Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold274
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: 1642345
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 31972 characters in sequence are not A, C, G, or T
File 7 of 10
Found at i:906541 original size:21 final size:21
Alignment explanation
Indices: 906491--906537 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
906481 AAGATTATAT
* *
906491 TTATTCATTTTATTTTGATTA
1 TTATTTATTTAATTTTGATTA
*
906512 TTATTTATTTAATTTTTATT-
1 TTATTTATTTAATTTTGATTA
906532 TTATTT
1 TTATTT
906538 TATTAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATTTATTTAATTTTGATTA
Found at i:916061 original size:21 final size:20
Alignment explanation
Indices: 916037--916075 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
916027 GTTTGGACCT
916037 TGTATCGATACATTCTAAAAA
1 TGTATCGATACATT-TAAAAA
916058 TGTATCGATACATTTAAA
1 TGTATCGATACATTTAAA
916076 CAAAAATATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTAAAAA
Found at i:918099 original size:13 final size:13
Alignment explanation
Indices: 918081--918107 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
918071 CCCTTTTTGT
918081 TTCAAAAATAATC
1 TTCAAAAATAATC
918094 TTCAAAAATAATC
1 TTCAAAAATAATC
918107 T
1 T
918108 CTCCCTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (13 bp):
TTCAAAAATAATC
Found at i:919529 original size:20 final size:20
Alignment explanation
Indices: 919504--919556 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
919494 GGGCTGGCCA
*
919504 GTTGTGACCTGGGTGTGCCG
1 GTTGTGACCTGGATGTGCCG
*
919524 GTTGTGACCTGGATGTGTCG
1 GTTGTGACCTGGATGTGCCG
919544 GTTGTGACCTGGA
1 GTTGTGACCTGGA
919557 AAAGCTACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.09, C:0.17, G:0.42, T:0.32
Consensus pattern (20 bp):
GTTGTGACCTGGATGTGCCG
Found at i:920005 original size:13 final size:13
Alignment explanation
Indices: 919987--920023 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
919977 ATAATGGCCT
*
919987 TGTATCGATACAG
1 TGTATCGATACAA
920000 TGTATCGATACAA
1 TGTATCGATACAA
920013 TGTATCGATAC
1 TGTATCGATAC
920024 TAAGAACGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:932162 original size:51 final size:50
Alignment explanation
Indices: 932103--932239 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 50
932093 TTTTAACTAG
* * *
932103 ATGTATCGATACATTGCAAAATGTATCGATACATTTGGGTAAAAAGACAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATTAGGG-AAAAAGACAAA
* * *
932154 ATGTATCGATACATTGAAAAAAGTATTGATACATCTAGGGAAAAAGATAAA
1 ATGTATCGATACATTGAAAAATGTATCGATACAT-TAGGGAAAAAGACAAA
* * *
932205 ATGTATCGATAAATTAAAAAATATATCGATACATT
1 ATGTATCGATACATTGAAAAATGTATCGATACATT
932240 CATACATGTA
Statistics
Matches: 74, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
50 1 0.01
51 69 0.93
52 4 0.05
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.28
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATTAGGGAAAAAGACAAA
Found at i:932231 original size:20 final size:20
Alignment explanation
Indices: 932202--932278 Score: 91
Period size: 20 Copynumber: 3.9 Consensus size: 20
932192 GGAAAAAGAT
* *
932202 AAAATGTATCGATAAATTAA
1 AAAATATATCGATACATTAA
*
932222 AAAATATATCGATACATTCA
1 AAAATATATCGATACATTAA
* * * *
932242 TACATGTATCGATACATTGA
1 AAAATATATCGATACATTAA
932262 AAAATATATCGATACAT
1 AAAATATATCGATACAT
932279 CTAGGTAAAA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (20 bp):
AAAATATATCGATACATTAA
Found at i:933252 original size:32 final size:33
Alignment explanation
Indices: 933210--933272 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
933200 CATTAGTTTT
*
933210 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTATGGGCTTTAG
933243 AGAA-GGTTGCCACCAACTTGTATGGGCTTT
1 AGAAGGGTTGCCACCAACTTGTATGGGCTTT
933273 TGAAAGCTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTATGGGCTTTAG
Found at i:934047 original size:33 final size:33
Alignment explanation
Indices: 934010--934074 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
934000 TTTGAGGCAA
934010 TGTATCGATACAAT-T-CTTTATGTATCGATACAT
1 TGTATCGATACAATGTGC--TATGTATCGATACAT
934043 TGTATCGATACAATGTGCTATGTATCGATACA
1 TGTATCGATACAATGTGCTATGTATCGATACA
934075 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 28 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (33 bp):
TGTATCGATACAATGTGCTATGTATCGATACAT
Found at i:934048 original size:13 final size:13
Alignment explanation
Indices: 934030--934054 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
934020 CAATTCTTTA
934030 TGTATCGATACAT
1 TGTATCGATACAT
934043 TGTATCGATACA
1 TGTATCGATACA
934055 ATGTGCTATG
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:934127 original size:20 final size:19
Alignment explanation
Indices: 934102--934176 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
934092 TACTGCCAGT
*
934102 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
934122 TTCATGTATCGATACAATG
1 TTCATGTATCGATACAATG
** *
934141 AACATGTATCGATACAAAG
1 TTCATGTATCGATACAATG
* *
934160 CATAATGTATCGATACA
1 -TTCATGTATCGATACA
934177 TCTGAAAGTG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:934197 original size:40 final size:39
Alignment explanation
Indices: 934125--934217 Score: 118
Period size: 40 Copynumber: 2.4 Consensus size: 39
934115 ACATTTGTTC
*
934125 ATGTATCGATACAATGAACATGTATCGATACAAA-GCAT
1 ATGTATCGATACAATGAACATGTATCGATACAAATACAT
* *
934163 AATGTATCGATACATCTGAA-AGTGTATCGATACAAATACCT
1 -ATGTATCGATACA-ATGAACA-TGTATCGATACAAATACAT
934204 ATGTATCGATACAA
1 ATGTATCGATACAA
934218 ATACCTATGT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
39 14 0.30
40 31 0.66
41 2 0.04
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (39 bp):
ATGTATCGATACAATGAACATGTATCGATACAAATACAT
Found at i:934208 original size:20 final size:20
Alignment explanation
Indices: 934185--934232 Score: 96
Period size: 20 Copynumber: 2.4 Consensus size: 20
934175 CATCTGAAAG
934185 TGTATCGATACAAATACCTA
1 TGTATCGATACAAATACCTA
934205 TGTATCGATACAAATACCTA
1 TGTATCGATACAAATACCTA
934225 TGTATCGA
1 TGTATCGA
934233 CACTTTGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAATACCTA
Found at i:935128 original size:33 final size:33
Alignment explanation
Indices: 935080--935146 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
935070 AAGAGAACTA
* * *
935080 AAGTTCTCATTCATGCGCTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCACTGCGAAAGTGAAGTG
935113 AAGTGCTCATCCATGCACTGCGAAAGTGAAGTG
1 AAGTGCTCATCCATGCACTGCGAAAGTGAAGTG
935146 A
1 A
935147 TCAACTCTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (33 bp):
AAGTGCTCATCCATGCACTGCGAAAGTGAAGTG
Found at i:936732 original size:13 final size:13
Alignment explanation
Indices: 936714--936739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
936704 TAACTTTATG
936714 TGTATCGATACAT
1 TGTATCGATACAT
936727 TGTATCGATACAT
1 TGTATCGATACAT
936740 ACTTTTTGTA
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:936755 original size:32 final size:33
Alignment explanation
Indices: 936694--936757 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
936684 TACAGGCCAA
*
936694 TGTATCGATATAACTTTATGTGTATCGATACAT
1 TGTATCGATACAACTTTATGTGTATCGATACAT
936727 TGTATCGATACATACTTT-T-TGTATCGATACA
1 TGTATCGATACA-ACTTTATGTGTATCGATACA
936758 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 12 0.41
34 5 0.17
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAACTTTATGTGTATCGATACAT
Found at i:938825 original size:21 final size:20
Alignment explanation
Indices: 938801--938843 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
938791 GACTAGTGTG
* *
938801 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
938822 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
938842 GG
1 GG
938844 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:939290 original size:13 final size:13
Alignment explanation
Indices: 939272--939309 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
939262 ATAATCCCCC
939272 TGTATCGATACAG
1 TGTATCGATACAG
*
939285 TGTATCGATACAT
1 TGTATCGATACAG
*
939298 TGTATTGATACA
1 TGTATCGATACA
939310 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:946572 original size:13 final size:13
Alignment explanation
Indices: 946535--946574 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
946525 ATAGTAACCT
946535 ATGTATCGATACA
1 ATGTATCGATACA
* * *
946548 TTGCATCAATACA
1 ATGTATCGATACA
946561 ATGTATCGATACA
1 ATGTATCGATACA
946574 A
1 A
946575 AGAACATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:951530 original size:19 final size:18
Alignment explanation
Indices: 951502--951622 Score: 102
Period size: 19 Copynumber: 6.9 Consensus size: 18
951492 TTGTAGCGAT
951502 ACTTTGTATCGATACAAC
1 ACTTTGTATCGATACAAC
951520 ACTTATGTATCGAT---AC
1 ACTT-TGTATCGATACAAC
951536 A--TTGTATCGATACAAC
1 ACTTTGTATCGATACAAC
951552 ACTTATGTATCGAT---AC
1 ACTT-TGTATCGATACAAC
951568 A--TTGTATCGATACAAC
1 ACTTTGTATCGATACAAC
951584 ACTTATGTATCGATACAGTTAC
1 ACTT-TGTATCGATACA---AC
951606 TA-TTTGTATCGATACAA
1 -ACTTTGTATCGATACAA
951623 ATTGTTGAAA
Statistics
Matches: 86, Mismatches: 0, Indels: 34
0.72 0.00 0.28
Matches are distributed among these distances:
13 18 0.21
14 2 0.02
16 12 0.14
18 7 0.08
19 30 0.35
21 12 0.14
22 4 0.05
23 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (18 bp):
ACTTTGTATCGATACAAC
Found at i:951541 original size:32 final size:32
Alignment explanation
Indices: 951493--951600 Score: 198
Period size: 32 Copynumber: 3.4 Consensus size: 32
951483 ACAGTAGCTT
* *
951493 TGTAGCGATACTTTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
951525 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
951557 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
951589 TGTATCGATACA
1 TGTATCGATACA
951601 GTTACTATTT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 74 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:951543 original size:13 final size:13
Alignment explanation
Indices: 951525--951581 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
951515 ACAACACTTA
951525 TGTATCGATACAT
1 TGTATCGATACAT
951538 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
951556 ATGTATCGATACAT
1 -TGTATCGATACAT
951570 TGTATCGATACA
1 TGTATCGATACA
951582 ACACTTATGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:953087 original size:19 final size:20
Alignment explanation
Indices: 953063--953117 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
953053 ACTGCAAGTT
953063 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATTGA
953082 TCATGTATCGATACAA-TGA
1 TCATGTATCGATACAATTGA
* *
953101 ACATGTATTGATACAAT
1 TCATGTATCGATACAAT
953118 GTATCAATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 2 0.06
19 30 0.94
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (20 bp):
TCATGTATCGATACAATTGA
Found at i:953147 original size:33 final size:33
Alignment explanation
Indices: 953084--953212 Score: 199
Period size: 33 Copynumber: 3.9 Consensus size: 33
953074 TACAATTGTC
* *
953084 ATGTATCGATACAATG-A-ACATGTATTGATACA
1 ATGTATCGATACAAAGCATA-ATGTATCGATACA
*
953116 ATGTATCAATACAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
*
953149 ATGTATCGATAAAAAGCATAATGTATCGATACA
1 ATGTATCGATACAAAGCATAATGTATCGATACA
953182 ATGTATCGATACAAAGCATAATGTATCGATA
1 ATGTATCGATACAAAGCATAATGTATCGATA
953213 TATCTGGGTG
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.16
33 74 0.83
34 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATACA
Found at i:953153 original size:13 final size:13
Alignment explanation
Indices: 953135--953195 Score: 62
Period size: 13 Copynumber: 5.2 Consensus size: 13
953125 TACAAAGCAT
953135 AATGTATCGATAC
1 AATGTATCGATAC
953148 AATGTATCGATA-
1 AATGTATCGATAC
* *
953160 AA--AAGC-AT--
1 AATGTATCGATAC
953168 AATGTATCGATAC
1 AATGTATCGATAC
953181 AATGTATCGATAC
1 AATGTATCGATAC
953194 AA
1 AA
953196 AGCATAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
8 2 0.05
9 2 0.05
10 4 0.10
11 2 0.05
12 2 0.05
13 27 0.69
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:953173 original size:20 final size:19
Alignment explanation
Indices: 953115--953212 Score: 76
Period size: 20 Copynumber: 5.6 Consensus size: 19
953105 GTATTGATAC
*
953115 AATGTATCAATACAAAGCAT
1 AATGTATCGATA-AAAGCAT
953135 AATGTATCGAT---A-C--
1 AATGTATCGATAAAAGCAT
953148 AATGTATCGATAAAAAGCAT
1 AATGTATCGAT-AAAAGCAT
953168 AATGTATCGAT---A-C--
1 AATGTATCGATAAAAGCAT
953181 AATGTATCGATACAAAGCAT
1 AATGTATCGATA-AAAGCAT
953201 AATGTATCGATA
1 AATGTATCGATA
953213 TATCTGGGTG
Statistics
Matches: 63, Mismatches: 1, Indels: 28
0.68 0.01 0.30
Matches are distributed among these distances:
13 22 0.35
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
20 33 0.52
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (19 bp):
AATGTATCGATAAAAGCAT
Found at i:953793 original size:20 final size:22
Alignment explanation
Indices: 953768--953815 Score: 82
Period size: 20 Copynumber: 2.3 Consensus size: 22
953758 AGGCTGTCGT
953768 TAAAAAAATTT-TCCCT-TTGA
1 TAAAAAAATTTCTCCCTCTTGA
953788 TAAAAAAATTTCTCCCTCTTGA
1 TAAAAAAATTTCTCCCTCTTGA
953810 TAAAAA
1 TAAAAA
953816 TATATTTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 11 0.42
21 5 0.19
22 10 0.38
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.35
Consensus pattern (22 bp):
TAAAAAAATTTCTCCCTCTTGA
Found at i:953794 original size:22 final size:21
Alignment explanation
Indices: 953768--953824 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 21
953758 AGGCTGTCGT
953768 TAAAAAAATTTTCCCT-TTGA
1 TAAAAAAATTTTCCCTCTTGA
953788 TAAAAAAATTTCTCCCTCTTGA
1 TAAAAAAATTT-TCCCTCTTGA
953810 TAAAAATATATTTTC
1 TAAAAA-A-ATTTTC
953825 AAAACAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.33
21 5 0.15
22 10 0.30
23 3 0.09
24 4 0.12
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (21 bp):
TAAAAAAATTTTCCCTCTTGA
Found at i:953816 original size:20 final size:19
Alignment explanation
Indices: 953770--953815 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 19
953760 GCTGTCGTTA
953770 AAAAAATTTTCCCTTTGAT
1 AAAAAATTTTCCCTTTGAT
953789 AAAAAAATTTCTCCCTCTTGAT
1 -AAAAAATTT-TCCCT-TTGAT
953811 AAAAA
1 AAAAA
953816 TATATTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.38
21 10 0.42
22 5 0.21
ACGTcount: A:0.43, C:0.17, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAAAATTTTCCCTTTGAT
Found at i:954460 original size:20 final size:22
Alignment explanation
Indices: 954418--954461 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
954408 GTAGTGGGTG
* *
954418 TGGGAGCTGCCTGGTTGCGACC
1 TGGGAGCTGCCTGATTGCAACC
954440 TGGGAG-TGCC-GATTGCAACC
1 TGGGAGCTGCCTGATTGCAACC
954460 TG
1 TG
954462 AAGGTGGCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.50
21 4 0.20
22 6 0.30
ACGTcount: A:0.14, C:0.25, G:0.39, T:0.23
Consensus pattern (22 bp):
TGGGAGCTGCCTGATTGCAACC
Found at i:954780 original size:22 final size:20
Alignment explanation
Indices: 954735--954787 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
954725 TTTGTTGATG
*
954735 ATTTTGATGAAAAATGAAGT
1 ATTTTGATGAAAAATGAAGA
954755 ATTTTGAAGTGAAAAAT-AAGA
1 ATTTTG-A-TGAAAAATGAAGA
*
954776 AATTTGATGAAA
1 ATTTTGATGAAA
954788 GGATGTTAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 5 0.17
20 7 0.24
21 9 0.31
22 8 0.28
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (20 bp):
ATTTTGATGAAAAATGAAGA
Found at i:954890 original size:13 final size:13
Alignment explanation
Indices: 954872--954897 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
954862 TAGTAACCCT
954872 TGTATCGATACAA
1 TGTATCGATACAA
954885 TGTATCGATACAA
1 TGTATCGATACAA
954898 AGAATATTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:958502 original size:19 final size:20
Alignment explanation
Indices: 958454--958509 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 20
958444 TAGCCAGTTT
* * *
958454 CATGTATCGATACATTTATC
1 CATGTATCGATACAATGATA
*
958474 CATATATCGATACAATGA-A
1 CATGTATCGATACAATGATA
958493 CATGTATCGATACAATG
1 CATGTATCGATACAATG
958510 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATGATA
Found at i:958512 original size:13 final size:13
Alignment explanation
Indices: 958494--958520 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
958484 TACAATGAAC
958494 ATGTATCGATACA
1 ATGTATCGATACA
958507 ATGTATCGATACA
1 ATGTATCGATACA
958520 A
1 A
958521 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:958536 original size:33 final size:32
Alignment explanation
Indices: 958478--958539 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
958468 TTTATCCATA
*
958478 TATCGATACAATGAACATGTATCGATACAATG
1 TATCGATACAAAGAACATGTATCGATACAATG
958510 TATCGATACAAAGCATA-ATGTATCGATACA
1 TATCGATACAAAG-A-ACATGTATCGATACA
958540 TCTAGGTGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACAATG
Found at i:963446 original size:28 final size:28
Alignment explanation
Indices: 963296--963792 Score: 520
Period size: 28 Copynumber: 17.5 Consensus size: 28
963286 CACCAATCTA
* * *
963296 TGTGGGCTTTAGAAGAGGTTACCACTAACT
1 TGTGGGCTTT-GAAAAGG-TGCCACTGACT
* *
963326 TGTGGGCTTTGAGAATGATGCCACTGACT
1 TGTGGGCTTTGA-AAAGGTGCCACTGACT
* *
963355 TGTGGGCTTTGAGAAGGATGCCACCGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
963384 TGTGGGCTTTGAGAAGGATGCCACCGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
963413 TGTGGG-TTTCGAAAAGGTGCCACTGACT
1 TGTGGGCTTT-GAAAAGGTGCCACTGACT
* *
963441 TATGGGCTTTG-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* * * *
963469 TGTGGGTTTTG-GAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
963497 TGTGGGCTTTG-AAAGGTACCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * *
963524 TGTGAGCTTTGAAAAGATGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
963552 TATGGGCTTT-AAAAGGATGCCACTGACA
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
963580 TATGGGCTTTGAAAAAAGATGCCACTGACT
1 TGTGGGCTTTG--AAAAGGTGCCACTGACT
*
963610 TGTGGGCTTTGAAAATGT-CTCACTGACT
1 TGTGGGCTTTGAAAAGGTGC-CACTGACT
* *
963638 TGTGGGCTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
963666 TATGGGCTTTGAAAAGGTGCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
963694 TGTGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * * *
963722 TATGGGCTTTGAAAATGTTCCATTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
963750 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
963778 TGTGGGCTTTGAAAA
1 TGTGGGCTTTGAAAA
963793 TGGTTATATT
Statistics
Matches: 400, Mismatches: 55, Indels: 26
0.83 0.11 0.05
Matches are distributed among these distances:
27 30 0.08
28 255 0.64
29 78 0.19
30 32 0.08
31 5 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:963820 original size:14 final size:14
Alignment explanation
Indices: 963801--963888 Score: 67
Period size: 14 Copynumber: 6.6 Consensus size: 14
963791 AATGGTTATA
963801 TTGACAAAAATTTC
1 TTGACAAAAATTTC
*
963815 TTGAC-AAAGTTTC
1 TTGACAAAAATTTC
*
963828 -TGACAAACA-TTC
1 TTGACAAAAATTTC
* *
963840 TCGACAAAAGTTT-
1 TTGACAAAAATTTC
* * *
963853 TTAACGATAATTTC
1 TTGACAAAAATTTC
**
963867 TTGACAACCATTTC
1 TTGACAAAAATTTC
963881 TTGACAAA
1 TTGACAAA
963889 TGGCGAATTG
Statistics
Matches: 54, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
12 7 0.13
13 23 0.43
14 24 0.44
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (14 bp):
TTGACAAAAATTTC
Found at i:963834 original size:26 final size:26
Alignment explanation
Indices: 963802--963873 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
963792 ATGGTTATAT
963802 TGACAAAAATTTCTTGACAAAGTTTC
1 TGACAAAAATTTCTTGACAAAGTTTC
* * *
963828 TGACAAACA-TTCTCGACAAAAGTTTT
1 TGACAAAAATTTCTTGAC-AAAGTTTC
* * *
963854 TAACGATAATTTCTTGACAA
1 TGACAAAAATTTCTTGACAA
963874 CCATTTCTTG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 7 0.19
26 22 0.61
27 7 0.19
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (26 bp):
TGACAAAAATTTCTTGACAAAGTTTC
Found at i:964086 original size:26 final size:26
Alignment explanation
Indices: 964036--964104 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
964026 TTTGAAGTGA
* * *
964036 TATTATGAATGCACGATGTTCAATGG
1 TATTATGAATGCATGATGTGCAATGC
*
964062 TATTATGAATGCATGATGTGGAATGC
1 TATTATGAATGCATGATGTGCAATGC
* **
964088 TATCATGGTTGCATGAT
1 TATTATGAATGCATGAT
964105 ACAAAGTCTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (26 bp):
TATTATGAATGCATGATGTGCAATGC
Found at i:971568 original size:80 final size:78
Alignment explanation
Indices: 971400--971808 Score: 441
Period size: 79 Copynumber: 5.2 Consensus size: 78
971390 GAGATAATAA
* * ** *
971400 CGGGGTTGGAGTAGCTCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGCGAAAAATTGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
*
971465 TTTAGAAATAAAAT
65 TTTAGAAATAAAAC
* * *
971479 TGGGATTGGAGTATCCCCTC-AGAAATAACGGTGTTGGAGTATCCCCCGACTATGAAAAATTGAT
1 CGGGGTTGGAGTATCCCCTCGA-AAATAACGG-GTTGGAGTAT-CCCCGATTATGAAAAATTGAT
971543 GTTTTAGAAA-ATAAAC
63 GTTTTAGAAATA-AAAC
* * * *
971559 CGGGGTTGGAGTACCCCCTCGAAAATAACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
*
971624 TTTAGAAATAAAAT
65 TTTAGAAATAAAAC
* * *
971638 CGGGGTTGGAGTATCCCCTCGAAAATAACAAGGTTGGAGTAT-CCC--TGATGAAATATTGATGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAAC-GGGTTGGAGTATCCCCGATTATGAAAAATTGATGT
971700 TTTAGAAATAAAAC
65 TTTAGAAATAAAAC
* * ** * * * * *
971714 CGGGGTTTGAGTGTCCCCTAAAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAGTCGGTGT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACG-GGTTGGAGTATCCCCGATTATGAAAAATTGATGT
* *
971779 TTTGGAAATAAAAT
65 TTTAGAAATAAAAC
**
971793 CGAAGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
971809 ACGATTATGG
Statistics
Matches: 276, Mismatches: 43, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
76 60 0.22
77 3 0.01
78 6 0.02
79 139 0.50
80 65 0.24
81 3 0.01
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTT
TTAGAAATAAAAC
Found at i:971787 original size:155 final size:156
Alignment explanation
Indices: 971400--971808 Score: 461
Period size: 159 Copynumber: 2.6 Consensus size: 156
971390 GAGATAATAA
* * ** * * *
971400 CGGGGTTGGAGTAGCTCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTGCGAAAAATTGATGA
1 CGGGGTTGGAGTACCCCCTAAAAAATAACGAGGTTGGAGTATCCCCGATTGTG-AAAATTGATGT
* * *
971465 TTTAGAAATAAAATTGGGATTGGAGTATCCCCTCAGAAATAACGGTGTTGGAGTATCCCCCGACT
65 TTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACAGTGTTGGAGTATCCCCCGA--
971530 ATGAAAAATTGATGTTTTAGAAAATAAAC
128 ATGAAAAATTGATGTTTTAGAAAATAAAC
** * * *
971559 CGGGGTTGGAGTACCCCCTCGAAAATAAC-AGGGTTGGAGTATCCCCGATTATGAGAAATTAATA
1 CGGGGTTGGAGTACCCCCTAAAAAATAACGA-GGTTGGAGTATCCCCGATTGTGA-AAATTGATG
*
971623 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC-GAAAATAACAAG-GTTGGAGTAT-CCCTG
64 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAG-AAATAAC-AGTGTTGGAGTATCCCCCG
*
971685 -ATGAAATATTGATGTTTTAG-AAATAAAAC
127 AATGAAAAATTGATGTTTTAGAAAAT-AAAC
* ** * * *
971714 CGGGGTTTGAGTGTCCCCTAAAAAATAACGAGGTTGAAGTATCCCCGATTGTGAAAAGTCGGTGT
1 CGGGGTTGGAGTACCCCCTAAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAA-TTGATGT
* **
971779 TTTGGAAATAAAATCGAAGTTGGAGTATCC
65 TTTAGAAATAAAATCGGGGTTGGAGTATCC
971809 ACGATTATGG
Statistics
Matches: 216, Mismatches: 27, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
154 7 0.03
155 98 0.45
156 1 0.00
158 6 0.03
159 103 0.48
160 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (156 bp):
CGGGGTTGGAGTACCCCCTAAAAAATAACGAGGTTGGAGTATCCCCGATTGTGAAAATTGATGTT
TTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAGAAATAACAGTGTTGGAGTATCCCCCGAATG
AAAAATTGATGTTTTAGAAAATAAAC
Found at i:971909 original size:51 final size:51
Alignment explanation
Indices: 971746--971924 Score: 218
Period size: 51 Copynumber: 3.5 Consensus size: 51
971736 AAATAACGAG
* * * * *
971746 GTTGAAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
971797 GTTGGAGTATCCACGATTATGGAAAATTGGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
971848 GTTGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATAAAACCGG-
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *
971898 GATTGGCGTATCCCCGA-GATGAAAAAT
1 G-TTGGAGTATCCCCGATTATGAAAAAT
971925 CTAGAAATTT
Statistics
Matches: 110, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
50 9 0.08
51 101 0.92
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:973950 original size:32 final size:30
Alignment explanation
Indices: 973914--973972 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
973904 GAAATCAAAT
973914 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
973946 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
973973 CTTTGAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:974288 original size:13 final size:13
Alignment explanation
Indices: 974270--974295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
974260 ACAATTTTTG
974270 TGTATCGATACAT
1 TGTATCGATACAT
974283 TGTATCGATACAT
1 TGTATCGATACAT
974296 ACTTGGTGTA
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:974292 original size:32 final size:32
Alignment explanation
Indices: 974251--974313 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
974241 TACAAGCCAA
* *
974251 TGTATCGATACA-ATTTTTGTGTATCGATACAT
1 TGTATCGATACATA-CTTGGTGTATCGATACAT
974283 TGTATCGATACATACTTGGTGTATCGATACA
1 TGTATCGATACATACTTGGTGTATCGATACA
974314 AGTTTAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATACTTGGTGTATCGATACAT
Found at i:980816 original size:21 final size:21
Alignment explanation
Indices: 980787--980831 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
980777 AAGTTTTTAT
*
980787 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
980807 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
980829 TTT
1 TTT
980832 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:982758 original size:32 final size:30
Alignment explanation
Indices: 982722--982780 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
982712 GAAATCAAAT
982722 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
982754 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
982781 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:983095 original size:32 final size:32
Alignment explanation
Indices: 983041--983103 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
983031 TACAAGCCAA
* *
983041 TGTATCGATACAATTTTTGTGTATCAATACAT
1 TGTATCGATACAATCTTGGTGTATCAATACAT
*
983073 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAAT-CTTGGTGTATCAATACA
983104 AGTTTAGCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 2 0.07
32 25 0.93
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACAATCTTGGTGTATCAATACAT
Found at i:984232 original size:20 final size:19
Alignment explanation
Indices: 984207--984280 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
984197 AAAATGCCTG
*
984207 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
984227 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
984247 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
984267 AATGTACCGATACA
1 AATGTATCGATACA
984281 TCTGGGTAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:984333 original size:20 final size:20
Alignment explanation
Indices: 984307--984363 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
984297 GTGTATCGAT
984307 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
984327 GCAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* *
984347 ACAATGCATCAATACAA
1 ACAATGTATCGATACAA
984364 ATTGTGAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.23
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:984344 original size:13 final size:13
Alignment explanation
Indices: 984298--984325 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
984288 AAACCCAGAG
984298 TGTATCGATACAA
1 TGTATCGATACAA
984311 TGTATCGATACAA
1 TGTATCGATACAA
984324 TG
1 TG
984326 AGCAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:984872 original size:124 final size:124
Alignment explanation
Indices: 984652--984899 Score: 487
Period size: 124 Copynumber: 2.0 Consensus size: 124
984642 AACTCCTTGC
*
984652 ATGTTTGTAAGGTATGACCTACACCAGTGTGGAAGTCATATAAGTTGTCGAGCTTATCTTCCAAC
1 ATGTTTGTAAGGTATGACCTACACCAGTGTGGAAGTCATAGAAGTTGTCGAGCTTATCTTCCAAC
984717 TTCTTTGCTGCATTAAGCAATCTGACTTGACTCAATGCTTCCCAGACTAAGAACATTGG
66 TTCTTTGCTGCATTAAGCAATCTGACTTGACTCAATGCTTCCCAGACTAAGAACATTGG
984776 ATGTTTGTAAGGTATGACCTACACCAGTGTGGAAGTCATAGAAGTTGTCGAGCTTATCTTCCAAC
1 ATGTTTGTAAGGTATGACCTACACCAGTGTGGAAGTCATAGAAGTTGTCGAGCTTATCTTCCAAC
984841 TTCTTTGCTGCATTAAGCAATCTGACTTGACTCAATGCTTCCCAGACTAAGAACATTGG
66 TTCTTTGCTGCATTAAGCAATCTGACTTGACTCAATGCTTCCCAGACTAAGAACATTGG
984900 CATCCTTACT
Statistics
Matches: 123, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
124 123 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (124 bp):
ATGTTTGTAAGGTATGACCTACACCAGTGTGGAAGTCATAGAAGTTGTCGAGCTTATCTTCCAAC
TTCTTTGCTGCATTAAGCAATCTGACTTGACTCAATGCTTCCCAGACTAAGAACATTGG
Found at i:986543 original size:13 final size:13
Alignment explanation
Indices: 986525--986549 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
986515 ATAATGCACA
986525 GTATCGATACATT
1 GTATCGATACATT
986538 GTATCGATACAT
1 GTATCGATACAT
986550 GACCAAATGT
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):
GTATCGATACATT
Found at i:987678 original size:79 final size:79
Alignment explanation
Indices: 987542--987711 Score: 207
Period size: 79 Copynumber: 2.2 Consensus size: 79
987532 ACGACGGGGC
* * * * *
987542 TGGAGTACCCCTGATTATGGAAAATCGGTGTTCTAAAAATAAAATCGGGGTTTGAGTATCCCCTT
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTAAAAATAAAATCAGGGTTGGAGTAT-CCCTT
**
987607 -GGAAATAACAAGGT
65 CAAAAATAACAAGGT
* * * *
987621 TGGAGTATCCCTAATTATAGCAAATTGGTGTTTTGAAAATAAAATCAGGGTTGGAGTATCCCTTC
1 TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTAAAAATAAAATCAGGGTTGGAGTATCCCTTC
* *
987686 AAAAATAATAGGGT
66 AAAAATAACAAGGT
987700 TGGAGTATCCCT
1 TGGAGTATCCCT
987712 GCAAAAATAA
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 5 0.06
79 72 0.94
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (79 bp):
TGGAGTATCCCTAATTATAGAAAATCGGTGTTCTAAAAATAAAATCAGGGTTGGAGTATCCCTTC
AAAAATAACAAGGT
Found at i:987701 original size:28 final size:27
Alignment explanation
Indices: 987667--987738 Score: 108
Period size: 28 Copynumber: 2.6 Consensus size: 27
987657 AAATAAAATC
*
987667 AGGGTTGGAGTATCCCTTCAAAAATAA
1 AGGGTTGGAGTATCCCTGCAAAAATAA
987694 TAGGGTTGGAGTATCCCTGCAAAAATAA
1 -AGGGTTGGAGTATCCCTGCAAAAATAA
*
987722 CGGGATTGGAGTATCCC
1 AGGG-TTGGAGTATCCC
987739 CGATTGTGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
27 3 0.07
28 38 0.93
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (27 bp):
AGGGTTGGAGTATCCCTGCAAAAATAA
Found at i:987943 original size:78 final size:78
Alignment explanation
Indices: 987695--987900 Score: 340
Period size: 78 Copynumber: 2.6 Consensus size: 78
987685 CAAAAATAAT
* *
987695 AGGGTTGGAGTATCCCTGCAAAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAATCAATATT
1 AGGGTTGGAGTATCCCT-CAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATT
987760 TTAGGAATAAAACC
65 TTAGGAATAAAACC
* *
987774 GGGGTTGGAGTATCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
1 AGGGTTGGAGTATCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
*
987839 TAGGAATAAAGCC
66 TAGGAATAAAACC
*
987852 AGGGTTGGAGTATCCTCTCAGAAATAACGGGGTTAGAGTATCCCCGATT
1 AGGGTTGGAGTATCC-CTCAGAAATAACGGGGTTGGAGTATCCCCGATT
987901 ATAGAAAATC
Statistics
Matches: 118, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
78 71 0.60
79 47 0.40
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (78 bp):
AGGGTTGGAGTATCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTT
TAGGAATAAAACC
Found at i:987946 original size:50 final size:49
Alignment explanation
Indices: 987887--988059 Score: 204
Period size: 51 Copynumber: 3.4 Consensus size: 49
987877 AACGGGGTTA
** *
987887 GAGTATCCCCGATTATAGAAAATCGGTGTTTTGAAAATAAAACCGTGTTG
1 GAGTATCCCCGATTAT-GAAAATTAGTGTTTTGAAAATAAAACCGAGTTG
* * *
987937 GAGTATCCCCGATTGTGGAAAATTAGTGTTTCGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTAT-GAAAATTAGTGTTTTGAAAATAAAA-CCGAGTTG
* *
987988 GAGTATCCCCGATTGTGAAAAATTAGTGTTTT-AGAAATAAAACCGGGGTTG
1 GAGTATCCCCGATTATG-AAAATTAGTGTTTTGA-AAATAAAACC-GAGTTG
*
988039 GAGTACCCCCGATTATGAAAA
1 GAGTATCCCCGATTATGAAAA
988060 ATTGAGAAAC
Statistics
Matches: 107, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
50 44 0.41
51 63 0.59
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (49 bp):
GAGTATCCCCGATTATGAAAATTAGTGTTTTGAAAATAAAACCGAGTTG
Found at i:990404 original size:13 final size:13
Alignment explanation
Indices: 990356--990385 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
990346 AAAATGCCTG
990356 AATGTATCGATAC
1 AATGTATCGATAC
990369 AATGTATCGATAC
1 AATGTATCGATAC
990382 AATG
1 AATG
990386 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:990444 original size:20 final size:19
Alignment explanation
Indices: 990369--990442 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 19
990359 GTATCGATAC
*
990369 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
990389 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
*
990409 AATGTATCGATACATTGAA
1 AATGTATCGATACAATGAA
990428 TAATGTATCGATACA
1 -AATGTATCGATACA
990443 TTTCCCTGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 2 0.04
20 47 0.94
21 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:991373 original size:61 final size:57
Alignment explanation
Indices: 991285--991887 Score: 655
Period size: 55 Copynumber: 10.4 Consensus size: 57
991275 ATAAAGTGCA
* * * *
991285 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGCGTGGGCTTTGAAAAGGAAAAGTG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTG-AAA-G--AAGCG
* ** *
991346 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAGAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG--AA-AG-AAGCG
*
991407 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT--AAGAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCG
* * *
991462 TCCTGCTCCTTGAGAACTGGAAAATGCCACCAACTTGTGTTGGCTTTGAAAG--GCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCG
*
991517 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG--AA-GCG
*
991578 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTG-AAAG---AAGCG
* *
991639 TCCTGCTCTTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAG--GCA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCG
* *
991694 TCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAG--GCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCG
* *
991749 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAG--GCG
1 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCG
*
991804 T-CTAGCTCTTTGAGGACT--AAAAGGTAG-CAACAACTTGTGTGGGCTTTGAAAGGAAAAGACG
1 TCCT-GCTCTTTGAGGACTGGAAAA--T-GCCACCAACTTGTGTGGGCTTTGAAA-G--AAG-CG
*
991865 TCTTGCTCTTTGAGGACT-GAAAA
1 TCCTGCTCTTTGAGGACTGGAAAA
991888 GTGAAAGGGG
Statistics
Matches: 483, Mismatches: 34, Indels: 49
0.85 0.06 0.09
Matches are distributed among these distances:
54 9 0.02
55 232 0.48
56 8 0.02
57 4 0.01
60 5 0.01
61 209 0.43
62 15 0.03
63 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (57 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAGCG
Found at i:991689 original size:28 final size:28
Alignment explanation
Indices: 991658--991744 Score: 72
Period size: 28 Copynumber: 3.1 Consensus size: 28
991648 TTAAGGACTG
*
991658 GAAAATGCCACCAACTTGTGTGGGCTTT
1 GAAAATGCCACCAACTTATGTGGGCTTT
* * * * * *
991686 G-AAA-GGCATCCTACTCTTTGAGGAC-TG
1 GAAAATGCCA-CCAACT-TATGTGGGCTTT
991713 GAAAATGCCACCAACTTATGTGGGCTTT
1 GAAAATGCCACCAACTTATGTGGGCTTT
991741 GAAA
1 GAAA
991745 GGCGTCCTGC
Statistics
Matches: 42, Mismatches: 12, Indels: 10
0.66 0.19 0.16
Matches are distributed among these distances:
26 3 0.07
27 16 0.38
28 20 0.48
29 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (28 bp):
GAAAATGCCACCAACTTATGTGGGCTTT
Found at i:991715 original size:232 final size:229
Alignment explanation
Indices: 991285--991887 Score: 807
Period size: 232 Copynumber: 2.6 Consensus size: 229
991275 ATAAAGTGCA
* * * *
991285 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGCGTGGGCTTTGAAAAGGAAAA-GTGTCC
1 TCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAA-GAAAAGGCGTCC
** *
991349 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGTAAAGAGAAAGCATCCTGCT
64 TGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAAGCATCCTGCT
* *
991414 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCGTCCTGCTCCTTGAGAAC
127 CTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTCCTTGAGAAC
* *
991479 TGGAAAATGCCACCAACTTGTGTTGGCTTTGAAAGGCG
192 TGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCG
*
991517 TCCTGCTCTTTGAGGATTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCT
991582 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTC
65 GCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG-AAAGAAAAAGCATCCTGCTC
* * *
991647 TTTAAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGCATCCTACTCTTTGAGGAC
128 TTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAGAGGCATCCTACTCCTTGAGAAC
991711 TGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCG
192 TGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCG
* *
991749 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAGCTTGTGTGGGCTTT-----G-AAAGGCGT-CT
1 TCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCT
* * * *
991807 AGCTCTTTGAGGACT-AAAAGGTAG-CAACAACTTGTGTGGGCTTTGAAAGGAAAAGACGTCTTG
65 -GCTCTTTGAGGACTGAAAA--T-GCCACCAACTTGTGTGGGCTTTGAAAGAAAAAG-CATCCTG
991870 CTCTTTGAGGACT-GAAAA
125 CTCTTTGAGGACTGGAAAA
991888 GTGAAAGGGG
Statistics
Matches: 337, Mismatches: 25, Indels: 25
0.87 0.06 0.06
Matches are distributed among these distances:
224 4 0.01
225 16 0.05
226 60 0.18
227 2 0.01
231 9 0.03
232 240 0.71
233 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (229 bp):
TCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAGGCGTCCTG
CTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGCATCCTGCTCTTT
GAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAGAGGCATCCTACTCCTTGAGAACTGGA
AAATGCCACCAACTTATGTGGGCTTTGAAAGGCG
Found at i:992864 original size:1 final size:1
Alignment explanation
Indices: 992860--992917 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
992850 TTCTTCTCTA
* * * * * * *
992860 TTTTTTCTTTGTTTTTTTTTGTTTTTTTGTTTTTTTTATTTTTTTTGTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
992918 AAAAAGAATG
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:992884 original size:9 final size:9
Alignment explanation
Indices: 992861--992915 Score: 67
Period size: 9 Copynumber: 5.9 Consensus size: 9
992851 TCTTCTCTAT
992861 TTTTTCTTTG
1 TTTTT-TTTG
992871 TTTTTTTT-
1 TTTTTTTTG
992879 TGTTTTTTTG
1 T-TTTTTTTG
*
992889 TTTTTTTTA
1 TTTTTTTTG
992898 TTTTTTTTG
1 TTTTTTTTG
992907 TTGTTTTTT
1 TT-TTTTTT
992916 TTAAAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
8 1 0.03
9 27 0.68
10 12 0.30
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.87
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:992884 original size:21 final size:20
Alignment explanation
Indices: 992858--992918 Score: 81
Period size: 21 Copynumber: 3.1 Consensus size: 20
992848 TTTTCTTCTC
*
992858 TATTTTTTCTTTG-TTTTTT
1 TATTTTTTTTTTGTTTTTTT
*
992877 T-TTGTTTTTTTGTTTTTTT
1 TATTTTTTTTTTGTTTTTTT
992896 TATTTTTTTTGTTGTTTTTTT
1 TATTTTTTTT-TTGTTTTTTT
992917 TA
1 TA
992919 AAAAGAATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
18 9 0.25
19 8 0.22
20 7 0.19
21 12 0.33
ACGTcount: A:0.05, C:0.02, G:0.08, T:0.85
Consensus pattern (20 bp):
TATTTTTTTTTTGTTTTTTT
Found at i:992890 original size:18 final size:17
Alignment explanation
Indices: 992860--992917 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 17
992850 TTCTTCTCTA
*
992860 TTTTTTCTTTGTTTTTT
1 TTTTTTTTTTGTTTTTT
992877 TTTGTTTTTTTGTTTTTT
1 TTT-TTTTTTTGTTTTTT
992895 TTATTTTTTTTGTTGTTTT
1 TT-TTTTTTTTGTT-TTTT
992914 TTTT
1 TTTT
992918 AAAAAGAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 3 0.08
18 27 0.73
19 7 0.19
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTTT
Found at i:998763 original size:19 final size:18
Alignment explanation
Indices: 998738--998802 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
998728 ATTTCAACGA
998738 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
998756 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
998772 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
998788 TTTTGTATCGATACA
1 -TTTGTATCGATACA
998803 ATGTAAGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:998781 original size:32 final size:32
Alignment explanation
Indices: 998740--998807 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
998730 TTCAACGATT
998740 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
* *
998772 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCAATACAA
998804 TGTA
1 TGTA
998808 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCAATACAA
Found at i:998863 original size:13 final size:13
Alignment explanation
Indices: 998845--998869 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
998835 ATTACTCAAA
998845 TGTATCGATACAT
1 TGTATCGATACAT
998858 TGTATCGATACA
1 TGTATCGATACA
998870 CTGATCTTTG
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:998919 original size:52 final size:52
Alignment explanation
Indices: 998878--999006 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 52
998868 CACTGATCTT
* *
998878 TGCATCGATACATGCTGCCAAATTTGCCAAGATGTATCGATACACTATAAAA
1 TGCATCGATACATGCAGCCAAATTTGCCAACATGTATCGATACACTATAAAA
* ** * *
998930 TGTATCGATACATGCAGGTAAATTTGCCTACATGTATCGATACACTATGAAA
1 TGCATCGATACATGCAGCCAAATTTGCCAACATGTATCGATACACTATAAAA
* *
998982 TGTATCGATACATGCAGGCAAATTT
1 TGCATCGATACATGCAGCCAAATTT
999007 TCATATTTTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (52 bp):
TGCATCGATACATGCAGCCAAATTTGCCAACATGTATCGATACACTATAAAA
Found at i:1012871 original size:22 final size:22
Alignment explanation
Indices: 1012843--1012909 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
1012833 CCACAAAAGA
* *
1012843 AAAAAAACCAAATAAA-TAAAAC
1 AAAAAAA-CAAAAAAACAAAAAC
1012865 AAAAAAACAAAAACAA-AAAAAC
1 AAAAAAACAAAAA-AACAAAAAC
*
1012887 AAACAAAAAAAAACAAACAAAAA
1 AAA-AAAACAAAA-AAACAAAAA
1012910 GGGTCCGGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
21 5 0.13
22 17 0.45
23 10 0.26
24 6 0.16
ACGTcount: A:0.84, C:0.13, G:0.00, T:0.03
Consensus pattern (22 bp):
AAAAAAACAAAAAAACAAAAAC
Found at i:1012876 original size:36 final size:37
Alignment explanation
Indices: 1012835--1012908 Score: 91
Period size: 36 Copynumber: 2.0 Consensus size: 37
1012825 GGCGTCCTCC
* *
1012835 ACAAAAGA-AAAAAAACCAAA-TAAATAAAACAAA-AAA
1 ACAAAA-ACAAAAAAA-CAAACAAAAAAAAACAAACAAA
1012871 ACAAAAACAAAAAAACAAACAAAAAAAAACAAACAAA
1 ACAAAAACAAAAAAACAAACAAAAAAAAACAAACAAA
1012908 A
1 A
1012909 AGGGTCCGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
35 5 0.15
36 24 0.73
37 4 0.12
ACGTcount: A:0.82, C:0.14, G:0.01, T:0.03
Consensus pattern (37 bp):
ACAAAAACAAAAAAACAAACAAAAAAAAACAAACAAA
Found at i:1012877 original size:14 final size:14
Alignment explanation
Indices: 1012860--1012903 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
1012850 CCAAATAAAT
1012860 AAAACAAAAAAACA
1 AAAACAAAAAAACA
1012874 AAAACAAAAAAACA
1 AAAACAAAAAAACA
1012888 AACAA-AAAAAAACA
1 AA-AACAAAAAAACA
1012902 AA
1 AA
1012904 CAAAAAGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 27 0.93
15 2 0.07
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAACAAAAAAACA
Found at i:1012904 original size:14 final size:14
Alignment explanation
Indices: 1012865--1012909 Score: 74
Period size: 14 Copynumber: 3.2 Consensus size: 14
1012855 TAAATAAAAC
1012865 AAAAAAACAAA-AA
1 AAAAAAACAAACAA
1012878 CAAAAAAACAAACAA
1 -AAAAAAACAAACAA
1012893 AAAAAAACAAACAA
1 AAAAAAACAAACAA
1012907 AAA
1 AAA
1012910 GGGTCCGGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 28 0.93
15 2 0.07
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAACAAACAA
Found at i:1014383 original size:29 final size:28
Alignment explanation
Indices: 1014340--1014441 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 28
1014330 TATTCCTCAG
* *
1014340 CCTTCAAAAGCCCACAAGTCAGTGGTAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
1014368 CTCTTCAAAAGCCCACAAGTCAGTGGCAA
1 C-CTTCAAAAGCCCACAAGTCAGTGGCAA
* **
1014397 CCTTCAAAAGCACACAAGTTGGT-GCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
1014424 CCCTTTCAAAAGCCCACA
1 -CC-TTCAAAAGCCCACA
1014442 CAAGTTGGTG
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
27 4 0.06
28 22 0.34
29 39 0.60
ACGTcount: A:0.34, C:0.31, G:0.16, T:0.19
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:1014445 original size:31 final size:28
Alignment explanation
Indices: 1014370--1014451 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1014360 AGTGGTATCT
**
1014370 CTTCAAAAGCC-CACAAGTCAGTGGCAAC
1 CTTCAAAAGCCACACAAGTTGGT-GCAAC
1014398 CTTCAAAAG-CACACAAGTTGGTGCAACC
1 CTTCAAAAGCCACACAAGTTGGTGCAA-C
1014426 CTTTCAAAAGCCCACACAAGTTGGTG
1 C-TTCAAAAG-CCACACAAGTTGGTG
1014452 GCATCTTCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.11
28 20 0.43
29 8 0.17
31 14 0.30
ACGTcount: A:0.34, C:0.29, G:0.18, T:0.18
Consensus pattern (28 bp):
CTTCAAAAGCCACACAAGTTGGTGCAAC
Found at i:1014529 original size:49 final size:49
Alignment explanation
Indices: 1014455--1014642 Score: 217
Period size: 43 Copynumber: 3.9 Consensus size: 49
1014445 GTTGGTGGCA
* *
1014455 TCTTCTTCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
1 TCTTCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
*
1014505 TCTTCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
* *
1014551 -C--CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCACCTTT
1 TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--T
* * * *
1014599 TCCATCTTTAAGTTCAATGTAGCTCGCCTTGAATCAGCACATTG
1 T-CTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
1014643 ACATCCTTTT
Statistics
Matches: 118, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
43 39 0.33
45 1 0.01
49 36 0.31
50 8 0.07
52 34 0.29
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (49 bp):
TCTTCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCT
Found at i:1014554 original size:21 final size:21
Alignment explanation
Indices: 1014530--1014597 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
1014520 ATGTAGCTGG
*
1014530 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCATATTGGCA
* **
1014551 CCTTTAAGTCCAATATAGTTGG--
1 CCTTGAA-T-CAGCATA-TTGGCA
1014573 CCTTGAATCAGCATATTGGCA
1 CCTTGAATCAGCATATTGGCA
1014594 CCTT
1 CCTT
1014598 TTCCATCTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 10
0.67 0.13 0.19
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 11 0.31
22 7 0.20
23 4 0.11
24 4 0.11
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTTGAATCAGCATATTGGCA
Found at i:1014631 original size:52 final size:53
Alignment explanation
Indices: 1014552--1014652 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
1014542 ACATTGGCAC
* * * *
1014552 CTTTAAGTCCAATATAGTTGGCCTTGAATCAGCATATTGGCA-CCTTTTCCAT
1 CTTTAAGTCCAATATAGCTCGCCTTGAATCAGCACATTGACATCCTTTTCCAT
* *
1014604 CTTTAAGTTCAATGTAGCTCGCCTTGAATCAGCACATTGACATCCTTTT
1 CTTTAAGTCCAATATAGCTCGCCTTGAATCAGCACATTGACATCCTTTT
1014653 TCTCATATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
52 36 0.86
53 6 0.14
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.37
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTCGCCTTGAATCAGCACATTGACATCCTTTTCCAT
Found at i:1015316 original size:13 final size:13
Alignment explanation
Indices: 1015298--1015322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1015288 CATAAAATGT
1015298 TGTATCGATACAA
1 TGTATCGATACAA
1015311 TGTATCGATACA
1 TGTATCGATACA
1015323 TAAGTTTTGT
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:1015338 original size:32 final size:33
Alignment explanation
Indices: 1015278--1015346 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
1015268 TTCAACGATT
1015278 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
* *
1015311 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1015343 TGTA
1 TGTA
1015347 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 21 0.62
33 13 0.38
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1015402 original size:13 final size:13
Alignment explanation
Indices: 1015384--1015408 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1015374 ATTACTCAAA
1015384 TGTATCGATACAT
1 TGTATCGATACAT
1015397 TGTATCGATACA
1 TGTATCGATACA
1015409 CTGATCTTTG
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:1015459 original size:52 final size:52
Alignment explanation
Indices: 1015417--1015545 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1015407 CACTGATCTT
*
1015417 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1015469 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1015521 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1015546 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1021056 original size:20 final size:19
Alignment explanation
Indices: 1021031--1021109 Score: 104
Period size: 20 Copynumber: 4.0 Consensus size: 19
1021021 AAAATGCCTG
*
1021031 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
1021051 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
*
1021071 GATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
1021091 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
1021110 TCGATACATT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.06
20 48 0.92
21 1 0.02
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.28
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1021093 original size:40 final size:40
Alignment explanation
Indices: 1021032--1021108 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
1021022 AAATGCCTGA
* *
1021032 ATGTATCGATACATTGTAAAATGTATCGATACAATGAGCG
1 ATGTATCGATACAATGCAAAATGTATCGATACAATGAGCG
1021072 ATGTATCGATACAATGCAAAATGTATCGATACAATGA
1 ATGTATCGATACAATGCAAAATGTATCGATACAATGA
1021109 ATCGATACAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (40 bp):
ATGTATCGATACAATGCAAAATGTATCGATACAATGAGCG
Found at i:1021542 original size:33 final size:33
Alignment explanation
Indices: 1021500--1021568 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1021490 CATTAACTGT
*
1021500 TTGTATCGATACA-GACAAAAATGTATTGATACA
1 TTGTATCGATACATGAC-AAAATGTATCGATACA
*
1021533 TTGTATCGATACATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACAAAATGTATCGATACA
1021566 TTG
1 TTG
1021569 GCTTGTAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATGACAAAATGTATCGATACA
Found at i:1030219 original size:13 final size:13
Alignment explanation
Indices: 1030201--1030225 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1030191 ATAATGCACA
1030201 GTATCGATACATT
1 GTATCGATACATT
1030214 GTATCGATACAT
1 GTATCGATACAT
1030226 GACCAAATGT
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):
GTATCGATACATT
Found at i:1030339 original size:33 final size:33
Alignment explanation
Indices: 1030295--1030363 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1030285 CCTTAACTGT
1030295 TTGTATCGATACA-GACAAAAATGTATCGATACA
1 TTGTATCGATACATGAC-AAAATGTATCGATACA
* *
1030328 TTGTATTGATACATGACCAAATGTATCGATACA
1 TTGTATCGATACATGACAAAATGTATCGATACA
1030361 TTG
1 TTG
1030364 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACATGACAAAATGTATCGATACA
Found at i:1036331 original size:15 final size:15
Alignment explanation
Indices: 1036289--1036336 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
1036279 GCCGTGTATC
*
1036289 GATGATTTTATGGTG
1 GATGATTTTGTGGTG
* * **
1036304 GGTAATTGGGTGGTG
1 GATGATTTTGTGGTG
1036319 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
1036334 GAT
1 GAT
1036337 TTGGCGGAAT
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:1044247 original size:51 final size:51
Alignment explanation
Indices: 1044152--1044295 Score: 189
Period size: 51 Copynumber: 2.8 Consensus size: 51
1044142 TAACTAGATG
* * * *
1044152 TATCAGTACATTGCAAAATGTATTGATATATCTGGGTAAAAAGACAGAATG
1 TATCAATACATTGAAAAATGTATTGATACATCTGGGTAAAAAGACAGAATA
* * * *
1044203 TGTCAATATATTGAAAAAAGTATTGATACATCTGGGTAAAAAGACATAATA
1 TATCAATACATTGAAAAATGTATTGATACATCTGGGTAAAAAGACAGAATA
* * *
1044254 TATCGATACATTGAACAATGTATCGATACATCTGGGTAAAAA
1 TATCAATACATTGAAAAATGTATTGATACATCTGGGTAAAAA
1044296 TGTGACTTTT
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 79 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.29
Consensus pattern (51 bp):
TATCAATACATTGAAAAATGTATTGATACATCTGGGTAAAAAGACAGAATA
Found at i:1049701 original size:21 final size:21
Alignment explanation
Indices: 1049668--1049717 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
1049658 TTGCAAGTTG
*
1049668 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1049690 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
1049711 AAATAAA
1 AAATAAA
1049718 AACTTGCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1051533 original size:15 final size:15
Alignment explanation
Indices: 1051515--1051545 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1051505 TAAAAATGTC
*
1051515 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1051530 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1051545 C
1 C
1051546 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1053644 original size:13 final size:14
Alignment explanation
Indices: 1053626--1053663 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
1053616 CATTTTTCTT
1053626 TGTATCGATACAA-
1 TGTATCGATACAAC
1053639 TGTATCGATA-AAC
1 TGTATCGATACAAC
1053652 TGTATCGATACA
1 TGTATCGATACA
1053664 GAGGGATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 2 0.09
13 20 0.87
14 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (14 bp):
TGTATCGATACAAC
Found at i:1053818 original size:20 final size:20
Alignment explanation
Indices: 1053775--1053820 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1053765 AAATCTTTTG
1053775 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1053796 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1053816 CAAAA
1 CAAAA
1053821 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1056215 original size:13 final size:13
Alignment explanation
Indices: 1056197--1056222 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1056187 TACACAAAAT
1056197 ATGTATCGATACA
1 ATGTATCGATACA
1056210 ATGTATCGATACA
1 ATGTATCGATACA
1056223 CATAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1056235 original size:34 final size:32
Alignment explanation
Indices: 1056179--1056243 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 32
1056169 TAGCCAAACT
1056179 TGTATCAATACACAAAATATGTATCGATACAA
1 TGTATCAATACACAAAATATGTATCGATACAA
*
1056211 TGTATCGATACACATAAAATATGTATCGATACA
1 TGTATCAATACAC--AAAATATGTATCGATACA
1056244 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 12 0.40
34 18 0.60
ACGTcount: A:0.45, C:0.15, G:0.11, T:0.29
Consensus pattern (32 bp):
TGTATCAATACACAAAATATGTATCGATACAA
Found at i:1057955 original size:33 final size:33
Alignment explanation
Indices: 1057909--1057999 Score: 130
Period size: 33 Copynumber: 2.8 Consensus size: 33
1057899 CAGATGTATT
*
1057909 GATACATTCTGCTTTGTATCGATACAATATATG
1 GATACATTCTGCTTTGTATCGATACAATATATC
* *
1057942 GATACATTATGCTTTGTATCGATACAATGTATC
1 GATACATTCTGCTTTGTATCGATACAATATATC
* *
1057975 GATACATGCT-CATTGTATCGATACA
1 GATACATTCTGCTTTGTATCGATACA
1058000 CACTTAATTG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 14 0.27
33 38 0.73
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.37
Consensus pattern (33 bp):
GATACATTCTGCTTTGTATCGATACAATATATC
Found at i:1057974 original size:13 final size:13
Alignment explanation
Indices: 1057956--1057980 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1057946 CATTATGCTT
1057956 TGTATCGATACAA
1 TGTATCGATACAA
1057969 TGTATCGATACA
1 TGTATCGATACA
1057981 TGCTCATTGT
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:1057993 original size:19 final size:20
Alignment explanation
Indices: 1057969--1058021 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1057959 ATCGATACAA
* *
1057969 TGTATCGATACATGC-TCAT
1 TGTATCGATACATACTTAAT
*
1057988 TGTATCGATACACACTTAAT
1 TGTATCGATACATACTTAAT
1058008 TGTATCGATACATA
1 TGTATCGATACATA
1058022 AAACTGCAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATACTTAAT
Found at i:1058554 original size:23 final size:25
Alignment explanation
Indices: 1058527--1058575 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
1058517 AACCTTCGGT
1058527 TATAATCTCTT-AAGA-ATT-TGAGG
1 TATAAT-TCTTAAAGAGATTGTGAGG
1058550 TATAATTCTTAAAGAGATTGTGAGG
1 TATAATTCTTAAAGAGATTGTGAGG
1058575 T
1 T
1058576 TCTTATCTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 10 0.43
24 3 0.13
25 6 0.26
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (25 bp):
TATAATTCTTAAAGAGATTGTGAGG
Found at i:1060444 original size:142 final size:139
Alignment explanation
Indices: 1060292--1060595 Score: 416
Period size: 142 Copynumber: 2.2 Consensus size: 139
1060282 AAAATCAGGG
* *
1060292 GATACGAAAAGTTTTAAAAATTTATATACTTCTAC-AGAAAACTATAGGAATATTAGAAACCTTG
1 GATACGAAAAGTTTTAAAAATTTATATACCTCTACGA-AAAACTATAGGAATATTAGAAACCATG
*
1060356 AAAAATTAAGACAATAATTTTTATTTAATTTATTAATTT-TAAAAAAATTCATTTCATACCTTAA
65 -AAAA-TAAGACAATAATTTTTATTTAATTT-TTAATTTCCAAAAAAA-TCATTTCATACCTTAA
* *
1060420 TGGAGAACCGAAAA
126 TAGAGAACCAAAAA
* ** * *
1060434 GATACAAAAAGTTTTGATGAA-TTCTATACCTCTACGAAAAACTATAGGAATATTAGAAATCATG
1 GATACGAAAAGTTTT-AAAAATTTATATACCTCTACGAAAAACTATAGGAATATTAGAAACCATG
* *
1060498 AAAATAAGATAATAATTTTTATTTAATTTTTTATTTCCAAAAAAATCATTTCATACCTTAATAGA
65 AAAATAAGACAATAATTTTTATTTAATTTTTAATTTCCAAAAAAATCATTTCATACCTTAATAGA
*
1060563 GAATCAAAAA
130 GAACCAAAAA
1060573 GATACGAAAAGTTTTAAAAATTT
1 GATACGAAAAGTTTTAAAAATTT
1060596 TCATGCCCCC
Statistics
Matches: 142, Mismatches: 16, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
138 3 0.02
139 49 0.35
140 31 0.22
141 4 0.03
142 51 0.36
143 4 0.03
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (139 bp):
GATACGAAAAGTTTTAAAAATTTATATACCTCTACGAAAAACTATAGGAATATTAGAAACCATGA
AAATAAGACAATAATTTTTATTTAATTTTTAATTTCCAAAAAAATCATTTCATACCTTAATAGAG
AACCAAAAA
Found at i:1060625 original size:139 final size:142
Alignment explanation
Indices: 1060329--1060662 Score: 360
Period size: 139 Copynumber: 2.4 Consensus size: 142
1060319 ACTTCTACAG
* * *
1060329 AAAACTATAGGAATATTAGAAACCTTGAAAAATTAAGACAATAATTTTTATTTAATTTATTAATT
1 AAAACCATAGGAATATTAGAAATCATGAAAAATTAAGACAATAATTTTTATTTAATTTATTAATT
* * * **
1060394 TTAAAAAAATTCATTTCATACCTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGATGAATTCT
66 TCAAAAAAATTCATTTCATACCTTAATAGAGAACCAAAAAGATACAAAAAGTTTTGAAAAATTCT
* *
1060459 ATACCTCTACGA
131 ATACCCCCACGA
* * *
1060471 AAAACTATAGGAATATTAGAAATCATG-AAAA-TAAGATAATAATTTTTATTTAATTT-TTTATT
1 AAAACCATAGGAATATTAGAAATCATGAAAAATTAAGACAATAATTTTTATTTAATTTATTAATT
* * *
1060533 TCCAAAAAAA-TCATTTCATACCTTAATAGAGAATCAAAAAGATACGAAAAGTTTT-AAAAATTT
66 T-CAAAAAAATTCATTTCATACCTTAATAGAGAACCAAAAAGATACAAAAAGTTTTGAAAAATTC
*
1060596 TCATGCCCCCATCG-
130 T-ATACCCCCA-CGA
* * * * * *
1060610 ATACCCAT-GGAAATATTAGAAAT-ATTGAGAAATTAAGAAAATGATTTTCATTT
1 AAAACCATAGG-AATATTAGAAATCA-TGAAAAATTAAGACAATAATTTTTATTT
1060663 GGTGAAAAGA
Statistics
Matches: 163, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
138 9 0.06
139 72 0.44
140 36 0.22
141 21 0.13
142 25 0.15
ACGTcount: A:0.45, C:0.11, G:0.10, T:0.34
Consensus pattern (142 bp):
AAAACCATAGGAATATTAGAAATCATGAAAAATTAAGACAATAATTTTTATTTAATTTATTAATT
TCAAAAAAATTCATTTCATACCTTAATAGAGAACCAAAAAGATACAAAAAGTTTTGAAAAATTCT
ATACCCCCACGA
Found at i:1062185 original size:113 final size:113
Alignment explanation
Indices: 1061968--1062187 Score: 284
Period size: 113 Copynumber: 1.9 Consensus size: 113
1061958 ATAAGAAGAA
* * *
1061968 TGCCAATGTGCTAATTCAAGGCCAGTGACATTGGACTTAAAGATGAAAATAATGATAAATATGCT
1 TGCCAATATGCTAATTCAAGACCAGTGACATTGGACTTAAAGATGAAAATAATGATAAAGATGCT
* * * *
1062033 ATTATGCTGATTCAAGGCTAGTGATATTGGGTTTAAAGATGACAAAGG
66 ATTATGCTGATTCAAGACCAGTGATATCGGGCTTAAAGATGACAAAGG
*
1062081 TGCCAATATGCTAATTCAAGACCAGTGACATTGGACTTGAAA-ATGAGAAA-AATGATAAAGGTG
1 TGCCAATATGCTAATTCAAGACCAGTGACATTGGACTT-AAAGATGA-AAATAATGATAAAGATG
* * * *
1062144 TTGA-TATGCTGATTCTAGACCAGTGATGTCGGGCTTGAAGATGA
64 CT-ATTATGCTGATTCAAGACCAGTGATATCGGGCTTAAAGATGA
1062188 GAAGAATGAT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
113 85 0.92
114 7 0.08
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (113 bp):
TGCCAATATGCTAATTCAAGACCAGTGACATTGGACTTAAAGATGAAAATAATGATAAAGATGCT
ATTATGCTGATTCAAGACCAGTGATATCGGGCTTAAAGATGACAAAGG
Found at i:1062239 original size:61 final size:61
Alignment explanation
Indices: 1062071--1062248 Score: 205
Period size: 61 Copynumber: 2.9 Consensus size: 61
1062061 GGGTTTAAAG
* * * * *
1062071 ATGACAAAGGTGCCAATATGCTAATTCAAGACCAGTGACATTGGACTTGAAAATGAGAAAA
1 ATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAGATGAGAAAA
*** * * * *
1062132 ATGATAAAGGTGTTGATATGCTGATTCTAGACCAGTGATGTCGGGCTTGAAGATGAGAAGA
1 ATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAGATGAGAAAA
** *
1062193 ATGATAAAGGTGCCAATATGCTGATTCAA-AGCCAACGATATTGGGCTTAAAGATGA
1 ATGATAAAGGTGCCAATATGCTGATTCAAGA-CCAGTGATATTGGGCTTGAAGATGA
1062249 CAATGGTGCT
Statistics
Matches: 95, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
60 1 0.01
61 94 0.99
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (61 bp):
ATGATAAAGGTGCCAATATGCTGATTCAAGACCAGTGATATTGGGCTTGAAGATGAGAAAA
Found at i:1062328 original size:13 final size:13
Alignment explanation
Indices: 1062310--1062335 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1062300 GCCAATATAT
1062310 TTATTCATGGCCA
1 TTATTCATGGCCA
1062323 TTATTCATGGCCA
1 TTATTCATGGCCA
1062336 GCGACATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.38
Consensus pattern (13 bp):
TTATTCATGGCCA
Found at i:1062616 original size:32 final size:33
Alignment explanation
Indices: 1062580--1062732 Score: 163
Period size: 32 Copynumber: 4.7 Consensus size: 33
1062570 TGAAAAGATA
*
1062580 TGCCACTAACTTGTGTGGGCTTTAG-AGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
*
1062612 TGCCACCGACTTGTGTGGGCTTT-GAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
* * * *
1062644 TGCCACCGATTTGTGTAGGCTTTAGAAAACAAGGT
1 TGCCACCAACTTGTGTGGGCTTTAG--AAGAAGGT
* * *
1062679 TGCCA-TAGAC--GTGTGGCCTTTTGAAGAAGGT
1 TGCCACCA-ACTTGTGTGGGCTTTAGAAGAAGGT
1062710 TGCCACCAACTTGTGTGGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
1062733 TGAAAGGATT
Statistics
Matches: 99, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
31 15 0.15
32 50 0.51
33 21 0.21
35 13 0.13
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTAGAAGAAGGT
Found at i:1064089 original size:17 final size:17
Alignment explanation
Indices: 1064067--1064106 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1064057 ATCCGGACCC
*
1064067 TTTTTTCCTTTTTTTTG
1 TTTTTTCCTTTTTTTTA
**
1064084 TTTTTTGGTTTTTTTTA
1 TTTTTTCCTTTTTTTTA
1064101 TTTTTT
1 TTTTTT
1064107 TGTTTTTGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.85
Consensus pattern (17 bp):
TTTTTTCCTTTTTTTTA
Found at i:1064111 original size:17 final size:17
Alignment explanation
Indices: 1064075--1064113 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1064065 CCTTTTTTCC
*
1064075 TTTTTTTTGTTTTTTGG
1 TTTTTTTTATTTTTTGG
*
1064092 TTTTTTTTATTTTTTTG
1 TTTTTTTTATTTTTTGG
1064109 TTTTT
1 TTTTT
1064114 GATTAATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.10, T:0.87
Consensus pattern (17 bp):
TTTTTTTTATTTTTTGG
Found at i:1064123 original size:18 final size:18
Alignment explanation
Indices: 1064084--1064125 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
1064074 CTTTTTTTTG
*
1064084 TTTTTTGGTTTTT-TTTA
1 TTTTTTGGTTTTTATTAA
*
1064101 TTTTTTTGTTTTTGATTAA
1 TTTTTTGGTTTTT-ATTAA
1064120 TTTTTT
1 TTTTTT
1064126 ATTGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.81
Consensus pattern (18 bp):
TTTTTTGGTTTTTATTAA
Found at i:1064145 original size:22 final size:21
Alignment explanation
Indices: 1064094--1064146 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 21
1064084 TTTTTTGGTT
*
1064094 TTTTTTATTTTTTTGTTTTTGA
1 TTTTTT-TTTTATTGTTTTTGA
**
1064116 TTAATTTTTTATTGTATTTTGA
1 TTTTTTTTTTATTGT-TTTTGA
1064138 TTTTTTTTT
1 TTTTTTTTT
1064147 GTCTTTGTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTTATTGTTTTTGA
Found at i:1064159 original size:18 final size:17
Alignment explanation
Indices: 1064074--1064161 Score: 54
Period size: 18 Copynumber: 4.7 Consensus size: 17
1064064 CCCTTTTTTC
1064074 CTTTTTTTTGTTTTTTGGT
1 CTTTTTTTT-TTTTTT-GT
1064093 -TTTTTTTATTTTTTTGT
1 CTTTTTTT-TTTTTTTGT
1064110 -TTTTGATTAATTTTTTATTGT
1 CTTTT--TT--TTTTTT-TTGT
* *
1064131 ATTTTGATTTTTTTTTGT
1 CTTTT-TTTTTTTTTTGT
1064149 CTTTGTTTTTTTT
1 CTTT-TTTTTTTT
1064162 ATAAAGGATG
Statistics
Matches: 57, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
17 6 0.11
18 26 0.46
19 10 0.18
20 5 0.09
21 6 0.11
22 4 0.07
ACGTcount: A:0.08, C:0.02, G:0.10, T:0.80
Consensus pattern (17 bp):
CTTTTTTTTTTTTTTGT
Found at i:1079978 original size:141 final size:143
Alignment explanation
Indices: 1079827--1080132 Score: 456
Period size: 142 Copynumber: 2.2 Consensus size: 143
1079817 AAAATCAGGG
*** *
1079827 GATACGAAAAGTTTTGAAAATTTCTAT-CCTCTATGGAAAACCATAGCAATATTAGAAACCTTCA
1 GATACGAAAAGTTTTGAAAATTTCTATACCTCTACAAAAAACCATAGCAATATTAAAAACCTTCA
*
1079891 AAAATGAAGACAATAATTTTTATTTAATTTATTAATTTTTAAAAAATTCATTTCATACCTTAATG
66 AAAATGAAGACAATAATTTTTATTTAATTTATTAATTTTCAAAAAATTCATTTCATACCTTAATG
1079956 GAGAACC-AAAAA
131 GAGAACCGAAAAA
* ** * * *
1079968 GATACAAAAAGTTTTGATGATTTCTATACCTCTACAAAAAACCATAGGAATATTAAAAATCTTGA
1 GATACGAAAAGTTTTGAAAATTTCTATACCTCTACAAAAAACCATAGCAATATTAAAAACCTTCA
* * * *
1080033 AAAATTAAGATAATAATTTTTATTTAATTTTTTAATTTTCAAAAAATTCATTTCGTACCTTAATG
66 AAAATGAAGACAATAATTTTTATTTAATTTATTAATTTTCAAAAAATTCATTTCATACCTTAATG
1080098 GAGAACCGAAAAA
131 GAGAACCGAAAAA
1080111 -ATACGAAAAGTTTTGAAAATTT
1 GATACGAAAAGTTTTGAAAATTT
1080133 TCATGCCCCC
Statistics
Matches: 145, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
141 24 0.17
142 116 0.80
143 5 0.03
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.35
Consensus pattern (143 bp):
GATACGAAAAGTTTTGAAAATTTCTATACCTCTACAAAAAACCATAGCAATATTAAAAACCTTCA
AAAATGAAGACAATAATTTTTATTTAATTTATTAATTTTCAAAAAATTCATTTCATACCTTAATG
GAGAACCGAAAAA
Found at i:1080162 original size:142 final size:139
Alignment explanation
Indices: 1079827--1080199 Score: 453
Period size: 142 Copynumber: 2.6 Consensus size: 139
1079817 AAAATCAGGG
* *
1079827 GATACGAAAAGTTTTGAAAATTTCTATCCTCTATGGAAAACCATAGCAATATTAGAAACCTTCAA
1 GATACGAAAAGTTTTGAAAATTTCTATCCTCTATGGAAAACCAT-GGAATATTAGAAATCTT-AA
* * *
1079892 AAATGAAGACAATAATTTTTATTTAATTTATTAATTTTTAAAAAATTCATTTCATACCTTAATGG
64 AAATTAAGAAAATAATTTTTATTTAATTTATTAATTTTCAAAAAATTCATTTCATACCTTAATGG
1079957 AGAACCAAAAA
129 AGAACCAAAAA
* ** *** *
1079968 GATACAAAAAGTTTTGATGATTTCTATACCTCTACAAAAAACCATAGGAATATTAAAAATCTTGA
1 GATACGAAAAGTTTTGAAAATTTCTAT-CCTCTATGGAAAACCAT-GGAATATTAGAAATCTT-A
* * *
1080033 AAAATTAAGATAATAATTTTTATTTAATTTTTTAATTTTCAAAAAATTCATTTCGTACCTTAATG
63 AAAATTAAGAAAATAATTTTTATTTAATTTATTAATTTTCAAAAAATTCATTTCATACCTTAATG
1080098 GAGAACCGAAAAA
128 GAGAACC-AAAAA
* * * * *
1080111 -ATACGAAAAGTTTTGAAAATTT-TCATGCCCCCATGGACACCCATGGAAATATTAGAAATATTA
1 GATACGAAAAGTTTTGAAAATTTCT-AT-CCTCTATGGAAAACCATGG-AATATTAGAAATCTTA
*
1080174 AGAAATTAAGAAAATGATTTTTATTT
63 A-AAATTAAGAAAATAATTTTTATTT
1080200 GGTGAAAAGA
Statistics
Matches: 197, Mismatches: 30, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
141 29 0.15
142 163 0.83
143 5 0.03
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (139 bp):
GATACGAAAAGTTTTGAAAATTTCTATCCTCTATGGAAAACCATGGAATATTAGAAATCTTAAAA
ATTAAGAAAATAATTTTTATTTAATTTATTAATTTTCAAAAAATTCATTTCATACCTTAATGGAG
AACCAAAAA
Found at i:1081963 original size:50 final size:51
Alignment explanation
Indices: 1081878--1081992 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 51
1081868 AAATAATGGG
* **
1081878 GTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTGGAAATAAAA-CTGA
1 GTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTGAAAATAAAACCAAA
* * * *
1081928 GATTGGAGTATCCCTGATTGT-GAAAATTGGTGTTTTGAAAATAAAACCAAA
1 G-TTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTGAAAATAAAACCAAA
1081979 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1081993 TCAAAAATAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
50 35 0.64
51 20 0.36
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATAGTGGAAAATCGATGTTTTGAAAATAAAACCAAA
Found at i:1082140 original size:78 final size:77
Alignment explanation
Indices: 1081928--1082492 Score: 408
Period size: 79 Copynumber: 7.2 Consensus size: 77
1081918 ATAAAACTGA
* * ** * *
1081928 GATTGGAGTATCCCTGATTGTGAAAATTGGTGTTTT-GAAAATAAAACCAAAGTTGGAGTATCCC
1 GATTGGAGTATCCCCGATGGTGAAAATCAGTGTTTTAG-AAATAAAACCGAGGTTGGAGTATCCC
*
1081992 CTCAAAAATAACG
65 CTCAGAAATAACG
* * * * * * * *
1082005 AGGTTGAAGTATTCCCAATGATGGAAAATCAATATTTTAGAAATAAAATC-AGAGTTGGAGTATC
1 -GATTGGAGTATCCCCGATGGT-GAAAATCAGTGTTTTAGAAATAAAACCGAG-GTTGGAGTATC
*
1082069 CCTTCAGAAATAACG
63 CCCTCAGAAATAACG
* * *
1082084 TGATTGGACTATCCCCGATGGTAAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCTC
1 -GATTGGAGTATCCCCGATGGTGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCC
*
1082149 CTCGGAAATAACAAG
65 CTCAGAAATAAC--G
** * * * * *
1082164 G-TTGGAGTATCCCTAATTGTGAAAAAATTAGAGTTTT-GAAA-ATAAACTGGGGTTGGAGTATC
1 GATTGGAGTATCCCCGATGGTG--AAAATCAGTGTTTTAGAAATA-AAACCGAGGTTGGAGTATC
*
1082226 CCCTCAAAAATAACAG
63 CCCTCAGAAATAAC-G
* * * ** * *
1082242 GGTTAGAATATCTTCGATTGTGGAAAATC-GATGTTTTAGAAATAAAACTGAGGTTGGAGTATCC
1 GATTGGAGTATCCCCGATGGT-GAAAATCAG-TGTTTTAGAAATAAAACCGAGGTTGGAGTATCC
* *
1082306 CCTTAAAAATAACGG
64 CCTCAGAAATAAC-G
* ** ** *
1082321 GATTGGAGTAACCCCGATTATGAAAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATC
1 GATTGGAGTATCCCCGATGGTGAAAATCA--G-TGTTTTAGAAATAAAACCGAGGTTGGAGTATC
1082386 CCCTC-GAAAATAACG
63 CCCTCAG-AAATAACG
* * * * **
1082401 GAGTTAGAGAATCCCCGATGGTGGAAAAT-TGATGGTTTAGAAATAAAACTAAGGTTGGAGTATC
1 GA-TTGGAGTATCCCCGATGGT-GAAAATCAG-TGTTTTAGAAATAAAACCGAGGTTGGAGTATC
* *
1082465 CCTTCAGAAATAATGG
63 CCCTCAGAAATAA-CG
*
1082481 GATTAGAGTATC
1 GATTGGAGTATC
1082493 TAGAAATAAA
Statistics
Matches: 386, Mismatches: 79, Indels: 43
0.76 0.16 0.08
Matches are distributed among these distances:
77 1 0.00
78 94 0.24
79 206 0.53
80 23 0.06
81 57 0.15
82 5 0.01
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (77 bp):
GATTGGAGTATCCCCGATGGTGAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCCCC
TCAGAAATAACG
Found at i:1082166 original size:157 final size:156
Alignment explanation
Indices: 1081928--1082477 Score: 492
Period size: 157 Copynumber: 3.5 Consensus size: 156
1081918 ATAAAACTGA
* * * * * *
1081928 GATTGGAGTATCCCTGATTGT-GAAAATTGGTGTTTT-GAAAATAAAACCAAAGTTGGAGTATCC
1 GATTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAG-AAATAAAACCAAGGTTGGAGTATCC
* * *
1081991 CCTCAAAAATAACGAGGTTGAAGTATTCCCAATGATG-GAAAATCAATATTTTAGAAATAAAATC
65 CCTCAAAAATAAC-AGGTTGGAGTA-TCCCAATGATGAAAAAATTAATATTTTAGAAATAAAATC
*
1082055 AGAGTTGGAGTATCCCTTCAGAAATAACG
128 AGAGTTGGAGTATCCCCTCAGAAATAACG
* * * *
1082084 TGATTGGACTATCCCCGATGGT-AAAAATC-AGTGTTTTAGAAATAAAACCGAGGTTGGAGTATC
1 -GATTAGAGTATCCCCGATGGTGGAAAATCGA-TGTTTTAGAAATAAAACCAAGGTTGGAGTATC
* ** *
1082147 TCCTCGGAAATAACAAGGTTGGAGTATCCCTAATTG-TGAAAAAATTAGA-GTTTT-GAAAATAA
64 CCCTCAAAAATAAC-AGGTTGGAGTATCCC-AA-TGATGAAAAAATTA-ATATTTTAG-AAATAA
* * * *
1082209 ACT-GGGGTTGGAGTATCCCCTCAAAAATAACAG
124 AATCAGAGTTGGAGTATCCCCTCAGAAATAAC-G
* * ** * **
1082242 GGTTAGAATATCTTCGATTGTGGAAAATCGATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCC
1 GATTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCC
* * * * * *
1082307 CTTAAAAATAACGGGATTGGAGTAACCCCGATTATGAAAAAAATTGATATTTTAGAAATAAAA-C
66 CTCAAAAATAACAGG-TTGGAGT-ATCCCAATGATG-AAAAAATTAATATTTTAGAAATAAAATC
*
1082371 CGAGGTTGGAGTATCCCCTC-GAAAATAACG
128 AGA-GTTGGAGTATCCCCTCAG-AAATAACG
* * * *
1082401 GAGTTAGAGAATCCCCGATGGTGGAAAATTGATGGTTTAGAAATAAAACTAAGGTTGGAGTATCC
1 GA-TTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTATCC
* *
1082466 CTTCAGAAATAA
65 CCTCAAAAATAA
1082478 TGGGATTAGA
Statistics
Matches: 318, Mismatches: 55, Indels: 37
0.78 0.13 0.09
Matches are distributed among these distances:
156 4 0.01
157 119 0.37
158 80 0.25
159 28 0.09
160 87 0.27
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (156 bp):
GATTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAACCAAGGTTGGAGTATCCC
CTCAAAAATAACAGGTTGGAGTATCCCAATGATGAAAAAATTAATATTTTAGAAATAAAATCAGA
GTTGGAGTATCCCCTCAGAAATAACG
Found at i:1082447 original size:160 final size:156
Alignment explanation
Indices: 1081949--1082492 Score: 505
Period size: 160 Copynumber: 3.4 Consensus size: 156
1081939 CCCTGATTGT
* ** * *
1081949 GAAAATTGGTGTTTT-GAAAATAAAACCAAAGTTGGAGTATCCCCTCAAAAATAACGAGGTTGAA
1 GAAAATTGATGTTTTAG-AAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAACG-GGTTGGA
* * * ** * *
1082013 GTATTCCCAATGATG-GAAAATCAATATTTTAGAAATAAAATC-AGAGTTGGAGTATCCCTTCAG
64 GTATCCCCAATTATGAAAAAATTGATATTTTAGAAATAAAACCGAG-GTTGGAGTATCCCCTCA-
* *
1082076 AAATAACGTGA-TTGGACTATCCCCGATGGT-
127 AAATAACG-GAGTTAGA-AATCCCCGATGGTG
* * * * ** *
1082106 -AAAAATCAGTGTTTTAGAAATAAAACCGAGGTTGGAGTATCTCCTCGGAAATAACAAGGTTGGA
1 GAAAATTGA-TGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTGGA
* * * * *
1082170 GTATCCCTAATTGTGAAAAAATTAGA-GTTTT-GAAA-ATAAACTGGGGTTGGAGTATCCCCTCA
64 GTATCCCCAATTATGAAAAAATT-GATATTTTAGAAATA-AAACCGAGGTTGGAGTATCCCCTC-
** *
1082232 AAAATAACAGG-GTTAGAATATCTTCGATTGTG
126 AAAATAAC-GGAGTTAGAA-ATCCCCGATGGTG
* *
1082264 GAAAATCGATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTTAAAAATAACGGGATTGGAG
1 GAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAACGGG-TTGGAG
* *
1082329 TAACCCCGATTATGAAAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGAA
65 TATCCCCAATTATG-AAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTC-AA
1082394 AATAACGGAGTTAGAGAATCCCCGATGGTG
128 AATAACGGAGTTAGA-AATCCCCGATGGTG
* * * * * *
1082424 GAAAATTGATGGTTTAGAAATAAAACTAAGGTTGGAGTATCCCTTCAGAAATAATGGGATTAGAG
1 GAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAACGGG-TTGGAG
1082489 TATC
65 TATC
1082493 TAGAAATAAA
Statistics
Matches: 311, Mismatches: 56, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
156 6 0.02
157 101 0.32
158 72 0.23
159 20 0.06
160 110 0.35
161 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.27
Consensus pattern (156 bp):
GAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCAAAAATAACGGGTTGGAGT
ATCCCCAATTATGAAAAAATTGATATTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAAAAT
AACGGAGTTAGAAATCCCCGATGGTG
Found at i:1082514 original size:55 final size:55
Alignment explanation
Indices: 1082438--1082548 Score: 163
Period size: 55 Copynumber: 2.0 Consensus size: 55
1082428 ATTGATGGTT
*
1082438 TAGAAATAAAACTAAGGTTGGAGTATC-CCTTCAGAAATAATGGGATTAGAGTATC
1 TAGAAATAAAACTAAGATTGGAGTATCTCC-TCAGAAATAATGGGATTAGAGTATC
* *
1082493 TAGAAATAAAA-TCAAGATTGGAGTATCTCCTCAGAAATAATGGGGTTGGAGTATC
1 TAGAAATAAAACT-AAGATTGGAGTATCTCCTCAGAAATAATGGGATTAGAGTATC
1082548 T
1 T
1082549 CTAATTATGG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
54 1 0.02
55 48 0.94
56 2 0.04
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.28
Consensus pattern (55 bp):
TAGAAATAAAACTAAGATTGGAGTATCTCCTCAGAAATAATGGGATTAGAGTATC
Found at i:1085047 original size:50 final size:51
Alignment explanation
Indices: 1084954--1085068 Score: 169
Period size: 50 Copynumber: 2.3 Consensus size: 51
1084944 TATATTGAGA
*
1084954 AATGTATCGATACATCTAGGTTAAAAACCAGAATATATCGATACAATAAAG
1 AATGTATCGATACATCTAGGGTAAAAACCAGAATATATCGATACAATAAAG
* * * *
1085005 AATGTATTGATACATCT-GGGTAAAACCCAGAATGTATCGATACAATTAAG
1 AATGTATCGATACATCTAGGGTAAAAACCAGAATATATCGATACAATAAAG
*
1085055 GATGTATCGATACA
1 AATGTATCGATACA
1085069 AATTGTGAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
50 41 0.72
51 16 0.28
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.27
Consensus pattern (51 bp):
AATGTATCGATACATCTAGGGTAAAAACCAGAATATATCGATACAATAAAG
Found at i:1085510 original size:12 final size:12
Alignment explanation
Indices: 1085493--1085519 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1085483 AAGAAATGAA
1085493 CAAGAAAGAAAG
1 CAAGAAAGAAAG
1085505 CAAGAAAGAAAG
1 CAAGAAAGAAAG
1085517 CAA
1 CAA
1085520 AATAGGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.11, G:0.22, T:0.00
Consensus pattern (12 bp):
CAAGAAAGAAAG
Done.