Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr6
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: 26303135
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.30
Warning! 1968672 characters in sequence are not A, C, G, or T
File 13 of 66
Found at i:4208122 original size:2 final size:2
Alignment explanation
Indices: 4208115--4208156 Score: 54
Period size: 2 Copynumber: 22.5 Consensus size: 2
4208105 GGTCATCTCA
*
4208115 AT AT AT AT A- AT AT A- AT AT A- 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 AT AT AT AT
4208154 AT A
1 AT A
4208157 AAGGTTCAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 32 0.91
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4214017 original size:20 final size:21
Alignment explanation
Indices: 4213976--4214018 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
4213966 CTACTCGATG
* *
4213976 AATTACAAAATTTTTTTTTGT
1 AATTACAAAATGTTTTTCTGT
4213997 AATTACAAAA-GTTTTTCTGT
1 AATTACAAAATGTTTTTCTGT
4214017 AA
1 AA
4214019 GTGCCAAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (21 bp):
AATTACAAAATGTTTTTCTGT
Found at i:4227276 original size:29 final size:29
Alignment explanation
Indices: 4227243--4227306 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
4227233 AGAAAAGAGG
** *
4227243 TGTACAAGAATGTGTACAAGAGAATAAGC
1 TGTACAAGAATAAGTACAAGAGAAGAAGC
*
4227272 TGTACGAGAATAAGTACAAGAGAAGAAGC
1 TGTACAAGAATAAGTACAAGAGAAGAAGC
4227301 TGTACA
1 TGTACA
4227307 TAAATAGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.45, C:0.11, G:0.25, T:0.19
Consensus pattern (29 bp):
TGTACAAGAATAAGTACAAGAGAAGAAGC
Found at i:4227305 original size:17 final size:17
Alignment explanation
Indices: 4227255--4227306 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
4227245 TACAAGAATG
4227255 TGTACAAGAGAATAAGC
1 TGTACAAGAGAATAAGC
4227272 TGTAC--GAGAATAA--
1 TGTACAAGAGAATAAGC
*
4227285 -GTACAAGAGAAGAAGC
1 TGTACAAGAGAATAAGC
4227301 TGTACA
1 TGTACA
4227307 TAAATAGGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
12 4 0.14
14 7 0.24
15 8 0.28
17 10 0.34
ACGTcount: A:0.46, C:0.12, G:0.25, T:0.17
Consensus pattern (17 bp):
TGTACAAGAGAATAAGC
Found at i:4227621 original size:35 final size:35
Alignment explanation
Indices: 4227589--4227705 Score: 180
Period size: 35 Copynumber: 3.3 Consensus size: 35
4227579 TCTAAGTAGT
* * *
4227589 ACTTCATTTATTCTAGTTATTCTGCGTGAAGTAAC
1 ACTTCACTTGTTCTACTTATTCTGCGTGAAGTAAC
*
4227624 GCTTCACTTGTTCTACTTATTCTGCGTGAAGTAAC
1 ACTTCACTTGTTCTACTTATTCTGCGTGAAGTAAC
* *
4227659 GCTTCACTTGTTCTACTTATTCTGCGTGAAGTAGC
1 ACTTCACTTGTTCTACTTATTCTGCGTGAAGTAAC
4227694 ACTTCACTTGTT
1 ACTTCACTTGTT
4227706 TTAGTTGTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 76 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (35 bp):
ACTTCACTTGTTCTACTTATTCTGCGTGAAGTAAC
Found at i:4227638 original size:70 final size:70
Alignment explanation
Indices: 4227564--4227716 Score: 164
Period size: 70 Copynumber: 2.2 Consensus size: 70
4227554 GCTTTACTCA
* ** * * *
4227564 TTCTAATTGTTCTAC-TCTAAGTAGTACTTCATTTATTCTAGTTATTCTGCGTGAAGTAACGCTT
1 TTCTAATTGTTCTACGT-GAAGTAACACTTCACTTATTCTACTTATTCTGCGTGAAGTAACACTT
4227628 CACTTG
65 CACTTG
* * * * * *
4227634 TTCTACTTATTCTGCGTGAAGTAACGCTTCACTTGTTCTACTTATTCTGCGTGAAGTAGCACTTC
1 TTCTAATTGTTCTACGTGAAGTAACACTTCACTTATTCTACTTATTCTGCGTGAAGTAACACTTC
4227699 ACTTG
66 ACTTG
* *
4227704 TTTTAGTTGTTCT
1 TTCTAATTGTTCT
4227717 CTGTACAATA
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
70 66 0.99
71 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (70 bp):
TTCTAATTGTTCTACGTGAAGTAACACTTCACTTATTCTACTTATTCTGCGTGAAGTAACACTTC
ACTTG
Found at i:4228061 original size:41 final size:41
Alignment explanation
Indices: 4228016--4228147 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 41
4228006 TTTTAATGTC
*
4228016 AATATCTTTTGTAATATTTGATTGATTATACAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATATAATAATATTT
** * ** * *
4228057 AATATCTTTCATAATATTTGATTGCATT-TTTTTTAAT-GTC
1 AATATCTTTTGTAATATTTGATTG-ATTATATAATAATATTT
* * *
4228097 AATATTTTTTGTAATATTTTATTGATTATGTAATAATATTT
1 AATATCTTTTGTAATATTTGATTGATTATATAATAATATTT
*
4228138 AATATTTTTT
1 AATATCTTTT
4228148 TCATAAAAAA
Statistics
Matches: 71, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
39 3 0.04
40 27 0.38
41 38 0.54
42 3 0.04
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.56
Consensus pattern (41 bp):
AATATCTTTTGTAATATTTGATTGATTATATAATAATATTT
Found at i:4228182 original size:66 final size:66
Alignment explanation
Indices: 4228104--4228232 Score: 224
Period size: 66 Copynumber: 2.0 Consensus size: 66
4228094 GTCAATATTT
* *
4228104 TTTGTAATATTTTATTGATTATGTAATAATATTTAATATTTTTTTCATAAAAAAA-TCTTGATTC
1 TTTGTAATATTTTATTGATTATGTAATAATATTGAATATCTTTTTCATAAAAAAACT-TTGATTC
4228168 TA
65 TA
4228170 TTTGTAATATTTTATTGATTATGTAATAATATTGAATATCTTTTTCATAAAAAAACTTTGATT
1 TTTGTAATATTTTATTGATTATGTAATAATATTGAATATCTTTTTCATAAAAAAACTTTGATT
4228233 TTATGTGATT
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 59 0.98
67 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (66 bp):
TTTGTAATATTTTATTGATTATGTAATAATATTGAATATCTTTTTCATAAAAAAACTTTGATTCT
A
Found at i:4229260 original size:35 final size:35
Alignment explanation
Indices: 4229214--4229298 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
4229204 TTGGGCTGCC
* * *
4229214 GCGAGCTCTTTTGAGTAGAGCTGGCGGTACATCCT
1 GCGAGCTCTTTTAAGTAGAACTCGCGGTACATCCT
* * *
4229249 GCGAGCTCTTTTAATTAGAACTCGCGGTACATACG
1 GCGAGCTCTTTTAAGTAGAACTCGCGGTACATCCT
* *
4229284 GCGAGTTCGTTTAAG
1 GCGAGCTCTTTTAAG
4229299 CAATTTTTTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (35 bp):
GCGAGCTCTTTTAAGTAGAACTCGCGGTACATCCT
Found at i:4232599 original size:26 final size:27
Alignment explanation
Indices: 4232552--4232606 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
4232542 GCCAAAAGGG
*
4232552 AACTCTCAACTTTACATCAAGGAGATT
1 AACTCTCAACTTGACATCAAGGAGATT
* *
4232579 AACTCT-AACTTGATATGAAGGAGATT
1 AACTCTCAACTTGACATCAAGGAGATT
4232605 AA
1 AA
4232607 TTCAACCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (27 bp):
AACTCTCAACTTGACATCAAGGAGATT
Found at i:4233806 original size:18 final size:17
Alignment explanation
Indices: 4233780--4233818 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
4233770 GAATAAAGTA
*
4233780 AGAAGAGAATTAAAGAG
1 AGAAAAGAATTAAAGAG
*
4233797 TAGAAAAGAATTAGAGAG
1 -AGAAAAGAATTAAAGAG
4233815 AGAA
1 AGAA
4233819 TTTAGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (17 bp):
AGAAAAGAATTAAAGAG
Found at i:4234086 original size:17 final size:17
Alignment explanation
Indices: 4234066--4234115 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
4234056 ACAAGAATAG
4234066 GTACAAGAGAAGAAGCT
1 GTACAAGAGAAGAAGCT
*
4234083 GTAC--GAGAA-TAG--
1 GTACAAGAGAAGAAGCT
4234095 GTACAAGAGAAGAAGCT
1 GTACAAGAGAAGAAGCT
4234112 GTAC
1 GTAC
4234116 GTGAATAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 4 0.15
14 7 0.27
15 7 0.27
17 8 0.31
ACGTcount: A:0.44, C:0.12, G:0.30, T:0.14
Consensus pattern (17 bp):
GTACAAGAGAAGAAGCT
Found at i:4234134 original size:29 final size:29
Alignment explanation
Indices: 4234053--4234126 Score: 130
Period size: 29 Copynumber: 2.6 Consensus size: 29
4234043 AGAAAATAGA
*
4234053 TGTACAAGAATAGGTACAAGAGAAGAAGC
1 TGTACGAGAATAGGTACAAGAGAAGAAGC
4234082 TGTACGAGAATAGGTACAAGAGAAGAAGC
1 TGTACGAGAATAGGTACAAGAGAAGAAGC
*
4234111 TGTACGTGAATAGGTA
1 TGTACGAGAATAGGTA
4234127 TACGAGAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.43, C:0.09, G:0.30, T:0.18
Consensus pattern (29 bp):
TGTACGAGAATAGGTACAAGAGAAGAAGC
Found at i:4234431 original size:35 final size:34
Alignment explanation
Indices: 4234369--4234486 Score: 100
Period size: 35 Copynumber: 3.5 Consensus size: 34
4234359 GTAATGCTTT
* * * *
4234369 ACTTATTCTAATTGTTCTACTTTAAGTAGTACTTC
1 ACTTGTTCTAATTGTTCTGCATGAAGTAG-ACTTC
*
4234404 ACTTGTTCTAGTTGTTCTGCATGAAGTA-A---C
1 ACTTGTTCTAATTGTTCTGCATGAAGTAGACTTC
* * * *
4234434 GCTTGTTCTAGTTATTCTGCGTGAAGTAGCACTTC
1 ACTTGTTCTAATTGTTCTGCATGAAGTAG-ACTTC
*
4234469 ACTTGTTTTAATTGTTCT
1 ACTTGTTCTAATTGTTCT
4234487 CTGTACAACA
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
30 26 0.39
32 1 0.02
33 1 0.02
35 38 0.58
ACGTcount: A:0.21, C:0.17, G:0.16, T:0.46
Consensus pattern (34 bp):
ACTTGTTCTAATTGTTCTGCATGAAGTAGACTTC
Found at i:4234441 original size:30 final size:30
Alignment explanation
Indices: 4234405--4234461 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
4234395 TAGTACTTCA
*
4234405 CTTGTTCTAGTTGTTCTGCATGAAGTAACG
1 CTTGTTCTAGTTATTCTGCATGAAGTAACG
*
4234435 CTTGTTCTAGTTATTCTGCGTGAAGTA
1 CTTGTTCTAGTTATTCTGCATGAAGTA
4234462 GCACTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.42
Consensus pattern (30 bp):
CTTGTTCTAGTTATTCTGCATGAAGTAACG
Found at i:4238934 original size:13 final size:13
Alignment explanation
Indices: 4238916--4238940 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4238906 AGCCTTACTT
4238916 AAATAATTTTAAA
1 AAATAATTTTAAA
4238929 AAATAATTTTAA
1 AAATAATTTTAA
4238941 TAATTTTTTT
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATAATTTTAAA
Found at i:4239047 original size:16 final size:16
Alignment explanation
Indices: 4239006--4239050 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
4238996 AATTTTGAAC
4239006 TTTTGTTTTGTTA-TA
1 TTTTGTTTTGTTATTA
*
4239021 -TTTGATGTTGTTATTA
1 TTTTG-TTTTGTTATTA
4239037 TTTTGTTTTGTTAT
1 TTTTGTTTTGTTAT
4239051 AATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 10 0.40
17 4 0.16
ACGTcount: A:0.13, C:0.00, G:0.16, T:0.71
Consensus pattern (16 bp):
TTTTGTTTTGTTATTA
Found at i:4240293 original size:12 final size:12
Alignment explanation
Indices: 4240261--4240298 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
4240251 GATTTTACAT
*
4240261 TAAAAATGATTA
1 TAAAAATAATTA
*
4240273 -AAAAGTAATTA
1 TAAAAATAATTA
4240284 TAAAAATAATTA
1 TAAAAATAATTA
4240296 TAA
1 TAA
4240299 TAAAAAAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (12 bp):
TAAAAATAATTA
Found at i:4241007 original size:34 final size:34
Alignment explanation
Indices: 4240968--4241070 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 34
4240958 ATATAATTGC
4240968 ATAATTTTATTTTTAAATAGACTAATTATATTAT
1 ATAATTTTATTTTTAAATAGACTAATTATATTAT
* **** * *
4241002 ATAATTGTAAAAGTAAA-ATA-T-A-TA-ATTAC
1 ATAATTTTATTTTTAAATAGACTAATTATATTAT
4241031 ATAATTTTATTTTTAAATAGACTAATTATATTAT
1 ATAATTTTATTTTTAAATAGACTAATTATATTAT
4241065 ATAATT
1 ATAATT
4241071 GGTGTTACAT
Statistics
Matches: 50, Mismatches: 14, Indels: 10
0.68 0.19 0.14
Matches are distributed among these distances:
29 16 0.32
30 4 0.08
31 2 0.04
32 2 0.04
33 4 0.08
34 22 0.44
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (34 bp):
ATAATTTTATTTTTAAATAGACTAATTATATTAT
Found at i:4241056 original size:29 final size:29
Alignment explanation
Indices: 4240961--4241058 Score: 72
Period size: 29 Copynumber: 3.2 Consensus size: 29
4240951 TATATTTATA
*
4240961 TAATTGCATAATTTTATTTTTAAATAGAC
1 TAATTACATAATTTTATTTTTAAATAGAC
* *** * *
4240990 TAATTATATTATATAATTGTAAAAGTAAAATATA-
1 TAATTACA-TA-AT--TT-T-ATTTTTAAATAGAC
4241024 TAATTACATAATTTTATTTTTAAATAGAC
1 TAATTACATAATTTTATTTTTAAATAGAC
4241053 TAATTA
1 TAATTA
4241059 TATTATATAA
Statistics
Matches: 49, Mismatches: 13, Indels: 14
0.64 0.17 0.18
Matches are distributed among these distances:
28 8 0.16
29 13 0.27
30 4 0.08
31 2 0.04
32 2 0.04
33 4 0.08
34 8 0.16
35 8 0.16
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
TAATTACATAATTTTATTTTTAAATAGAC
Found at i:4245500 original size:49 final size:49
Alignment explanation
Indices: 4245428--4245526 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
4245418 TTTCCAAAGA
4245428 AAGGTGAAACTTTTAGTTGAAAACCAATTCACCCCTTTTTGCTCATTGT
1 AAGGTGAAACTTTTAGTTGAAAACCAATTCACCCCTTTTTGCTCATTGT
4245477 AAGGTGAAACTTTTAGTTGAAAACCAATTCACCCCTTTTTGCTCATTGT
1 AAGGTGAAACTTTTAGTTGAAAACCAATTCACCCCTTTTTGCTCATTGT
4245526 A
1 A
4245527 TTACAAACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (49 bp):
AAGGTGAAACTTTTAGTTGAAAACCAATTCACCCCTTTTTGCTCATTGT
Found at i:4247025 original size:17 final size:17
Alignment explanation
Indices: 4246980--4247028 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
4246970 CTTATTCAAA
*
4246980 TAATCAAACTCAAATAAT
1 TAATAAAACT-AAATAAT
*
4246998 TAATTAAACTAAA-AAT
1 TAATAAAACTAAATAAT
4247014 TAAATAAAACTAAAT
1 T-AATAAAACTAAAT
4247029 CACAATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 14 0.52
18 9 0.33
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (17 bp):
TAATAAAACTAAATAAT
Found at i:4258320 original size:3 final size:3
Alignment explanation
Indices: 4258312--4258341 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4258302 AAATATGGAA
4258312 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4258342 TAAAGTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4259326 original size:30 final size:30
Alignment explanation
Indices: 4259290--4259349 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
4259280 ATGATATGCT
4259290 AATTTTTATAATTACTTTTATGTATCAAAA
1 AATTTTTATAATTACTTTTATGTATCAAAA
4259320 AATTTTTATAATTACTTTTATGTATCAAAA
1 AATTTTTATAATTACTTTTATGTATCAAAA
4259350 TAAAAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (30 bp):
AATTTTTATAATTACTTTTATGTATCAAAA
Found at i:4263426 original size:31 final size:30
Alignment explanation
Indices: 4263371--4263442 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
4263361 TATATATTTT
*
4263371 ATTTAATTTATTTTTAAAAAAATTAAAGTA
1 ATTTAATTTTTTTTTAAAAAAATTAAAGTA
** ***
4263401 ATTTAATTTTTTTATTTTAAAAATTATTTTA
1 ATTTAATTTTTTT-TTAAAAAAATTAAAGTA
4263432 ATTTAATTTTT
1 ATTTAATTTTT
4263443 AAACGGTATT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 12 0.34
31 23 0.66
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
ATTTAATTTTTTTTTAAAAAAATTAAAGTA
Found at i:4264513 original size:88 final size:88
Alignment explanation
Indices: 4264381--4264714 Score: 443
Period size: 88 Copynumber: 3.7 Consensus size: 88
4264371 CCTGTCGCTT
* * *
4264381 GACTACCCGAGCCATCTGTTCTGCACCACTGCTCGACTTTTGGACAAAAATTCCCCAAATCGGTA
1 GACTACCCGAGCCATCTGTTCTGCACCGCCGCTCGACTTCTGGACAAAAATTCCCCAAATCGGTA
4264446 AATCCCCAAATCTCTCACCGCCC
66 AATCCCCAAATCTCTCACCGCCC
* * * *
4264469 GACTACCCGAGCCATTTGTTCTGCACCGTCGCTCGACTTCTGGACAAAAATTCCCCAAATAGGCA
1 GACTACCCGAGCCATCTGTTCTGCACCGCCGCTCGACTTCTGGACAAAAATTCCCCAAATCGGTA
* * *
4264534 AATCCCCAAATCCCCCACAGCCC
66 AATCCCCAAATCTCTCACCGCCC
* * ** *
4264557 GACTGCCCGAGCCATCTGTTCTGCATCGCCGCTTTACTTCTTGACAAAAATTCCCCAAATCGGTA
1 GACTACCCGAGCCATCTGTTCTGCACCGCCGCTCGACTTCTGGACAAAAATTCCCCAAATCGGTA
*
4264622 AATCCCCAAATCTCCCGTCACCCGAGTCCT
66 AATCCCCAAATCT--C-TCA-CC--G-CCC
* *
4264652 GACTGCCCGAGCCATCTGTTCTGCACTGCCGCTCGACTTCTGGACAAAAATTCCCCAAATCGG
1 GACTACCCGAGCCATCTGTTCTGCACCGCCGCTCGACTTCTGGACAAAAATTCCCCAAATCGG
4264715 CAATCGCCTA
Statistics
Matches: 211, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
88 146 0.69
90 1 0.00
91 2 0.01
92 1 0.00
94 1 0.00
95 60 0.28
ACGTcount: A:0.25, C:0.37, G:0.16, T:0.22
Consensus pattern (88 bp):
GACTACCCGAGCCATCTGTTCTGCACCGCCGCTCGACTTCTGGACAAAAATTCCCCAAATCGGTA
AATCCCCAAATCTCTCACCGCCC
Found at i:4268967 original size:31 final size:31
Alignment explanation
Indices: 4268898--4268970 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
4268888 TGCCCAAATC
* *
4268898 TTAATTTTAAATTTTGTTTTGTTATATTTGA
1 TTAATTTTAAATCTTGTTTTGTTATAATTGA
* *
4268929 -TATTTTTATTATCTTGTTTTGTTATAATT-A
1 TTAATTTTA-AATCTTGTTTTGTTATAATTGA
4268959 TTAATTTTAAAT
1 TTAATTTTAAAT
4268971 TTAAATAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.27, C:0.01, G:0.07, T:0.64
Consensus pattern (31 bp):
TTAATTTTAAATCTTGTTTTGTTATAATTGA
Found at i:4278892 original size:47 final size:46
Alignment explanation
Indices: 4278836--4278994 Score: 164
Period size: 47 Copynumber: 3.3 Consensus size: 46
4278826 TCAATTATAA
*
4278836 AAATT-AAAATAAAATTTTAA-TACAAATTATAAAAACTAATATTTT
1 AAATTAAAAATAAAATTTTAATTA-AAATTATAAAAATTAATATTTT
* **
4278881 AAATTTAAAAATTAAATTAAAATTAAAATTATAAAAATTAA-ATTTT
1 AAA-TTAAAAATAAAATTTTAATTAAAATTATAAAAATTAATATTTT
*
4278927 AAAAATT-AAATTAAAATTTTAATTATAAATTATAAAATATTAATATTTTT
1 --AAATTAAAAATAAAATTTTAATTA-AAATTATAAAA-ATTAATA-TTTT
4278977 AAGATTAAAGAATAAAAT
1 AA-ATTAAA-AATAAAAT
4278995 AAAAATAATG
Statistics
Matches: 93, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
45 3 0.03
46 21 0.23
47 40 0.43
48 12 0.13
49 4 0.04
50 6 0.06
51 7 0.08
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (46 bp):
AAATTAAAAATAAAATTTTAATTAAAATTATAAAAATTAATATTTT
Found at i:4278923 original size:14 final size:13
Alignment explanation
Indices: 4278879--4278942 Score: 80
Period size: 14 Copynumber: 4.9 Consensus size: 13
4278869 AACTAATATT
4278879 TTAAATTTAAAAA
1 TTAAATTTAAAAA
4278892 TTAAA-TT-AAAA
1 TTAAATTTAAAAA
4278903 TTAAAATTATAAAAA
1 TT-AAATT-TAAAAA
4278918 TTAAATTTTAAAAA
1 TTAAA-TTTAAAAA
4278932 TTAAA-TTAAAA
1 TTAAATTTAAAA
4278943 TTTTAATTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.13
12 11 0.24
13 6 0.13
14 15 0.33
15 8 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAATTTAAAAA
Found at i:4278936 original size:40 final size:39
Alignment explanation
Indices: 4278879--4278955 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 39
4278869 AACTAATATT
4278879 TTAAATTTAAAAATTAAATTAAAATTAAAATTATAAAAA
1 TTAAATTTAAAAATTAAATTAAAATTAAAATTATAAAAA
**
4278918 TTAAATTTTAAAAATTAAATTAAAATTTTAATTATAAA
1 TTAAA-TTTAAAAATTAAATTAAAATTAAAATTATAAA
4278956 TTATAAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 5 0.14
40 30 0.86
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (39 bp):
TTAAATTTAAAAATTAAATTAAAATTAAAATTATAAAAA
Found at i:4278969 original size:34 final size:34
Alignment explanation
Indices: 4278894--4278969 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
4278884 TTTAAAAATT
*
4278894 AAATTAAAATTAAAATTATAAAAATTAAATTTTAA
1 AAATT-AAATTAAAATTATAAAAATTAAATTATAA
* **
4278929 AAATTAAATTAAAATTTTAATTA-TAAATTATAA
1 AAATTAAATTAAAATTATAAAAATTAAATTATAA
4278962 AATATTAA
1 AA-ATTAA
4278970 TATTTTTAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 11 0.31
34 20 0.56
35 5 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (34 bp):
AAATTAAATTAAAATTATAAAAATTAAATTATAA
Found at i:4279100 original size:24 final size:23
Alignment explanation
Indices: 4279059--4279120 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 23
4279049 ATTTATGTTC
* *
4279059 TAAAAATTAAAATAAACAATCATAT
1 TAAAATTTTAAAT-AACAAT-ATAT
*
4279084 TAAAATTTTAAATAACAATTTAT
1 TAAAATTTTAAATAACAATATAT
*
4279107 TAATATTTTAAATA
1 TAAAATTTTAAATA
4279121 GGGATTAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 16 0.48
24 6 0.18
25 11 0.33
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (23 bp):
TAAAATTTTAAATAACAATATAT
Found at i:4280437 original size:2 final size:2
Alignment explanation
Indices: 4280430--4280469 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
4280420 AAAGAAATCA
* * *
4280430 AT AT AT AT AT AT AT AT AT AT TT AT AT AT TT AT AT CT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4280470 CTGCGGAGGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:4285687 original size:35 final size:35
Alignment explanation
Indices: 4285623--4285693 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
4285613 TTAGTTGTTG
* * * *
4285623 GGTTTTGATTGATCCTGGTAAAAATCATTGTGAAA
1 GGTTTTGACTGAGCCTGGTAAAAACCATTGTAAAA
* *
4285658 GGTTTTGACTGAGCTTGGTAAAAGCCATTGTAAAA
1 GGTTTTGACTGAGCCTGGTAAAAACCATTGTAAAA
4285693 G
1 G
4285694 CTTGGTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
GGTTTTGACTGAGCCTGGTAAAAACCATTGTAAAA
Found at i:4286074 original size:21 final size:24
Alignment explanation
Indices: 4286036--4286079 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 24
4286026 AAATATTGGT
4286036 ATAACATGAAGCACATAAAGATAA
1 ATAACATGAAGCACATAAAGATAA
4286060 ATAA-ATG-AGCA-ATAAAGATA
1 ATAACATGAAGCACATAAAGATA
4286080 CATTACCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 3 0.15
24 4 0.20
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.18
Consensus pattern (24 bp):
ATAACATGAAGCACATAAAGATAA
Found at i:4286680 original size:18 final size:18
Alignment explanation
Indices: 4286653--4286691 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4286643 ACACGATTAA
*
4286653 TAACACGTTTAACATGAT
1 TAACACGTTTAACACGAT
*
4286671 TAACATGTTTAACACGAT
1 TAACACGTTTAACACGAT
4286689 TAA
1 TAA
4286692 ATAAAAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
TAACACGTTTAACACGAT
Found at i:4286883 original size:33 final size:34
Alignment explanation
Indices: 4286843--4286913 Score: 85
Period size: 33 Copynumber: 2.1 Consensus size: 34
4286833 AAAAAACTTA
4286843 TTAAAATAATTATTTAA-AATT-ATTTAT-ATAAGG
1 TTAAAATAATT-TTTAACAATTAATTTATAAT-AGG
* *
4286876 TTAAAATAGTTTTTAACTATTAATTTATAATAGG
1 TTAAAATAATTTTTAACAATTAATTTATAATAGG
4286910 TTAA
1 TTAA
4286914 TAAATATGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
32 5 0.15
33 13 0.39
34 13 0.39
35 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.07, T:0.46
Consensus pattern (34 bp):
TTAAAATAATTTTTAACAATTAATTTATAATAGG
Found at i:4286957 original size:18 final size:18
Alignment explanation
Indices: 4286930--4286975 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
4286920 TGTCACGTAT
*
4286930 ACACGTTTAAACACAATA
1 ACACGATTAAACACAATA
* *
4286948 ACACGATTAAATACGATA
1 ACACGATTAAACACAATA
*
4286966 ACACAATTAA
1 ACACGATTAA
4286976 GTAAACGTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.52, C:0.20, G:0.07, T:0.22
Consensus pattern (18 bp):
ACACGATTAAACACAATA
Found at i:4287557 original size:29 final size:29
Alignment explanation
Indices: 4287524--4287579 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4287514 TTTAAATTTG
* *
4287524 ATAATTATAAAAACAATTATAATAAAAAA
1 ATAATAATAAAAACAAATATAATAAAAAA
* *
4287553 ATAATAATAACATCAAATATAATAAAA
1 ATAATAATAAAAACAAATATAATAAAA
4287580 TTTAATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (29 bp):
ATAATAATAAAAACAAATATAATAAAAAA
Found at i:4287559 original size:14 final size:15
Alignment explanation
Indices: 4287524--4287562 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4287514 TTTAAATTTG
*
4287524 ATAATTATAAAAACA
1 ATAATAATAAAAACA
*
4287539 ATTATAATAAAAA-A
1 ATAATAATAAAAACA
4287553 ATAATAATAA
1 ATAATAATAA
4287563 CATCAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAATAATAAAAACA
Found at i:4287679 original size:13 final size:13
Alignment explanation
Indices: 4287661--4287685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4287651 ATATCTAAAA
4287661 TCATCCATAATTT
1 TCATCCATAATTT
4287674 TCATCCATAATT
1 TCATCCATAATT
4287686 AAATACATAT
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:0.24, G:0.00, T:0.44
Consensus pattern (13 bp):
TCATCCATAATTT
Found at i:4287791 original size:13 final size:13
Alignment explanation
Indices: 4287773--4287797 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4287763 ATATCTAAAA
4287773 TCATCCATAATTT
1 TCATCCATAATTT
4287786 TCATCCATAATT
1 TCATCCATAATT
4287798 ACCTTATTAT
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:0.24, G:0.00, T:0.44
Consensus pattern (13 bp):
TCATCCATAATTT
Found at i:4288463 original size:22 final size:23
Alignment explanation
Indices: 4288431--4288476 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4288421 ATATAGAGTT
4288431 ATTTAGACTTA-ATTTTGATAGTA
1 ATTTAGACTTAGATTTTGA-AGTA
*
4288454 ATTTA-ACTTAGTTTTTGAAGTA
1 ATTTAGACTTAGATTTTGAAGTA
4288476 A
1 A
4288477 CACATAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
ATTTAGACTTAGATTTTGAAGTA
Found at i:4289221 original size:18 final size:18
Alignment explanation
Indices: 4289198--4289241 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4289188 AAGATTGCAA
*
4289198 TTTTTGGGATTTTTTATT
1 TTTTTGGGATTCTTTATT
**
4289216 TTTTTGTTATTCTTTATT
1 TTTTTGGGATTCTTTATT
4289234 TTTCTTGG
1 TTT-TTGG
4289242 TTTGGTTTCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.09, C:0.05, G:0.14, T:0.73
Consensus pattern (18 bp):
TTTTTGGGATTCTTTATT
Found at i:4290896 original size:38 final size:38
Alignment explanation
Indices: 4290853--4290955 Score: 100
Period size: 38 Copynumber: 2.7 Consensus size: 38
4290843 TTACATTGAC
* * *
4290853 AATGGTACAATTCCCA-CAGTCTAGGATAGCTCTTGGAT
1 AATGGTAAAATCCCCATCA-TCTAGGATAGCTCTTGAAT
* * *
4290891 AATGGTAAAATCCCCATTATCTAGGATGGCTTTTGAAT
1 AATGGTAAAATCCCCATCATCTAGGATAGCTCTTGAAT
* * * *
4290929 AATGTTATAATCCACATTATCTAGGAT
1 AATGGTAAAATCCCCATCATCTAGGAT
4290956 GTTGATTAAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 54 0.98
39 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (38 bp):
AATGGTAAAATCCCCATCATCTAGGATAGCTCTTGAAT
Found at i:4290956 original size:38 final size:38
Alignment explanation
Indices: 4290872--4290956 Score: 116
Period size: 38 Copynumber: 2.2 Consensus size: 38
4290862 ATTCCCACAG
* * *
4290872 TCTAGGATAGCTCTTGGATAATGGTAAAATCCCCATTA
1 TCTAGGATGGCTCTTGAATAATGGTAAAATCCACATTA
* * *
4290910 TCTAGGATGGCTTTTGAATAATGTTATAATCCACATTA
1 TCTAGGATGGCTCTTGAATAATGGTAAAATCCACATTA
4290948 TCTAGGATG
1 TCTAGGATG
4290957 TTGATTAAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (38 bp):
TCTAGGATGGCTCTTGAATAATGGTAAAATCCACATTA
Found at i:4291131 original size:16 final size:16
Alignment explanation
Indices: 4291110--4291140 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4291100 TTCAACATCA
4291110 TCATACTCATATCAAT
1 TCATACTCATATCAAT
4291126 TCATACTCATATCAA
1 TCATACTCATATCAA
4291141 ACATGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
TCATACTCATATCAAT
Found at i:4314660 original size:34 final size:34
Alignment explanation
Indices: 4314617--4314683 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
4314607 GAATTAACTT
4314617 ACGACAAAATCACTCACTTACAGCAGACTTTCCA
1 ACGACAAAATCACTCACTTACAGCAGACTTTCCA
4314651 ACGACAAAATCACTCACTTACAGCAGACTTTCC
1 ACGACAAAATCACTCACTTACAGCAGACTTTCC
4314684 TTCAGTTCAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.37, C:0.33, G:0.09, T:0.21
Consensus pattern (34 bp):
ACGACAAAATCACTCACTTACAGCAGACTTTCCA
Found at i:4319809 original size:2 final size:2
Alignment explanation
Indices: 4319759--4319790 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4319749 TACAGTTTTT
4319759 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4319791 AATGGATCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4320916 original size:17 final size:17
Alignment explanation
Indices: 4320894--4320928 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4320884 TAGTTGAACA
4320894 ACTTTTTTAAATATTAT
1 ACTTTTTTAAATATTAT
* *
4320911 ACTTTTTTTAATTTTAT
1 ACTTTTTTAAATATTAT
4320928 A
1 A
4320929 AAGATTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (17 bp):
ACTTTTTTAAATATTAT
Found at i:4322232 original size:24 final size:25
Alignment explanation
Indices: 4322161--4322241 Score: 65
Period size: 25 Copynumber: 3.1 Consensus size: 25
4322151 TTATTAAATT
*
4322161 AATAATTTTAATTTATAAATTAAATCATAA
1 AATAATTTT-A-TTATAAA-AAAAT-A-AA
**
4322191 AATAATTTTATTATAAAATTATAAA
1 AATAATTTTATTATAAAAAAATAAA
* *
4322216 AATGATTTTTTTA-AAAAAAATAAA
1 AATAATTTTATTATAAAAAAATAAA
4322240 AA
1 AA
4322242 ATGAGTTGAC
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
24 11 0.25
25 13 0.30
26 1 0.02
27 2 0.05
28 7 0.16
29 1 0.02
30 9 0.20
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (25 bp):
AATAATTTTATTATAAAAAAATAAA
Found at i:4324604 original size:30 final size:30
Alignment explanation
Indices: 4324539--4324614 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
4324529 CCTTTTTTTT
* *
4324539 ATTTATTAATATTT-TTAATAAATATCTTTG
1 ATTTATTCAT-TTTGTTAATAAACATCTTTG
4324569 ATTTATTCATTTTGTTAATAAACAT-TTTCG
1 ATTTATTCATTTTGTTAATAAACATCTTT-G
* *
4324599 GTTTATTCAATTTGTT
1 ATTTATTCATTTTGTT
4324615 CTTTTCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
29 6 0.15
30 34 0.85
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (30 bp):
ATTTATTCATTTTGTTAATAAACATCTTTG
Found at i:4333227 original size:65 final size:60
Alignment explanation
Indices: 4333076--4333240 Score: 152
Period size: 62 Copynumber: 2.6 Consensus size: 60
4333066 ATACATTCAA
* * ** *
4333076 GACAAAAACCATTTTGTGCTAAAAGTATCGATACCCAACATGAAAGTCTGGATACCTTTTT
1 GACAAAAACCATTCTGT-CTAAAAGTATCGATACCCAACATGAAAGTATCAATACCTTTTG
* * * *
4333137 AAGCAGAAACCATTCTATTTAAAAAGTATCGATAACCCAACGA-GAAAGTAATATCAATACCTTT
1 GA-CAAAAACCATTCTGTCT-AAAAGTATCGAT-ACCCAAC-ATGAAAG---TATCAATACCTTT
4333201 TG
59 TG
*
4333203 GACAAAAACCATTCTGTCCTAAAAGTATTGATACCCAA
1 GACAAAAACCATTCTGT-CTAAAAGTATCGATACCCAA
4333241 AAAGATGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
61 2 0.02
62 24 0.29
63 12 0.15
64 7 0.09
65 24 0.29
66 13 0.16
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (60 bp):
GACAAAAACCATTCTGTCTAAAAGTATCGATACCCAACATGAAAGTATCAATACCTTTTG
Found at i:4334910 original size:21 final size:20
Alignment explanation
Indices: 4334852--4334908 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
4334842 AATTTAAATT
* *
4334852 ATTTTATTTTAGTTTGATGGTA
1 ATTTGATTTTAGTTT-A-GTTA
4334874 ATTTGATTTTAGTTTAGTTA
1 ATTTGATTTTAGTTTAGTTA
4334894 ATATTGATTTT-GTTT
1 AT-TTGATTTTAGTTT
4334909 TACGCTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.28
21 9 0.28
22 14 0.44
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (20 bp):
ATTTGATTTTAGTTTAGTTA
Found at i:4349675 original size:64 final size:64
Alignment explanation
Indices: 4349590--4349743 Score: 200
Period size: 64 Copynumber: 2.4 Consensus size: 64
4349580 CATCCTACTG
* * * * *
4349590 TTGTTACACACCAATGCATGAATCACCTCAGCATTAGTTGTTACATGCTAAGAAATGAATCACT
1 TTGTTACACACCAAGGCATGAATCACCTCAGCAGTAATTGTTACACGCTAAGAAATAAATCACT
* * * * **
4349654 TTGTTACACTCCAAGGCATGAATCACTTCAGTAGTAATTGTTACACGTTAAGGCATAAATCACT
1 TTGTTACACACCAAGGCATGAATCACCTCAGCAGTAATTGTTACACGCTAAGAAATAAATCACT
*
4349718 TTATTACACACCAAGGCATGAATCAC
1 TTGTTACACACCAAGGCATGAATCAC
4349744 TTTGTTACAC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 77 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.29
Consensus pattern (64 bp):
TTGTTACACACCAAGGCATGAATCACCTCAGCAGTAATTGTTACACGCTAAGAAATAAATCACT
Found at i:4349733 original size:27 final size:27
Alignment explanation
Indices: 4349703--4349763 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
4349693 GTTACACGTT
4349703 AAGGCATAAATCACTTTATTACACACC
1 AAGGCATAAATCACTTTATTACACACC
* * **
4349730 AAGGCATGAATCACTTTGTTACACGTC
1 AAGGCATAAATCACTTTATTACACACC
4349757 AAGGCAT
1 AAGGCAT
4349764 CTTTTACCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (27 bp):
AAGGCATAAATCACTTTATTACACACC
Found at i:4350371 original size:58 final size:58
Alignment explanation
Indices: 4350302--4350418 Score: 207
Period size: 58 Copynumber: 2.0 Consensus size: 58
4350292 GGGTAATTAG
*
4350302 AGGTACAACATTTGGGCTGAGATTTGTTTCATGGTGTGTTCCTAAAAATTGCATTTAA
1 AGGTACAACATTTGGGCTGAAATTTGTTTCATGGTGTGTTCCTAAAAATTGCATTTAA
* *
4350360 AGGTACAACATTTGGGTTGAAATTTGTTTCATGGTGTGTTCCTAAAAGTTGCATTTAA
1 AGGTACAACATTTGGGCTGAAATTTGTTTCATGGTGTGTTCCTAAAAATTGCATTTAA
4350418 A
1 A
4350419 ATTTTGTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.38
Consensus pattern (58 bp):
AGGTACAACATTTGGGCTGAAATTTGTTTCATGGTGTGTTCCTAAAAATTGCATTTAA
Found at i:4359177 original size:18 final size:17
Alignment explanation
Indices: 4359154--4359188 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4359144 CGAATTAAAA
4359154 AATATTTTAATTTATAAT
1 AATATTTTAATTT-TAAT
4359172 AATATTTTAATTTTAAT
1 AATATTTTAATTTTAAT
4359189 CATAATGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
AATATTTTAATTTTAAT
Found at i:4367736 original size:12 final size:12
Alignment explanation
Indices: 4367719--4367744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4367709 ATTCGTCTCA
4367719 TGCTTCTTCAAC
1 TGCTTCTTCAAC
4367731 TGCTTCTTCAAC
1 TGCTTCTTCAAC
4367743 TG
1 TG
4367745 TCGAGAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.31, G:0.12, T:0.42
Consensus pattern (12 bp):
TGCTTCTTCAAC
Found at i:4370767 original size:5 final size:5
Alignment explanation
Indices: 4370748--4370782 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
4370738 CTATTCAACC
* *
4370748 TAACC TAACT TAACT TAACT TAATT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT
4370783 AGAGGCCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TAACT
Found at i:4378579 original size:15 final size:17
Alignment explanation
Indices: 4378542--4378582 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
4378532 AAATCCTTAT
4378542 ATTTTATAAGTAAAATG
1 ATTTTATAAGTAAAATG
4378559 -TGTTTA-AA-TAAAATG
1 AT-TTTATAAGTAAAATG
4378574 ATTTTATAA
1 ATTTTATAA
4378583 ATTGTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
15 11 0.52
16 6 0.29
17 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (17 bp):
ATTTTATAAGTAAAATG
Found at i:4380687 original size:43 final size:43
Alignment explanation
Indices: 4380621--4380709 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
4380611 GTCTATTAGG
* *
4380621 ACTAGGGTGCCTTTGATATATTTGATACATTTTTTCCTATCGA
1 ACTAGGGTGCCTTTGATAGATTTGATACATTTTTTCCTATCCA
*
4380664 ACTAGGGTGTCTTTGATAGATTTGATACATTTTTTCCTATCCA
1 ACTAGGGTGCCTTTGATAGATTTGATACATTTTTTCCTATCCA
4380707 ACT
1 ACT
4380710 TGTATCCCAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.44
Consensus pattern (43 bp):
ACTAGGGTGCCTTTGATAGATTTGATACATTTTTTCCTATCCA
Found at i:4385542 original size:16 final size:16
Alignment explanation
Indices: 4385521--4385553 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
4385511 TTATGATAAC
4385521 AACTATAAGATAAGTG
1 AACTATAAGATAAGTG
4385537 AACTATAAGATAAGTG
1 AACTATAAGATAAGTG
4385553 A
1 A
4385554 CCTTTCTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.18, T:0.24
Consensus pattern (16 bp):
AACTATAAGATAAGTG
Found at i:4400760 original size:15 final size:15
Alignment explanation
Indices: 4400730--4400767 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
4400720 AAACTTTATC
4400730 AAGAAAAACCTAATG
1 AAGAAAAACCTAATG
*
4400745 AA-AAAAACCTTGATG
1 AAGAAAAACC-TAATG
4400760 AAGAAAAA
1 AAGAAAAA
4400768 GAGTATAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 7 0.35
15 8 0.40
16 5 0.25
ACGTcount: A:0.63, C:0.11, G:0.13, T:0.13
Consensus pattern (15 bp):
AAGAAAAACCTAATG
Found at i:4404497 original size:62 final size:64
Alignment explanation
Indices: 4404377--4404503 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 64
4404367 ATTTCATTCT
* * *
4404377 TGGATATTTCCATTATCAATCAAATTATCAATTACTCTTTCATGGTGGATAAGAAAATCAACAA
1 TGGATATTTCCATTATCAATCAAATGATCAATTACTCTTTCAAGGTGGACAAGAAAATCAACAA
* *
4404441 TGGATA-TTCCATTA-CTAATCATATGATCAATTCCT-TTTCAAGGTGGACAAGAAAATCAACAA
1 TGGATATTTCCATTATC-AATCAAATGATCAATTACTCTTTCAAGGTGGACAAGAAAATCAACAA
4404503 T
1 T
4404504 ATCTTGATGT
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
62 27 0.47
63 24 0.42
64 6 0.11
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.33
Consensus pattern (64 bp):
TGGATATTTCCATTATCAATCAAATGATCAATTACTCTTTCAAGGTGGACAAGAAAATCAACAA
Found at i:4406920 original size:41 final size:41
Alignment explanation
Indices: 4406861--4406946 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
4406851 TCTTAGCTGA
*
4406861 CTTTTAATTATATATATATATATATTAGTTTGTTACTGTTC
1 CTTTTAATTATATATATATATATATTAGTTTATTACTGTTC
* *
4406902 CTTTTCATTATATGTATATATATATTAGTTTATTACTGTTC
1 CTTTTAATTATATATATATATATATTAGTTTATTACTGTTC
4406943 CTTT
1 CTTT
4406947 CAGCTTTTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.27, C:0.09, G:0.07, T:0.57
Consensus pattern (41 bp):
CTTTTAATTATATATATATATATATTAGTTTATTACTGTTC
Found at i:4408355 original size:63 final size:63
Alignment explanation
Indices: 4408255--4408380 Score: 225
Period size: 63 Copynumber: 2.0 Consensus size: 63
4408245 CTATTGTAGG
*
4408255 CCGTCCTGCATAAAAGTCCAACATTTTGAGATTGAGGGAACATACTTTGCTGTGTTGAGTGTA
1 CCGTCCTGCATAAAAGTCCAACATTTTGAGATCGAGGGAACATACTTTGCTGTGTTGAGTGTA
* *
4408318 CCGTCCTGCATAAAAGTCCCACATTTTGAGATCGAGGGAACATACTTTTCTGTGTTGAGTGTA
1 CCGTCCTGCATAAAAGTCCAACATTTTGAGATCGAGGGAACATACTTTGCTGTGTTGAGTGTA
4408381 AGTTAATCAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (63 bp):
CCGTCCTGCATAAAAGTCCAACATTTTGAGATCGAGGGAACATACTTTGCTGTGTTGAGTGTA
Found at i:4415248 original size:2 final size:2
Alignment explanation
Indices: 4415241--4415277 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
4415231 GGTGAAGTTA
4415241 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4415278 GAGGAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4417525 original size:18 final size:21
Alignment explanation
Indices: 4417483--4417525 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 21
4417473 CCCCTTAAAA
4417483 AATTTTTATAACAACTTTTAT
1 AATTTTTATAACAACTTTTAT
4417504 --TTTTTA-AA-AA-TTTTAT
1 AATTTTTATAACAACTTTTAT
4417520 AATTTT
1 AATTTT
4417526 GCCCCTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
16 6 0.30
17 2 0.10
18 6 0.30
19 6 0.30
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (21 bp):
AATTTTTATAACAACTTTTAT
Found at i:4417590 original size:52 final size:54
Alignment explanation
Indices: 4417496--4417596 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 54
4417486 TTTTATAACA
* *
4417496 ACTTTTATTTTTTAAAAATTTTATAATTTTGCCCCTATAATAAGTTTATCGCAT
1 ACTTTTATTTTTTAAAAATTTTATAATTTTACCCCTACAATAAGTTTATCGCAT
* * *
4417550 ACTTTTA-TTTTT-AGAATTTTATAATTTTACTCCTACAATAATTTTAT
1 ACTTTTATTTTTTAAAAATTTTATAATTTTACCCCTACAATAAGTTTAT
4417597 AATTTTACCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 30 0.71
53 5 0.12
54 7 0.17
ACGTcount: A:0.32, C:0.12, G:0.04, T:0.52
Consensus pattern (54 bp):
ACTTTTATTTTTTAAAAATTTTATAATTTTACCCCTACAATAAGTTTATCGCAT
Found at i:4417643 original size:20 final size:21
Alignment explanation
Indices: 4417590--4417644 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
4417580 TCCTACAATA
*
4417590 ATTTTATAA-TTTTACCACTT
1 ATTTTCTAATTTTTACCACTT
4417610 ATTTTCTAATTTTTACC-CTT
1 ATTTTCTAATTTTTACCACTT
4417630 ATTTTCTAATTTTTA
1 ATTTTCTAATTTTTA
4417645 TAACATACTA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTCTAATTTTTACCACTT
Found at i:4423982 original size:21 final size:21
Alignment explanation
Indices: 4423956--4423997 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4423946 TAAGGGTTTT
*
4423956 TAGTTGGTGAAATTTGTATGA
1 TAGTTGGTGAAACTTGTATGA
4423977 TAGTTGGTGAAACTTGTATGA
1 TAGTTGGTGAAACTTGTATGA
4423998 CAGGTGTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.40
Consensus pattern (21 bp):
TAGTTGGTGAAACTTGTATGA
Found at i:4428987 original size:20 final size:21
Alignment explanation
Indices: 4428955--4429011 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
4428945 AAATATATAT
4428955 AATTAATAAATAAAAAGGT-GA
1 AATTAA-AAATAAAAAGGTAGA
*
4428976 AATTAAAAATAAAAA-TTAAGA
1 AATTAAAAATAAAAAGGT-AGA
4428997 AATTAAAAA-AAAAAG
1 AATTAAAAATAAAAAG
4429012 AAAAGTAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.03
20 14 0.44
21 17 0.53
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (21 bp):
AATTAAAAATAAAAAGGTAGA
Found at i:4429004 original size:35 final size:35
Alignment explanation
Indices: 4428939--4429005 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
4428929 TACATCCTGC
* * *
4428939 GAAATTAAATATATATAATTAATAAATAAAAAGGT
1 GAAATTAAAAATATAAAATTAAGAAATAAAAAGGT
4428974 GAAATTAAAAATA-AAAATTAAGAAATTAAAAA
1 GAAATTAAAAATATAAAATTAAGAAA-TAAAAA
4429006 AAAAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 10 0.36
35 18 0.64
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (35 bp):
GAAATTAAAAATATAAAATTAAGAAATAAAAAGGT
Found at i:4439715 original size:23 final size:23
Alignment explanation
Indices: 4439679--4439724 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
4439669 AAGCAGTTGT
* *
4439679 AATCAAAGGTAGCAGTAACGAGA
1 AATCAAAAGCAGCAGTAACGAGA
*
4439702 AATCAAAAGCAGCAGTAATGAGA
1 AATCAAAAGCAGCAGTAACGAGA
4439725 TTATGCATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.24, T:0.13
Consensus pattern (23 bp):
AATCAAAAGCAGCAGTAACGAGA
Found at i:4439973 original size:20 final size:22
Alignment explanation
Indices: 4439948--4439988 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
4439938 GCAAATAGGC
4439948 TCAGC-AACAAG-ACTCTACAA
1 TCAGCAAACAAGAACTCTACAA
4439968 TCAGCAAAACAAGAACTCTAC
1 TCAGC-AAACAAGAACTCTAC
4439989 GCTCGGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.46, C:0.29, G:0.10, T:0.15
Consensus pattern (22 bp):
TCAGCAAACAAGAACTCTACAA
Found at i:4440095 original size:22 final size:23
Alignment explanation
Indices: 4440068--4440113 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
4440058 GATTAGCAGC
* *
4440068 AACAAGG-CTCTACGCTCGGCAA
1 AACAAGGACTATACGCTCGACAA
4440090 AACAAGGACTATACGCTCGACAA
1 AACAAGGACTATACGCTCGACAA
4440113 A
1 A
4440114 TAGGCTCAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.39, C:0.28, G:0.20, T:0.13
Consensus pattern (23 bp):
AACAAGGACTATACGCTCGACAA
Found at i:4440153 original size:115 final size:114
Alignment explanation
Indices: 4439949--4440160 Score: 271
Period size: 115 Copynumber: 1.9 Consensus size: 114
4439939 CAAATAGGCT
* * *
4439949 CAGCAACAAGACTCTACAATCAGCAAAACAAGAACTCTACGCTCGGCAAATAGGCTTAGCAACAA
1 CAGCAACAAGACTCTACAATCAGCAAAACAAGAACTATACGCTCGACAAATAGGCTCAGCAACAA
* * *
4440014 GATCCCCTCCAAGCACTTATCGAAAAAAGTGAGCAAGGCACATAGATTAG
66 GATCCCCTCCAAGAACTCACCG-AAAAAGTGAGCAAGGCACATAGATTAG
* ** * * * *
4440064 CAGCAACAAGGCTCTACGCTCGGCAAAACAAGGACTATACGCTCGACAAATAGGCTCAGTAATAA
1 CAGCAACAAGACTCTACAATCAGCAAAACAAGAACTATACGCTCGACAAATAGGCTCAGCAACAA
***
4440129 GATCTGGTCCAAGAACTCACCGAAAAAGTGAG
66 GATCCCCTCCAAGAACTCACCGAAAAAGTGAG
4440161 TGCAGACACC
Statistics
Matches: 81, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
114 10 0.12
115 71 0.88
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (114 bp):
CAGCAACAAGACTCTACAATCAGCAAAACAAGAACTATACGCTCGACAAATAGGCTCAGCAACAA
GATCCCCTCCAAGAACTCACCGAAAAAGTGAGCAAGGCACATAGATTAG
Found at i:4446121 original size:38 final size:38
Alignment explanation
Indices: 4446070--4446173 Score: 154
Period size: 38 Copynumber: 2.7 Consensus size: 38
4446060 CACACCCAAG
* *
4446070 TCATGTGCATCCCCCAACATTGTGCACAATCAATGCCA
1 TCATGTACATCCCCCCACATTGTGCACAATCAATGCCA
* * *
4446108 TCATGTACATCCCCCCGCATTGTGCACAGTCAGTGCCA
1 TCATGTACATCCCCCCACATTGTGCACAATCAATGCCA
*
4446146 TCATGTACATCCCCCCACATCGTGCACA
1 TCATGTACATCCCCCCACATTGTGCACA
4446174 CACACGGTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.25, C:0.38, G:0.14, T:0.23
Consensus pattern (38 bp):
TCATGTACATCCCCCCACATTGTGCACAATCAATGCCA
Found at i:4447066 original size:19 final size:19
Alignment explanation
Indices: 4447018--4447067 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
4447008 GATGGAAGAA
*
4447018 GGAAGAAGAAGAAGTTGCT
1 GGAAGAAGAAGAAGCTGCT
*
4447037 GGAA-ATTGAAGAAGCTGCT
1 GGAAGA-AGAAGAAGCTGCT
*
4447056 GGAAGGAGAAGA
1 GGAAGAAGAAGA
4447068 TATTTATAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.42, C:0.06, G:0.38, T:0.14
Consensus pattern (19 bp):
GGAAGAAGAAGAAGCTGCT
Found at i:4452927 original size:2 final size:2
Alignment explanation
Indices: 4452920--4452953 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
4452910 AGTTGCAACG
4452920 GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
4452954 TATGATTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4454192 original size:20 final size:20
Alignment explanation
Indices: 4454165--4454215 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4454155 GCATTGAGTC
*
4454165 ACTGGATATTAAGGTGTGTG
1 ACTGGATATTAAGGTGTGTA
* * *
4454185 ATTGGATATGAGGGTGTGTA
1 ACTGGATATTAAGGTGTGTA
4454205 ACTGGATATTA
1 ACTGGATATTA
4454216 GGAATCGTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.04, G:0.33, T:0.35
Consensus pattern (20 bp):
ACTGGATATTAAGGTGTGTA
Found at i:4454451 original size:15 final size:15
Alignment explanation
Indices: 4454431--4454462 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
4454421 GTGACAGGAG
4454431 TTACGTGACTGAATA
1 TTACGTGACTGAATA
4454446 TTACGTGACTGAATA
1 TTACGTGACTGAATA
4454461 TT
1 TT
4454463 TGTTGAGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (15 bp):
TTACGTGACTGAATA
Found at i:4454501 original size:22 final size:23
Alignment explanation
Indices: 4454459--4454502 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
4454449 CGTGACTGAA
*
4454459 TATTTGTTGAGCATTGCGTGACC
1 TATTTGTAGAGCATTGCGTGACC
*
4454482 TATTTGTAG-GCATTGTGTGAC
1 TATTTGTAGAGCATTGCGTGAC
4454503 TTTAGCTACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.18, C:0.14, G:0.27, T:0.41
Consensus pattern (23 bp):
TATTTGTAGAGCATTGCGTGACC
Found at i:4454502 original size:102 final size:102
Alignment explanation
Indices: 4454250--4454503 Score: 350
Period size: 102 Copynumber: 2.5 Consensus size: 102
4454240 ATTAGGTGCT
*
4454250 TGAATATTTGTTGAGTATTGCGTGAGTTCTTTATAGGCATTATGTGACTGAATATATGTTGAGCG
1 TGAATATTTGTTGAGTATTGCGTGAGTTCTTTATAGGCATTATGTGACTGAATATATGGTGAGCG
*
4454315 TTGCGTGACAAGTAATACATGACTGAATATTGCCTGAC
66 TTGCGTGACAAGT-ATACATGACTGAATATTACCTGAC
* *
4454353 TGAATATTTGTTGAGTATTGCGTGAGTTCTTTATAGGCATTACGTGACTGAATATTTGGT-AGCG
1 TGAATATTTGTTGAGTATTGCGTGAGTTCTTTATAGGCATTATGTGACTGAATATATGGTGAGCG
* * *
4454417 TTGTGTGACAGGAGT-TACGTGACTGAATATTACGTGAC
66 TTGCGTGACA--AGTATACATGACTGAATATTACCTGAC
* ** * * *
4454455 TGAATATTTGTTGAGCATTGCGTGACCTATTTGTAGGCATTGTGTGACT
1 TGAATATTTGTTGAGTATTGCGTGAGTTCTTTATAGGCATTATGTGACT
4454504 TTAGCTACCT
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
102 75 0.56
103 57 0.42
104 3 0.02
ACGTcount: A:0.25, C:0.11, G:0.26, T:0.38
Consensus pattern (102 bp):
TGAATATTTGTTGAGTATTGCGTGAGTTCTTTATAGGCATTATGTGACTGAATATATGGTGAGCG
TTGCGTGACAAGTATACATGACTGAATATTACCTGAC
Found at i:4456112 original size:119 final size:111
Alignment explanation
Indices: 4455733--4456262 Score: 599
Period size: 109 Copynumber: 4.7 Consensus size: 111
4455723 GGTGCGTGAT
* * *
4455733 TGACTTGTACAATTCATGTGTTATTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGC-GTGCGTGAC
* * * * * *
4455798 TGGTTTTTATATATTACGTTACTTGTTGTAGCGAGAGTGGTGGCGTG
65 TGATTTTTATATATTGCGTTACCTATTATAGCGAGAGTGGTGGCGCG
* * * **
4455845 TGACTTGTGAAATCCATGTGTT-TTT-GAGGCTTTTGTTTAGTAG-TTTTTAGATAGTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAG-GCGTGCGTGAC
* * *
4455907 T-ATTTTTTATATATTGCGTTACCTGTTGTAGCGAGAGTGGTGGCACG
65 TGA-TTTTTATATATTGCGTTACCTATTATAGCGAGAGTGGTGGCGCG
4455954 TGACTTGTGCAATTCATGTGTTGTTTTA-AGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGA
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGC-GTGCGTGA
* * * *
4456018 CTGTTTTTTATATATTGCGTTACTTGTTGTTATGTATTGCGAGAGTGGTGGGGCG
64 CTGATTTTTATATATTGCGTTAC------CTAT-TATAGCGAGAGTGGTGGCGCG
* * * *
4456073 TGACTTATGGAATTTATGTGTTGTTTAGAGGCTTTTGTTCAGT-GTTTTTTAGG-GTTACGTGA-
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCG-TGCGTGAC
* *
4456135 TCGATTTTTATATATTGCGTTACCTATTATAGCAAGAGCGGTGGCGCG
65 T-GATTTTTATATATTGCGTTACCTATTATAGCGAGAGTGGTGGCGCG
* * *
4456183 TGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGGCT
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCGTGCGTGACT
*
4456248 GGTTTTTATATATTG
66 GATTTTTATATATTG
4456263 NATGTGTTGT
Statistics
Matches: 356, Mismatches: 41, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
109 77 0.22
110 73 0.21
111 54 0.15
112 56 0.16
116 2 0.01
117 26 0.07
118 16 0.04
119 52 0.15
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.44
Consensus pattern (111 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCGTGCGTGACT
GATTTTTATATATTGCGTTACCTATTATAGCGAGAGTGGTGGCGCG
Found at i:4456226 original size:229 final size:220
Alignment explanation
Indices: 4455733--4456262 Score: 692
Period size: 229 Copynumber: 2.4 Consensus size: 220
4455723 GGTGCGTGAT
* * *
4455733 TGACTTGTACAATTCATGTGTTATTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
* * *
4455798 TGGTTTTTATATATTACGTTACTTGTTGTAGCGAGAGTGGTGGCGTGTGACTTGTGAAATCCATG
66 TGGTTTTTATATATTGCGTTACTTGTTGTAGCGAGAGTGGTGGCGCGTGACTTATGAAATCCATG
* * *
4455863 TGTTTTTGAGGCTTTTGTTTAGTAGTTTTTAGATAGTGCGTGACTATTTTTTATATATTGCGTTA
131 TGTTTTTGAGGCTTTTGTTCAGTAGTTTTTAGATA-TACGTGACGATTTTTTATATATTGCGTTA
* * * *
4455928 CCTGTTGTAGCGAGAGTGGTGGCACG
195 CCTATTATAGCAAGAGCGGTGGCACG
4455954 TGACTTGTGCAATTCATGTGTTGTTTTA-AGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGA
1 TGACTTGTGCAATTCATGTGTTG-TTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGA
* * *
4456018 CTGTTTTTTATATATTGCGTTACTTGTTGTTATGTATTGCGAGAGTGGTGGGGCGTGACTTATGG
65 CTGGTTTTTATATATTGCGTTAC---TTG-T-TGTA--GCGAGAGTGGTGGCGCGTGACTTATGA
** *
4456083 AATTTATGTGTTGTTTAGAGGCTTTTGTTCAGT-GTTTTTTAGGGT-TACGTGATCGA-TTTTTA
123 AATCCATGTGTT-TTT-GAGGCTTTTGTTCAGTAG-TTTTTA-GATATACGTGA-CGATTTTTTA
*
4456145 TATATTGCGTTACCTATTATAGCAAGAGCGGTGGCGCG
183 TATATTGCGTTACCTATTATAGCAAGAGCGGTGGCACG
* * *
4456183 TGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGC-TTGCGTGGC
1 TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
4456247 TGGTTTTTATATATTG
66 TGGTTTTTATATATTG
4456263 NATGTGTTGT
Statistics
Matches: 271, Mismatches: 24, Indels: 21
0.86 0.08 0.07
Matches are distributed among these distances:
221 78 0.29
222 3 0.01
224 3 0.01
225 1 0.00
226 4 0.01
228 59 0.22
229 98 0.36
230 23 0.08
231 2 0.01
ACGTcount: A:0.18, C:0.11, G:0.27, T:0.44
Consensus pattern (220 bp):
TGACTTGTGCAATTCATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCAGTGCGTGAC
TGGTTTTTATATATTGCGTTACTTGTTGTAGCGAGAGTGGTGGCGCGTGACTTATGAAATCCATG
TGTTTTTGAGGCTTTTGTTCAGTAGTTTTTAGATATACGTGACGATTTTTTATATATTGCGTTAC
CTATTATAGCAAGAGCGGTGGCACG
Found at i:4456300 original size:66 final size:65
Alignment explanation
Indices: 4456198--4456328 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 65
4456188 TGTGCAATCC
*
4456198 ATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGGCTGGTTTTTATATATTG
1 ATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
*
4456263 NATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATT
1 -ATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATT
4456328 G
65 G
4456329 CATTACTTGT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.14, C:0.08, G:0.27, T:0.51
Consensus pattern (65 bp):
ATGTGTTGTTTAGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
Found at i:4456383 original size:177 final size:175
Alignment explanation
Indices: 4456088--4456439 Score: 499
Period size: 177 Copynumber: 2.0 Consensus size: 175
4456078 TATGGAATTT
*
4456088 ATGTGTTGTTTAGAGGCTTTTGTTCAGTGTTTTTTAGGGTTACGTGATCGATTTTTATATATTGC
1 ATGTGTTGTTTAGAGGCTTTTGTTCAGTGTTTTTTAGGCTTACGTGATCGATTTTTATATATTGC
* *
4456153 GTTACCTATTATAGCAAGAGCGGTGGCGCGTGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTT
66 ATTACCTATTATAGCAAGAGCGGTGGCGCATGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTT
* *
4456218 TGTTCAGTAGTTTTTTAGGCTTGCGTGGCTGGTTTTTATATATTG
131 TGTTCAGTAGGTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
* * *
4456263 NATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGA-CTGGTTTTTATATAT
1 -ATGTGTTGTTTAGAGGCTTTTGTTCAGT-GTTTTTTAGGCTTACGTGATC-GATTTTTATATAT
* * * ** * * * *
4456327 TGCATTACTTGTTTTAGCGTGAGTGTTGGCGCATGACTTGTGCAATTCATGTGTTGTTTTGAGGC
63 TGCATTACCTATTATAGCAAGAGCGGTGGCGCATGACTTGTGCAATCCATGTGTTGTTTAGAGGC
* *
4456392 TTTTGTTCATTAGGTTTTTAGGCTTGCGTGATTGGTTTTTATATATTG
128 TTTTGTTCAGTAGGTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
4456440 CGTGACCTGT
Statistics
Matches: 155, Mismatches: 19, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
176 28 0.18
177 127 0.82
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.47
Consensus pattern (175 bp):
ATGTGTTGTTTAGAGGCTTTTGTTCAGTGTTTTTTAGGCTTACGTGATCGATTTTTATATATTGC
ATTACCTATTATAGCAAGAGCGGTGGCGCATGACTTGTGCAATCCATGTGTTGTTTAGAGGCTTT
TGTTCAGTAGGTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
Found at i:4456620 original size:117 final size:116
Alignment explanation
Indices: 4456264--4456610 Score: 472
Period size: 117 Copynumber: 3.0 Consensus size: 116
4456254 TATATATTGN
4456264 ATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
1 ATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
* * * *
4456329 CATTA-C-TTGTT-TTA--GCGTGAGTGTTGGCGCATGACTTGTGCAATTC
66 CGTGACCTTTGTTATTATTGCGAGAGTGATGGCGCATGACTTGTGCAATTC
* * *
4456375 ATGTGTTGTTTTGAGGCTTTTGTTCATTAGGTTTTTAGGCTTGCGTGATTGGTTTTTATATATTG
1 ATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
* *
4456440 CGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGCACATGACTTGTGCAATTC
66 CGTGACCT-TTGTTAT-TATTGCGAGAGTGATGGCGCATGACTTGTGCAATTC
* * *
4456493 ATGTGTTGTTTTGAGGC-TTTGTTCAGTAGTTTTTTAGGATTGCGTTACTGGTTTTTATATATTA
1 ATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
* ** *
4456557 CGTGACCTATTGTTATATATTGCAAGAGCAATGGCGCGTGACTTGTGCAATTC
66 CGTGACCT-TTGTTAT-TATTGCGAGAGTGATGGCGCATGACTTGTGCAATTC
4456610 A
1 A
4456611 CCTCTTGTTT
Statistics
Matches: 207, Mismatches: 22, Indels: 8
0.87 0.09 0.03
Matches are distributed among these distances:
111 65 0.31
112 1 0.00
114 5 0.02
115 1 0.00
116 2 0.01
117 87 0.42
118 46 0.22
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.45
Consensus pattern (116 bp):
ATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
CGTGACCTTTGTTATTATTGCGAGAGTGATGGCGCATGACTTGTGCAATTC
Found at i:4456647 original size:117 final size:116
Alignment explanation
Indices: 4456264--4456653 Score: 380
Period size: 117 Copynumber: 3.4 Consensus size: 116
4456254 TATATATTGN
* * * *
4456264 ATGTGTTGTTTTGAGGCTTTTGTTCAGTAGTTTTTTAGGCTTGCGTGACTGGTTTTTATATATTG
1 ATGTGTTGTTTTG-GGGTTTTGTTCATTAG-TTTTTAGGATTGCGTGACTGGTTTTTATATATTA
* * ** ***
4456329 CATTA-C--TTGTT-T-TA--GCGTGAGTGTTGGCGCATGACTTGTGCAATTC
64 CGTGACCTATTGTTATATATTGCAAGAGCAATGGCGCATGACTTGTGCAATTC
* * * *
4456375 ATGTGTTGTTTTGAGGCTTTTGTTCATTAGGTTTTTAGGCTTGCGTGATTGGTTTTTATATATTG
1 ATGTGTTGTTTTG-GGGTTTTGTTCATTA-GTTTTTAGGATTGCGTGACTGGTTTTTATATATTA
* * * *** *
4456440 CGTGACCTGTTGTTATGTATTGCGAGAGTGGTGGCACATGACTTGTGCAATTC
64 CGTGACCTATTGTTATATATTGCAAGAGCAATGGCGCATGACTTGTGCAATTC
* * * *
4456493 ATGTGTTGTTTTGAGGCTTTGTTCAGTAGTTTTTTAGGATTGCGTTACTGGTTTTTATATATTAC
1 ATGTGTTGTTTTGGGGTTTTGTTCATTAG-TTTTTAGGATTGCGTGACTGGTTTTTATATATTAC
*
4456558 GTGACCTATTGTTATATATTGCAAGAGCAATGGCGCGTGACTTGTGCAATTC
65 GTGACCTATTGTTATATATTGCAAGAGCAATGGCGCATGACTTGTGCAATTC
** * * *
4456610 ACCTCTTGTTTAGGGGTGTTTGTTCATTAGTTATTAGGCATTGC
1 ATGTGTTGTTTTGGGGT-TTTGTTCATTAGTTTTTAGG-ATTGC
4456654 ATTAATGTGT
Statistics
Matches: 237, Mismatches: 31, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
111 64 0.27
112 2 0.01
114 5 0.02
115 1 0.00
116 3 0.01
117 104 0.44
118 58 0.24
ACGTcount: A:0.17, C:0.12, G:0.26, T:0.45
Consensus pattern (116 bp):
ATGTGTTGTTTTGGGGTTTTGTTCATTAGTTTTTAGGATTGCGTGACTGGTTTTTATATATTACG
TGACCTATTGTTATATATTGCAAGAGCAATGGCGCATGACTTGTGCAATTC
Found at i:4462208 original size:70 final size:70
Alignment explanation
Indices: 4462124--4462282 Score: 257
Period size: 70 Copynumber: 2.3 Consensus size: 70
4462114 AACTAGTAAT
*
4462124 GCGATCCATATTTACTATTAACGAAAGTCAATATCAAATACTCACGCGATTCTAAATCTTAAC-A
1 GCGATCCATATTTACTACTAACGAAAGTCAATATCAAATACTCACGCGATTCTAAATCTTAACGA
4462188 GTTCAC
66 -TTCAC
** *
4462194 GCGATCCATATTTACTACTAACGGGAGTCAATATCAAATACTCACGCGATTTTAAATCTTAACGA
1 GCGATCCATATTTACTACTAACGAAAGTCAATATCAAATACTCACGCGATTCTAAATCTTAACGA
4462259 TTCAC
66 TTCAC
*
4462264 GCTATCCATATTTACTACT
1 GCGATCCATATTTACTACT
4462283 CACACGATTC
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
70 82 0.99
71 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.31
Consensus pattern (70 bp):
GCGATCCATATTTACTACTAACGAAAGTCAATATCAAATACTCACGCGATTCTAAATCTTAACGA
TTCAC
Found at i:4463245 original size:20 final size:21
Alignment explanation
Indices: 4463209--4463247 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4463199 GGAAGAAGAC
*
4463209 GAAGAAGAAGCTGCTGGAAGT
1 GAAGAAAAAGCTGCTGGAAGT
4463230 GAAGAAAAAG-TGCTGGAA
1 GAAGAAAAAGCTGCTGGAA
4463248 AAAATTAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.44, C:0.08, G:0.36, T:0.13
Consensus pattern (21 bp):
GAAGAAAAAGCTGCTGGAAGT
Found at i:4463915 original size:23 final size:23
Alignment explanation
Indices: 4463879--4463931 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4463869 AGAATAGGTG
*
4463879 AGTCACGCGATGCAAG-TGCAACT
1 AGTCACGAGATGCAAGCT-CAACT
*
4463902 AGTCACGAGTTGCAAGCTCAACT
1 AGTCACGAGATGCAAGCTCAACT
4463925 AGTCACG
1 AGTCACG
4463932 CGATTCAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.25, T:0.19
Consensus pattern (23 bp):
AGTCACGAGATGCAAGCTCAACT
Found at i:4464660 original size:32 final size:32
Alignment explanation
Indices: 4464624--4464686 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
4464614 TTATCACATG
4464624 AATGAATACAAAGAATAATATGTAAATGATAT
1 AATGAATACAAAGAATAATATGTAAATGATAT
4464656 AATGAATACAAAGAATAATATGTAAATGATA
1 AATGAATACAAAGAATAATATGTAAATGATA
4464687 CAACAAAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.57, C:0.03, G:0.13, T:0.27
Consensus pattern (32 bp):
AATGAATACAAAGAATAATATGTAAATGATAT
Found at i:4464673 original size:16 final size:16
Alignment explanation
Indices: 4464624--4464674 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
4464614 TTATCACATG
4464624 AATGAATACAAAGAAT
1 AATGAATACAAAGAAT
* *
4464640 AAT-ATGTA-AATGATAT
1 AATGA-ATACAAAGA-AT
4464656 AATGAATACAAAGAAT
1 AATGAATACAAAGAAT
4464672 AAT
1 AAT
4464675 ATGTAAATGA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
15 5 0.19
16 17 0.63
17 5 0.19
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.25
Consensus pattern (16 bp):
AATGAATACAAAGAAT
Found at i:4464688 original size:23 final size:23
Alignment explanation
Indices: 4464656--4464721 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 23
4464646 TAAATGATAT
*
4464656 AATGAATACAAAGAATAATATGTA
1 AATG-ATACAAAGAATAATATGGA
4464680 AATGATACAACAAAGAATAATATGGA
1 AATGAT---ACAAAGAATAATATGGA
4464706 AATGATAC--AGAATAAT
1 AATGATACAAAGAATAAT
4464722 GTTAATGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 8 0.21
23 4 0.11
24 4 0.11
26 22 0.58
ACGTcount: A:0.58, C:0.06, G:0.14, T:0.23
Consensus pattern (23 bp):
AATGATACAAAGAATAATATGGA
Found at i:4464694 original size:26 final size:26
Alignment explanation
Indices: 4464663--4464714 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
4464653 TATAATGAAT
*
4464663 ACAAAGAATAATATGTAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
4464689 ACAAAGAATAATATGGAAATGATACA
1 ACAAAGAATAATATGGAAATGATACA
4464715 GAATAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.13, T:0.21
Consensus pattern (26 bp):
ACAAAGAATAATATGGAAATGATACA
Found at i:4466341 original size:21 final size:22
Alignment explanation
Indices: 4466293--4466341 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
4466283 CGCCCGTTAG
*
4466293 ATCTCCAACTACATTGACTACTGG
1 ATCTCCAACTACATTGA--ACTGC
*
4466317 ATCTCCAACTATATTG-ACTGC
1 ATCTCCAACTACATTGAACTGC
4466338 ATCT
1 ATCT
4466342 GCATTTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
24 15 0.65
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (22 bp):
ATCTCCAACTACATTGAACTGC
Found at i:4466506 original size:24 final size:24
Alignment explanation
Indices: 4466465--4466516 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
4466455 GGCTCAACAT
* * * *
4466465 GAGGGGTAACACTTGAAGTAGGAG
1 GAGGGGCAACAATAGAAGCAGGAG
*
4466489 GAGGGGCAACAATAGAAGCATGAG
1 GAGGGGCAACAATAGAAGCAGGAG
4466513 GAGG
1 GAGG
4466517 TGCAGCAGGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.10, G:0.42, T:0.12
Consensus pattern (24 bp):
GAGGGGCAACAATAGAAGCAGGAG
Found at i:4480093 original size:15 final size:15
Alignment explanation
Indices: 4480070--4480131 Score: 58
Period size: 15 Copynumber: 4.3 Consensus size: 15
4480060 CATTTAAATT
*
4480070 ATATATAAAATATTA
1 ATATTTAAAATATTA
*
4480085 ATATTTAAATTATTA
1 ATATTTAAAATATTA
*
4480100 ATATTTTAAATA--A
1 ATATTTAAAATATTA
* *
4480113 AT-TATAAATTATTA
1 ATATTTAAAATATTA
4480127 ATATT
1 ATATT
4480132 GATGAAATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
12 6 0.17
13 3 0.08
14 3 0.08
15 24 0.67
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTTAAAATATTA
Found at i:4480126 original size:42 final size:40
Alignment explanation
Indices: 4479998--4480131 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 40
4479988 AAAAATTACA
* *
4479998 TATTATATATTATAAA-AATAATATTTAAA-AATTTA-AAAT
1 TATTA-ATATT-TAAATTATAATATTTAAATAAATTATAAAT
** * *
4480037 TATTAATATTTTCATTATAATGACATTTAAAT-TATATATAAAA
1 TATTAATATTTAAATTATAAT---ATTTAAATAAAT-TATAAAT
4480080 TATTAATATTTAAATTATTAATATTTTAAATAAATTATAAAT
1 TATTAATATTTAAATTA-TAATA-TTTAAATAAATTATAAAT
4480122 TATTAATATT
1 TATTAATATT
4480132 GATGAAATAA
Statistics
Matches: 75, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
37 2 0.03
38 10 0.13
39 5 0.07
41 9 0.12
42 25 0.33
43 20 0.27
44 4 0.05
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (40 bp):
TATTAATATTTAAATTATAATATTTAAATAAATTATAAAT
Found at i:4480146 original size:27 final size:26
Alignment explanation
Indices: 4480090--4480147 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
4480080 TATTAATATT
*
4480090 TAAATTATTAATATTTTAAATAAATTA
1 TAAATTATTAATATTTGAAATAAA-TA
4480117 TAAATTATTAATATTGATGAAATAAA-A
1 TAAATTATTAATATT--TGAAATAAATA
4480144 TAAA
1 TAAA
4480148 ATAAAAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 20 0.71
29 8 0.29
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.41
Consensus pattern (26 bp):
TAAATTATTAATATTTGAAATAAATA
Found at i:4480775 original size:22 final size:26
Alignment explanation
Indices: 4480749--4480811 Score: 80
Period size: 22 Copynumber: 2.5 Consensus size: 26
4480739 NNNNNNNNNA
4480749 TATTAATATTTAAATT-A-T-TA-AT
1 TATTAATATTTAAATTAATTCTAGAT
*
4480771 TATTAATATTTTAATTAAATTCTAGAT
1 TATTAATATTTAAATT-AATTCTAGAT
4480798 TATTAATATTTAAA
1 TATTAATATTTAAA
4480812 AAATCTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 15 0.44
24 1 0.03
25 1 0.03
26 2 0.06
27 15 0.44
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTAATATTTAAATTAATTCTAGAT
Found at i:4482139 original size:47 final size:47
Alignment explanation
Indices: 4482070--4482163 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
4482060 TAGAGAAGCC
4482070 AGAAACCAAGAAGAGCATTACAGACCGCATTCACCATTGCTATTGCT
1 AGAAACCAAGAAGAGCATTACAGACCGCATTCACCATTGCTATTGCT
** *
4482117 AGAAACCAAGAAGAGCATTACAGAGTGCATTCACCGTTGCTATTGCT
1 AGAAACCAAGAAGAGCATTACAGACCGCATTCACCATTGCTATTGCT
4482164 TACATTTGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.22
Consensus pattern (47 bp):
AGAAACCAAGAAGAGCATTACAGACCGCATTCACCATTGCTATTGCT
Found at i:4486513 original size:2 final size:2
Alignment explanation
Indices: 4486506--4486553 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
4486496 AAGTAAATGT
* *
4486506 TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4486548 TA TA TA
1 TA TA TA
4486554 ACTCAAATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4494257 original size:45 final size:45
Alignment explanation
Indices: 4494197--4494290 Score: 116
Period size: 45 Copynumber: 2.1 Consensus size: 45
4494187 AATATATTAA
* * * *
4494197 TATTATTTCACTATAATAAATATTATAAAGCATGTTACTTAATAT
1 TATTATTTCAATATAATAAATATAATAAAGAATATTACTTAATAT
* * * *
4494242 TATTATTTGAATATAATAAATGTAATAAAGAATATTATTTAGTAT
1 TATTATTTCAATATAATAAATATAATAAAGAATATTACTTAATAT
4494287 TATT
1 TATT
4494291 TAAATTTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (45 bp):
TATTATTTCAATATAATAAATATAATAAAGAATATTACTTAATAT
Found at i:4496168 original size:126 final size:126
Alignment explanation
Indices: 4496038--4496266 Score: 341
Period size: 126 Copynumber: 1.8 Consensus size: 126
4496028 AAGGTCATCT
* *
4496038 CCAGAATTTCAGCTCATCTCCATGTTTACTAATTTCGGAAAGACCCCAAAATCACCACCTTCTCC
1 CCAGAATTTCAGCTCATATCCATGTTTACTAATTTCGGAAAGACCCCAAAATCACCACCATCTCC
* * * *
4496103 GAAGCCAGCACCATCAAAACATCAGGGGATAATCGAGCGGCCGATAACGCAAAAATCCCGA
66 GAAGCCAGCACCACCAAAAAATCAAGGCATAATCGAGCGGCCGATAACGCAAAAATCCCGA
* * * * *
4496164 CCAGATTTTCAGTTGATATCCATGTTTACTAATTTTGGAAAGACCCCAATATCACCACCATCTCC
1 CCAGAATTTCAGCTCATATCCATGTTTACTAATTTCGGAAAGACCCCAAAATCACCACCATCTCC
* *
4496229 TAAGCCAGCACCACCAAAAAATCAAGGCATGATCGAGC
66 GAAGCCAGCACCACCAAAAAATCAAGGCATAATCGAGC
4496267 AGCTGATGCA
Statistics
Matches: 90, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 90 1.00
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.21
Consensus pattern (126 bp):
CCAGAATTTCAGCTCATATCCATGTTTACTAATTTCGGAAAGACCCCAAAATCACCACCATCTCC
GAAGCCAGCACCACCAAAAAATCAAGGCATAATCGAGCGGCCGATAACGCAAAAATCCCGA
Found at i:4505653 original size:22 final size:22
Alignment explanation
Indices: 4505627--4505677 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
4505617 TCTTCCTAAT
4505627 AAAGC-CATTCATTACGTGCATA
1 AAAGCTCATT-ATTACGTGCATA
* * *
4505649 AAAGCTTATTATTATGTGCATT
1 AAAGCTCATTATTACGTGCATA
4505671 AAAGCTC
1 AAAGCTC
4505678 TTCTTAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (22 bp):
AAAGCTCATTATTACGTGCATA
Found at i:4507498 original size:23 final size:23
Alignment explanation
Indices: 4507467--4507510 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4507457 ACAAAAGTCT
* *
4507467 TATTGTAGTCTAATTAGAATTCA
1 TATTATAGTCTAACTAGAATTCA
*
4507490 TATTATAGTTTAACTAGAATT
1 TATTATAGTCTAACTAGAATT
4507511 AAAAACTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
TATTATAGTCTAACTAGAATTCA
Found at i:4510269 original size:12 final size:12
Alignment explanation
Indices: 4510254--4510295 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
4510244 TCTATCTGTT
4510254 TTTTTCTTTCTC
1 TTTTTCTTTCTC
* *
4510266 TTTTTATCTCTC
1 TTTTTCTTTCTC
4510278 TTTTTCTTTC-C
1 TTTTTCTTTCTC
4510289 TTTTTCT
1 TTTTTCT
4510296 CTTTTTTTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 8 0.31
12 18 0.69
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:4515412 original size:9 final size:9
Alignment explanation
Indices: 4515398--4515436 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
4515388 AAATCAAGTT
4515398 TTTTTTTTC
1 TTTTTTTTC
4515407 TTTTTTTTC
1 TTTTTTTTC
*
4515416 TTTTCCTTTC
1 TTTT-TTTTC
*
4515426 TTTCTTTTC
1 TTTTTTTTC
4515435 TT
1 TT
4515437 ACTTTTTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
9 19 0.73
10 7 0.27
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:4515419 original size:14 final size:14
Alignment explanation
Indices: 4515396--4515436 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
4515386 AAAAATCAAG
4515396 TTTTTT-TTTTCTT
1 TTTTTTCTTTTCTT
*
4515409 TTTTTTCTTTTCCT
1 TTTTTTCTTTTCTT
*
4515423 TTCTTTCTTTTCTT
1 TTTTTTCTTTTCTT
4515437 ACTTTTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTCTTTTCTT
Found at i:4519481 original size:39 final size:39
Alignment explanation
Indices: 4519454--4519601 Score: 166
Period size: 39 Copynumber: 4.0 Consensus size: 39
4519444 AGCACACGCC
*
4519454 GATGATATATGCCATGTGCGATGTGGGAGAGTACATGAT
1 GATGATATATGCCATGTGCGATGTGGGAGAGCACATGAT
* *
4519493 GATGATATATACCATGTGCGGTGTGGGAGAGCACATGAT
1 GATGATATATGCCATGTGCGATGTGGGAGAGCACATGAT
* * *
4519532 GATGATATTTGCCATGTGCG--GT--GAGTGCACATGAG
1 GATGATATATGCCATGTGCGATGTGGGAGAGCACATGAT
* * *
4519567 GAT-AT-TA-GCTATGTGCGGTGTGGGAGTGCACATGA
1 GATGATATATGCCATGTGCGATGTGGGAGAGCACATGA
4519602 GCTGAGTTGA
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
32 9 0.09
33 1 0.01
34 4 0.04
35 14 0.15
36 12 0.12
37 2 0.02
39 54 0.56
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (39 bp):
GATGATATATGCCATGTGCGATGTGGGAGAGCACATGAT
Found at i:4533728 original size:69 final size:69
Alignment explanation
Indices: 4533641--4533782 Score: 187
Period size: 69 Copynumber: 2.1 Consensus size: 69
4533631 TCAACTCAGC
* * * * *
4533641 TCATGTGCACTCCCACACCGCACATAGC-TAATATCCTTATATGCACCCCCACACTGCACTTGGC
1 TCATGTGCACTCCCACACCACACATAGCAT-ATATCATCATATGAACCCCCACACTGCACATGGC
4533705 AAATA
65 AAATA
* * *
4533710 TCATGTGCACTCCCACACCACACATGGCATATATCATCATGTGAACTCCCACACTGCACATGGCA
1 TCATGTGCACTCCCACACCACACATAGCATATATCATCATATGAACCCCCACACTGCACATGGCA
*
4533775 TATA
66 AATA
4533779 TCAT
1 TCAT
4533783 CAGCGTTTGC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 62 0.98
70 1 0.02
ACGTcount: A:0.30, C:0.35, G:0.12, T:0.24
Consensus pattern (69 bp):
TCATGTGCACTCCCACACCACACATAGCATATATCATCATATGAACCCCCACACTGCACATGGCA
AATA
Found at i:4533781 original size:36 final size:36
Alignment explanation
Indices: 4533641--4533882 Score: 185
Period size: 36 Copynumber: 6.7 Consensus size: 36
4533631 TCAACTCAGC
* *
4533641 TCATGTGCACTCCCACACCGCACATAGC-TAATATCC
1 TCATGTGCACTCCCACACCGCACATGGCAT-ATATCA
* * * * *
4533677 TTATATGCACCCCCACACTGCACTTGGCA-A-AT-A
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
*
4533710 TCATGTGCACTCCCACACCACACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
* *
4533746 TCATGTGAACTCCCACACTGCACATGGCATATATCA
1 TCATGTGCACTCCCACACCGCACATGGCATATATCA
* * * * * *
4533782 TCAGCGTTTGCACTTCCACACTGCACA--CCACCATCATCG
1 TCA---TGTGCACTCCCACACCGCACATGGCA-TAT-ATCA
* * *
4533821 TCATGTGCACTCCCACACCGCACA--CCACCATCACCA
1 TCATGTGCACTCCCACACCGCACATGGCA-TAT-ATCA
4533857 TCATGTGCACTCCCACACCGCACATG
1 TCATGTGCACTCCCACACCGCACATG
4533883 TACAATTATA
Statistics
Matches: 168, Mismatches: 27, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
33 23 0.14
34 3 0.02
35 3 0.02
36 111 0.66
37 2 0.01
38 2 0.01
39 24 0.14
ACGTcount: A:0.28, C:0.39, G:0.12, T:0.21
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACATGGCATATATCA
Found at i:4540231 original size:70 final size:70
Alignment explanation
Indices: 4540167--4540315 Score: 169
Period size: 70 Copynumber: 2.2 Consensus size: 70
4540157 TTAATTATTT
* **
4540167 AATTTAATCAATTAAGCCCACTAACTTAATTATTTAATGTAATTAATTAGGCCCAATGACTTAAT
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAATAATGTAATTAATTAGGCCCAATGACTTAAT
4540232 TAAAC
66 TAAAC
* * * * * * *
4540237 AATTTAATTAATTAGGCCTAATGATTTAATTAAATAATTTAATTAATTAGG--C-ATAACTTAAT
1 AATTTAATCAATTAAGCCCAATAACTTAATTAAATAATGTAATTAATTAGGCCCAATGACTTAAT
*
4540299 TAAGC
66 TAAAC
4540304 AATTTTAATCAA
1 AA-TTTAATCAA
4540316 GTGCTTGAGA
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
67 15 0.23
68 9 0.14
70 42 0.64
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.38
Consensus pattern (70 bp):
AATTTAATCAATTAAGCCCAATAACTTAATTAAATAATGTAATTAATTAGGCCCAATGACTTAAT
TAAAC
Found at i:4540245 original size:35 final size:35
Alignment explanation
Indices: 4540153--4540308 Score: 147
Period size: 35 Copynumber: 4.5 Consensus size: 35
4540143 GAAGCCTAAT
*** * * *
4540153 TAACTTAATTATTTAATTTAATCAATTAAGCCCAC
1 TAACTTAATTAAACAATTTAATTAATTAGGCCCAA
*** *
4540188 TAACTTAATTATTTAATGTAATTAATTAGGCCCAA
1 TAACTTAATTAAACAATTTAATTAATTAGGCCCAA
* *
4540223 TGACTTAATTAAACAATTTAATTAATTAGGCCTAA
1 TAACTTAATTAAACAATTTAATTAATTAGGCCCAA
* * *
4540258 TGATTTAATTAAATAATTTAATTAATTAGG--C-A
1 TAACTTAATTAAACAATTTAATTAATTAGGCCCAA
*
4540290 TAACTTAATTAAGCAATTT
1 TAACTTAATTAAACAATTT
4540309 TAATCAAGTG
Statistics
Matches: 104, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
32 16 0.15
35 88 0.85
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (35 bp):
TAACTTAATTAAACAATTTAATTAATTAGGCCCAA
Found at i:4547252 original size:2 final size:2
Alignment explanation
Indices: 4547247--4547289 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4547237 NNTATATATA
4547247 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
4547289 T
1 T
4547290 TTCATGTTGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:4559729 original size:12 final size:12
Alignment explanation
Indices: 4559708--4559742 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4559698 CTAGAAATTT
*
4559708 CATCCTCTGAAC
1 CATCCCCTGAAC
4559720 CATCCCCTGAAC
1 CATCCCCTGAAC
*
4559732 AATCCCCTGAA
1 CATCCCCTGAA
4559743 AAATGACCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.09, T:0.20
Consensus pattern (12 bp):
CATCCCCTGAAC
Done.