTGTATCTTTTTGGGCTTCCATTAAGGTACAAAATGATTTTTT
66 TTCAAAAACTTTTCGTATCTTTTCGGGCTTCCATTAAGGTACAAAATAATTTTTT
427439 AAAAAAAAAT
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
128 106 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (128 bp):
TAAACAAATATGAATCATTTTTAATCTTTTATATTCCTATGGATATCAACAGGGGTATAAAAAAT
TTCAAAAACTTTTCGTATCTTTTCGGGCTTCCATTAAGGTACAAAATAATTTTTTTCCAAAAA
Found at i:431910 original size:14 final size:14
Alignment explanation
Indices: 431891--431917 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
431881 TTAGTTATGT
431891 AACAAAATTGAGAA
1 AACAAAATTGAGAA
431905 AACAAAATTGAGA
1 AACAAAATTGAGA
431918 TATTATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.15, T:0.15
Consensus pattern (14 bp):
AACAAAATTGAGAA
Found at i:437085 original size:46 final size:46
Alignment explanation
Indices: 437018--437111 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
437008 TAAAATATTT
*
437018 TTAGCATTTTGTCGATTCTTTGAGAAGTGTTAAAAATATCAAAACC
1 TTAGCATTTTGTCGATTCTTTGAGAAATGTTAAAAATATCAAAACC
437064 TTAGCATTTTGTCGATTCTTTGAGAAATGTTAAAAATATCAAAACC
1 TTAGCATTTTGTCGATTCTTTGAGAAATGTTAAAAATATCAAAACC
437110 TT
1 TT
437112 TCATATTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (46 bp):
TTAGCATTTTGTCGATTCTTTGAGAAATGTTAAAAATATCAAAACC
Found at i:438215 original size:135 final size:136
Alignment explanation
Indices: 437965--438237 Score: 485
Period size: 135 Copynumber: 2.0 Consensus size: 136
437955 TGCACATAGT
* * *
437965 ATTCAGCAAAAATGTTAATAGAATAATATGTGAAATAATGTTATAAAATAATTCACACAAAGTGA
1 ATTCAGCAAAAATGTTAATAGAACAACAAGTGAAATAATGTTATAAAATAATTCACACAAAGTGA
* *
438030 CAACACAGAAAAGGAGCGACAATCGAAATATATCTCACATTTGTCTTCGATTATCGAAAAAATAA
66 CAACACAGAAAAAGAGCGACAATCGAAATATATCTCACATTTGTCTTCGATTATCAAAAAAATAA
438095 CCGAAA
131 CCGAAA
*
438101 ATTCAGC-AAAATGTTAGTAGAACAACAAGTGAAATAATGTTATAAAATAATTCACACAAAGTGA
1 ATTCAGCAAAAATGTTAATAGAACAACAAGTGAAATAATGTTATAAAATAATTCACACAAAGTGA
438165 CAACACAGAAAAAGAGCGACAATCGAAATATATCTCACATTTGTCTTCGATTATCAAAAAAATAA
66 CAACACAGAAAAAGAGCGACAATCGAAATATATCTCACATTTGTCTTCGATTATCAAAAAAATAA
438230 CCGAAA
131 CCGAAA
438236 AT
1 AT
438238 AGGGGATAGC
Statistics
Matches: 131, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
135 124 0.95
136 7 0.05
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (136 bp):
ATTCAGCAAAAATGTTAATAGAACAACAAGTGAAATAATGTTATAAAATAATTCACACAAAGTGA
CAACACAGAAAAAGAGCGACAATCGAAATATATCTCACATTTGTCTTCGATTATCAAAAAAATAA
CCGAAA
Found at i:440233 original size:20 final size:20
Alignment explanation
Indices: 440208--440245 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
440198 GTAAAAACCC
*
440208 AGAATGTATCGATACATTGA
1 AGAATGCATCGATACATTGA
440228 AGAATGCATCGATACATT
1 AGAATGCATCGATACATT
440246 TGGGTACTTT
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:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
AGAATGCATCGATACATTGA
Found at i:440900 original size:28 final size:29
Alignment explanation
Indices: 440791--441310 Score: 659
Period size: 28 Copynumber: 17.8 Consensus size: 29
440781 TTTTTAAAAA
* *
440791 AAAATAGTGCCACTAACTTGTGTGGGCTTTG
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTG
*
440822 AAAAGAGTTGCCACCGACTCATGTGGGCTTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTG
440854 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
440883 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
440911 AAAAG-GTGCCACTGACTTGTGGACTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
440939 AAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
440967 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
440996 -AAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTT--GTGGGCTTTG
*
441026 AAAAG-GTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
441054 AAAGGA-TGCCACTTAC---TGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
441079 AAAAGAGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
441108 -AAAGGGTGCCACTGACTTGTGGACTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
441136 AAAAGAGTGCCAATAATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
441165 AAAAG-GTGCCACTGACTTGCATGGTTGTGGGCTTTG
1 AAAAGAGTGCCACTGA----C----TTGTGGGCTTTG
*
441201 AAAA-TGTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
441229 AAAAGAATGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
441258 AAAAGAGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTG
*
441287 AAAAGAGTGCCACTGATTTGTGGG
1 AAAAGAGTGCCACTGACTTGTGGG
441311 TGCCATTGAC
Statistics
Matches: 436, Mismatches: 31, Indels: 46
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.03
26 9 0.02
28 171 0.39
29 146 0.33
30 22 0.05
31 21 0.05
32 27 0.06
36 26 0.06
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:440915 original size:57 final size:58
Alignment explanation
Indices: 440791--442327 Score: 1759
Period size: 57 Copynumber: 26.6 Consensus size: 58
440781 TTTTTAAAAA
* * *
440791 AAAATAGTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCGACTCATGTGGGCTTTG
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG
440854 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
440911 AAAAG-GTGCCACTGACTTGTGGACTTTGAAAAG-GTGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
440967 AAAAGAGTGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGCGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGCTTTG
* * *
441026 AAAAG-GTGCCACTAACTTGTGGGCTTTGAAAGGA-TGCCACTTAC---TGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
441079 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGACTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
441136 AAAAGAGTGCCAATAATTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGCATGGTTGTGGGCTTT
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA----C----TTGTGGGCTTT
441200 G
58 G
* *
441201 AAAA-TGTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
441258 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGA-TT-T--G---TG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
441309 ----G-GTGCCATTGACTTGCATGGGCTTT-AAAAGGGTGCCACT-ACTTATGGGCTTTG
1 AAAAGAGTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
441362 -AAAGGGTGCCACTAATTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGT-GGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * *
441418 AAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGTGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGCTTTG
* * * *
441479 AAAAGAGTGCCATTGACTTGTGAGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
441536 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * * *
441593 -AAAGGGTGCCACTAACTTGCATTGGCTTTG-AAAGGGTGTCACTAACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * *
441651 AAAAG-GTGCCACTAACTTGTGGACTTTGAAAAGAATGCCACTGATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
441708 AAAAAAGTGCCATTGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGTGGGCTTTG
*
441769 AAAAGAATGCCACTGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTCGTGTGGGCTTTG
1 AAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACT--TGTGGGCTTTG
* *
441831 AAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
441888 -TAAGGGTGCCACTGACTTGCATAGGCTTTG-AAAGGGTGCCACTGACTTATGGGCTTTG
1 AAAAGAGTGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* ** * * * *
441946 -AAAGTGTATCACTGACTTGTGGGCTTTAAAAAGAGTACCACTGACTTGTGGACTTTA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
442003 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGGCACTGACTTGTGGGTTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
442061 AAAAGAGTTGCCACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGCGGGCTTTG
1 AAAAGAG-TGCCACTGACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * * * *
442122 AAATGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTATGGACTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* * ** * * * * *
442179 AAAAGAGTGCCGCCGACTCATGTGCTTTG-AAAGGGTGCCACCGACTCGTGTGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
* *
442236 AAAAGAGTGCCATTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTG
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
*
442294 -AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGA
1 AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGA
442328 TGAACGTTCT
Statistics
Matches: 1274, Mismatches: 139, Indels: 128
0.83 0.09 0.08
Matches are distributed among these distances:
46 13 0.01
47 16 0.01
48 9 0.01
50 1 0.00
51 2 0.00
53 19 0.01
54 32 0.03
55 8 0.01
56 136 0.11
57 398 0.31
58 284 0.22
59 83 0.07
60 31 0.02
61 120 0.09
62 40 0.03
63 33 0.03
64 25 0.02
65 24 0.02
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (58 bp):
AAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG
Found at i:441359 original size:75 final size:74
Alignment explanation
Indices: 441236--441460 Score: 213
Period size: 75 Copynumber: 2.9 Consensus size: 74
441226 TTGAAAAGAA
*
441236 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACT
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTG-AAAGAGTGCCACT
*
441301 GATTTGTGGG
65 AATTTGTGGG
* * *
441311 TGCCATTGACTTGCATGGGCTTT-AAAAGGGTGCCACT-ACTTATGGGCTTTGAAAGGGTGCCAC
1 TGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGAGTGCCAC
441374 TAATTTGTGGGCTTTGAAAAGAG
64 TAA-TT-T--G---TG----G-G
* *
441397 TGCCATTGACTTGT-GGCTTTGAAAAGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCAC
1 TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTG-AAAGAG-TGCCAC
441461 CGACTCGTGT
Statistics
Matches: 124, Mismatches: 8, Indels: 24
0.79 0.05 0.15
Matches are distributed among these distances:
74 13 0.10
75 27 0.22
76 14 0.11
77 8 0.06
78 1 0.01
81 2 0.02
83 6 0.05
84 14 0.11
85 14 0.11
86 19 0.15
87 6 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (74 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAACTTATGGGCTTTGAAAGAGTGCCACTA
ATTTGTGGG
Found at i:441392 original size:103 final size:104
Alignment explanation
Indices: 441206--442327 Score: 531
Period size: 115 Copynumber: 9.8 Consensus size: 104
441196 CTTTGAAAAT
*
441206 GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCAC
*
441271 TAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGG
66 TAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
* ** *
441310 GTGCCATTGACTTGCATGGGCTTT-AAAAGGGTGCCACT-ACTTATGGGCTTTG-AAAGGGTGCC
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCC
* *
441372 ACTAATTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGCTTTGAAAAG
64 ACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGAC-T-T-G---TG----G
* * * * *
441423 AGTGCCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGTGTGTGCTTTGAAAAGAGTG
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGA-ATGCCACTGACT--TATGGGCTTTGAAAAGAGTG
* * * * *
441488 CCATTGACTTGTGAGCTTTG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGG
62 CCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGAC-T-T--G---T----GG
* * * *
441541 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTG-AAAGGGTGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCAC
* * * *
441605 TAACTTGCATTGGCTTTG-AAAGGGTGTCACTAACTTGTGGGCTTTGAAAAG
66 TAACTTG--TGGGCTTTGAAAAGAGTGCCACTGAC-T-T--G---TG----G
* * * * * *
441656 GTGCCACTAACTTGTGGACTTTGAAAAGAATGCCACTGATTTGTGGGCTTTGAAAAAAGTGCCAT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCAC
*
441721 TGACTTGTGGGCTTTGAAAAGAGTTGCCACTGACTTGTGTGGGCTTTG
66 TAACTTGTGGGCTTTGAAAAGAG-TGCCACTGAC-T-TGT--G----G
* *
441769 AAAAGAATGCCACTGACTTGTGTGGGCTTTGAAAAGAGTGCCACTGACTCGTGTGGGCTTTGAAA
1 ----G--TGCCACTGACTTG--TGGGCTTTGAAAAGAATGCCACTGACT--TATGGGCTTTGAAA
* *
441834 AGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGCTTTGTAAGG
56 AGAGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGA--------C-TTGT--GG
* ** * **
441893 GTGCCACTGACTTGCATAGGCTTTG-AAAGGGTGCCACTGACTTATGGGCTTTG-AAAGTGTATC
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCC
* * *
441956 ACTGACTTGTGGGCTTTAAAAAGAGTACCACTGACTTGTGGACTTTAAAAAG
64 ACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGT-G----------G
* * * *
442008 AGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGGCACTGACTTGTGGGTTTTGAAAAGAGTTGCC
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAG-TGCC
**
442073 ACCGACTCGTGTGGGCTTTGAAAAGAGTGCCACTGACTTGCGGGCTTTGAAATG
64 ACTAACT--TGTGGGCTTTGAAAAGAGTGCCACTGACTT----G---TG----G
** * * *
442127 AGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTAACTTATGGACTTTGAAAAGAGTGCCG
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCA
** ** * * *
442191 CCGACTCATGTGCTTTG-AAAGGGTGCCACCGACTCGTGTGCTTTGAAAAG
65 CTAACTTGTGGGCTTTGAAAAGAGTGCCACTGA--C-T-TG---TG----G
* * * * *
442241 AGTGCCATTGACTTGTGGGCTTTGAAAAGAGTGCCATTGACTTGTGGGCTTTG-AAAGGGTGCCA
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCA
*
442305 CTGACTTGTGGGCTTTGAAAAGA
65 CTAACTTGTGGGCTTTGAAAAGA
442328 TGAACGTTCT
Statistics
Matches: 827, Mismatches: 108, Indels: 155
0.76 0.10 0.14
Matches are distributed among these distances:
103 41 0.05
104 27 0.03
105 14 0.02
106 13 0.02
107 1 0.00
109 2 0.00
111 2 0.00
112 8 0.01
113 24 0.03
114 137 0.17
115 174 0.21
116 56 0.07
117 90 0.11
118 81 0.10
119 68 0.08
120 1 0.00
121 33 0.04
122 6 0.01
123 39 0.05
124 1 0.00
125 1 0.00
126 1 0.00
128 4 0.00
129 3 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (104 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAATGCCACTGACTTATGGGCTTTGAAAAGAGTGCCAC
TAACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGG
Found at i:441414 original size:28 final size:29
Alignment explanation
Indices: 441310--442327 Score: 1177
Period size: 29 Copynumber: 35.0 Consensus size: 29
441300 TGATTTGTGG
* *
441310 GTGCCATTGACTTGCATGGGCTTT-AAAAGG
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGA
* *
441340 GTGCCACT-ACTTATGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
441367 GTGCCACTAATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
441396 GTGCCATTGACTTGT-GGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
441424 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
441453 GTTGCCACCGACTCGTGTGTGCTTTGAAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
* * *
441485 GTGCCATTGACTTGTGAGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
441513 GTGCCACTAACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
441541 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
441570 GTGCCACTGATTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
441598 GTGCCACTAACTTGCATTGGCTTTG-AAAGG
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGA
* *
441628 GTGTCACTAACTTGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
441656 GTGCCACTAACTTGTGGACTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
441685 ATGCCACTGATTTGTGGGCTTTGAAAAAA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
441714 GTGCCATTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
441743 GTTGCCACTGACTTGTGTGGGCTTTGAAAAGA
1 G-TGCCACTGAC-T-TGTGGGCTTTGAAAAGA
*
441775 ATGCCACTGACTTGTGTGGGCTTTGAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
441806 GTGCCACTGACTCGTGTGGGCTTTGAAAAGA
1 GTGCCACTGACT--TGTGGGCTTTGAAAAGA
*
441837 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
441865 GTGCCACTGATTTGTGGGCTTTG-TAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
441893 GTGCCACTGACTTGCATAGGCTTTG-AAAGG
1 GTGCCACTGACTTG--TGGGCTTTGAAAAGA
* *
441923 GTGCCACTGACTTATGGGCTTTG-AAAGT
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
** *
441951 GTATCACTGACTTGTGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
441980 GTACCACTGACTTGTGGACTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
442009 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
442038 GTGGCACTGACTTGTGGGTTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
442067 GTTGCCACCGACTCGTGTGGGCTTTGAAAAGA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAAGA
* *
442099 GTGCCACTGACTTGCGGGCTTTGAAATGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
442128 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
442156 GTGCCACTAACTTATGGACTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * ** * *
442185 GTGCCGCCGACTCATGTGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
442213 GTGCCACCGACTCGTGTGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
442242 GTGCCATTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
442271 GTGCCATTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
442299 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
442328 TGAACGTTCT
Statistics
Matches: 869, Mismatches: 94, Indels: 51
0.86 0.09 0.05
Matches are distributed among these distances:
27 21 0.02
28 287 0.33
29 334 0.38
30 86 0.10
31 90 0.10
32 51 0.06
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:442444 original size:15 final size:15
Alignment explanation
Indices: 442424--442454 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
442414 TTACCTGAAT
442424 GACGCAGGGTTTGTA
1 GACGCAGGGTTTGTA
442439 GACGCAGGGTTTGTA
1 GACGCAGGGTTTGTA
442454 G
1 G
442455 GGCTTGAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.13, G:0.42, T:0.26
Consensus pattern (15 bp):
GACGCAGGGTTTGTA
Found at i:443253 original size:59 final size:59
Alignment explanation
Indices: 443161--443762 Score: 961
Period size: 59 Copynumber: 10.1 Consensus size: 59
443151 TTATCAAACA
443161 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
443220 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
* * *
443279 TGAAGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCTCGTTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
*
443338 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCCTCCCGCTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
* *
443397 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCGTCCTGCTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
*
443456 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCACTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
* * *
443515 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGTGTCCCGCTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
* * * *
443574 TGAGGACTGAATGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAAGCGTCCTGCTCTT
1 TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
** * *
443633 TGAGGACTAGAAAATGCCACCAACTTGTATGGGCTTTAAAAGAAAAGGCGTCCTGCTCTT
1 TGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
** * * *
443693 TGAGGACTGGAAAATGCCACCAACTTGTGGGGGCTTTTAAAAGGAAAAGGCATCCTGCTCTT
1 TGAGGACT-GAAGGTGCCACCAACTTGTGTGGGC-TTTAAAA-GAAAAGGCGTCCCGCTCTT
443755 TGAGGACT
1 TGAGGACT
443763 AAAAAGCGGA
Statistics
Matches: 511, Mismatches: 29, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
59 401 0.78
60 77 0.15
61 7 0.01
62 26 0.05
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.25
Consensus pattern (59 bp):
TGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCGTCCCGCTCTT
Found at i:444772 original size:8 final size:8
Alignment explanation
Indices: 444744--444790 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
444734 TTCTTTTCTC
*
444744 TTTTTCTT
1 TTTTTGTT
444752 TGTTTTG-T
1 T-TTTTGTT
444760 TTTTTGTT
1 TTTTTGTT
444768 TTTTTGTT
1 TTTTTGTT
*
444776 TTTTTTTCT
1 TTTTTGT-T
444785 TTTTTG
1 TTTTTG
444791 AAGAGAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
7 5 0.15
8 18 0.55
9 10 0.30
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (8 bp):
TTTTTGTT
Found at i:444772 original size:15 final size:16
Alignment explanation
Indices: 444744--444779 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
444734 TTCTTTTCTC
444744 TTTTTCTTTGTTTTGT
1 TTTTTCTTTGTTTTGT
*
444760 TTTTTGTTT-TTTTGT
1 TTTTTCTTTGTTTTGT
444775 TTTTT
1 TTTTT
444780 TTTCTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (16 bp):
TTTTTCTTTGTTTTGT
Found at i:444775 original size:20 final size:20
Alignment explanation
Indices: 444745--444782 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
444735 TCTTTTCTCT
444745 TTTTCTTTGTTTTGTTTTTTG
1 TTTTCTTTGTTTT-TTTTTTG
444766 TTTT-TTTGTTTTTTTTT
1 TTTTCTTTGTTTTTTTTT
444783 CTTTTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 8 0.47
21 4 0.24
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.87
Consensus pattern (20 bp):
TTTTCTTTGTTTTTTTTTTG
Found at i:456576 original size:28 final size:29
Alignment explanation
Indices: 456531--456585 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
456521 GATGATTAGA
456531 AAAAAAAATCGGGATTGGAGTATCCCCTC
1 AAAAAAAATCGGGATTGGAGTATCCCCTC
* *
456560 AAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAAAATCGGGATTGGAGTATCCCC
456586 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (29 bp):
AAAAAAAATCGGGATTGGAGTATCCCCTC
Found at i:456580 original size:79 final size:79
Alignment explanation
Indices: 456482--456667 Score: 212
Period size: 79 Copynumber: 2.4 Consensus size: 79
456472 TGTTCCCTTG
* * * * * *
456482 AAAATAACGGGGCTCGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAATCGGGAT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAAACCGGGAT
456546 TGGAGTATCCCCTCA
65 TGGAGTATCCCCTCA
* * ** * * *
456561 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACCGGGATT
*
456626 GGAGTATCCCCTCG
66 GGAGTATCCCCTCA
* *
456640 GAAGTAACGGGGTTGGAGTATCCCCGAT
1 AAAATAACGGGGTTGGAGTATCCCCGAT
456668 GAAATAACGA
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 88 0.99
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAAACCGGGATT
GGAGTATCCCCTCA
Found at i:456659 original size:28 final size:28
Alignment explanation
Indices: 456619--456690 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
456609 GGAATAAAGC
** *
456619 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
456647 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
456675 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
456691 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:456682 original size:107 final size:108
Alignment explanation
Indices: 456540--456744 Score: 252
Period size: 107 Copynumber: 1.9 Consensus size: 108
456530 AAAAAAAAAT
* *
456540 CGGGATTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-
1 CGGGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* * *
456604 TTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAGTAA
66 TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
* * * * * * ***
456647 CGGGGTTGGAGTATCCCC-GATGAAATAACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTA
1 CGGGATTGGAGTATCCCCTCA-AAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATA
*
456711 TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
65 TTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
456745 GATTAAAGGA
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
106 1 0.01
107 51 0.63
108 29 0.36
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (108 bp):
CGGGATTGGAGTATCCCCTCAAAAATAACGAGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCGGAAGTAA
Found at i:456748 original size:52 final size:51
Alignment explanation
Indices: 456679--457016 Score: 225
Period size: 52 Copynumber: 6.4 Consensus size: 51
456669 AAATAACGAG
* *
456679 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGGA
** * * * *
456731 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATC-GGA
* * * * *
456783 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAATTAGGG
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAA-TCGGA
*** *** * *** * * *
456836 GTTGGAGTATCCCTTCGAAAAT-AACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCC--CGATTGTGAA--AAATTGGTGT-T-TTGGA-AATAAAATCGGA
*
456891 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTGTTTTGGAAATAAAATCGGA
* * * *
456945 GTTGGAGTATCCCCGATTATAAAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
*
456996 GTTGGAATATCCCCGATTGTG
1 GTTGGAGTATCCCCGATTGTG
457017 GAGAATTGAG
Statistics
Matches: 214, Mismatches: 55, Indels: 35
0.70 0.18 0.12
Matches are distributed among these distances:
51 38 0.18
52 73 0.34
53 42 0.20
54 28 0.13
55 27 0.13
56 1 0.00
57 3 0.01
58 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:456864 original size:213 final size:213
Alignment explanation
Indices: 456620--457018 Score: 628
Period size: 213 Copynumber: 1.9 Consensus size: 213
456610 GAATAAAGCC
* *
456620 GGGGTTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGA
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-AATAACGAGGTTGGA
*
456685 GTATCCTCGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGA
65 GTATCCCCGATTGTGAAGAAATTAGTGT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGA
* *
456747 TTA-AAGGAAAATTGGCGTTTTGAAAATAAAACCAGG-GTTGGAGTATCCCCGATTGTGGAAAAA
129 TTATAA--AAAATTAGCGTTTTGAAAATAAAACC-GGAGTTGGAATATCCCCGATTGTGGAAAAA
456810 TTAGTGTTTTAGCAATAAAATTA
191 TTAGTGTTTTAGCAATAAAATTA
* * *
456833 GGGGTTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAG
1 GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAG
456898 TATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
66 TATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
* *
456963 ATAAAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTGGA
131 ATAAAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGA
457019 GAATTGAGAA
Statistics
Matches: 171, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
212 31 0.18
213 96 0.56
214 40 0.23
215 4 0.02
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (213 bp):
GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAATAACGAGGTTGGAG
TATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATT
ATAAAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGT
GTTTTAGCAATAAAATTA
Found at i:456895 original size:27 final size:27
Alignment explanation
Indices: 456833--456907 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 27
456823 AATAAAATTA
456833 GGGGTTGGAGTATCCCTTCGA-AAATAAC
1 GGGGTTGGAGTATCCC--CGATAAATAAC
* *
456861 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATAAATAAC
456888 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
456908 TGTGAAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 3 0.07
27 25 0.57
28 16 0.36
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Done.