Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
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: 4652821
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 13 of 23
Found at i:2452025 original size:139 final size:139
Alignment explanation
Indices: 2451770--2452040 Score: 416
Period size: 139 Copynumber: 1.9 Consensus size: 139
2451760 TCAAATATTA
*
2451770 ATATAGTATGATTTCAATTCACATTGCTATTTGATTATTTTCGATTTTATTCAAATATTATTAAT
1 ATATAGTATGATTTCAATTCACATTGCTATTAGATTATTTTCGATTTTATTCAAATATTATTAAT
* * * **
2451835 TAGTTCACATTGGAAATTAATTGATTGTTTCCGTTTTTGATCGGATACTAATCAATGGTCTTTAT
66 CAGTTCACATTGAAAATTAATTGATTATTTCCGTTTTTGATCGGATACTAATCAATGACCTTTAT
2451900 TTTATTCGG
131 TTTATTCGG
* * * * ***
2451909 ATATGGTATGATTTCAGTTCACGTTGGTATTAGATTATTTTCGATTTTATTTGGATATTATTAAT
1 ATATAGTATGATTTCAATTCACATTGCTATTAGATTATTTTCGATTTTATTCAAATATTATTAAT
*
2451974 CAGTTCACATTGAAAATTAATTGATTATTTCCGTTTTTGTTCGGATACTAATCAATGACCTTTAT
66 CAGTTCACATTGAAAATTAATTGATTATTTCCGTTTTTGATCGGATACTAATCAATGACCTTTAT
2452039 TT
131 TT
2452041 CCAACTTTTC
Statistics
Matches: 118, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
139 118 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.48
Consensus pattern (139 bp):
ATATAGTATGATTTCAATTCACATTGCTATTAGATTATTTTCGATTTTATTCAAATATTATTAAT
CAGTTCACATTGAAAATTAATTGATTATTTCCGTTTTTGATCGGATACTAATCAATGACCTTTAT
TTTATTCGG
Found at i:2458045 original size:13 final size:14
Alignment explanation
Indices: 2458026--2458055 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
2458016 TTTTATTTTT
*
2458026 TATTTTTAATAAAA
1 TATTTTAAATAAAA
2458040 TATTTTAAATAAAA
1 TATTTTAAATAAAA
2458054 TA
1 TA
2458056 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TATTTTAAATAAAA
Found at i:2458197 original size:20 final size:20
Alignment explanation
Indices: 2458172--2458211 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2458162 ATTTCTCTCA
2458172 AGTCTGTTACCATTTACTAT
1 AGTCTGTTACCATTTACTAT
2458192 AGTCTGTTACCATTTACTAT
1 AGTCTGTTACCATTTACTAT
2458212 GTGCGAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.45
Consensus pattern (20 bp):
AGTCTGTTACCATTTACTAT
Found at i:2461974 original size:2 final size:2
Alignment explanation
Indices: 2461962--2462007 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
2461952 AATTAAATAC
2461962 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2462003 AT AT A
1 AT AT A
2462008 ACTCAGCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2462215 original size:22 final size:22
Alignment explanation
Indices: 2462187--2462237 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
2462177 CCTAATTCAT
*
2462187 TCTCTCTCTCTCTCTCTCTCAG
1 TCTCTCTCTATCTCTCTCTCAG
2462209 TCTCTCTCTATCTCTCTCTCAG
1 TCTCTCTCTATCTCTCTCTCAG
2462231 TCTCTCT
1 TCTCTCT
2462238 AATTTCAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.06, C:0.43, G:0.04, T:0.47
Consensus pattern (22 bp):
TCTCTCTCTATCTCTCTCTCAG
Found at i:2462234 original size:10 final size:10
Alignment explanation
Indices: 2462188--2462237 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
2462178 CTAATTCATT
*
2462188 CTCTCTCTCT
1 CTCTCTCTCA
2462198 CTCTCTCTCA
1 CTCTCTCTCA
*
2462208 GTCTCTCTCTA
1 CTCTCTCTC-A
2462219 TCTCTCTCTCA
1 -CTCTCTCTCA
*
2462230 GTCTCTCT
1 CTCTCTCT
2462238 AATTTCAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 24 0.71
11 2 0.06
12 8 0.24
ACGTcount: A:0.06, C:0.44, G:0.04, T:0.46
Consensus pattern (10 bp):
CTCTCTCTCA
Found at i:2462237 original size:2 final size:2
Alignment explanation
Indices: 2462187--2462228 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
2462177 CCTAATTCAT
** *
2462187 TC TC TC TC TC TC TC TC TC TC AG TC TC TC TC TA TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
2462229 AGTCTCTCTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.05, C:0.45, G:0.02, T:0.48
Consensus pattern (2 bp):
TC
Found at i:2472634 original size:21 final size:21
Alignment explanation
Indices: 2472609--2472649 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
2472599 CAACTCAGTT
*
2472609 TCCAAATTCGCGTTGCGATAG
1 TCCAAATTCGCATTGCGATAG
2472630 TCCAAATTCGCATTGCGATA
1 TCCAAATTCGCATTGCGATA
2472650 TCGCAACGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (21 bp):
TCCAAATTCGCATTGCGATAG
Found at i:2472711 original size:21 final size:21
Alignment explanation
Indices: 2472682--2472804 Score: 140
Period size: 21 Copynumber: 5.9 Consensus size: 21
2472672 CAACTCAGTT
*
2472682 TCCAAATTCGCGTTGCGATAG
1 TCCAAAATCGCGTTGCGATAG
* *
2472703 TCGAAATTCGCGTTGCGATAG
1 TCCAAAATCGCGTTGCGATAG
2472724 TCCAAAATCGCGTTGCGATAG
1 TCCAAAATCGCGTTGCGATAG
* **
2472745 TCCAAAATCGCATTGCGATTT
1 TCCAAAATCGCGTTGCGATAG
** *
2472766 TCC-ATTTCGCGTTGTGATAG
1 TCCAAAATCGCGTTGCGATAG
* *
2472786 TCCAAAATTGCATTGCGAT
1 TCCAAAATCGCGTTGCGAT
2472805 TTTCCATTGC
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
20 14 0.17
21 70 0.83
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (21 bp):
TCCAAAATCGCGTTGCGATAG
Found at i:2472788 original size:41 final size:41
Alignment explanation
Indices: 2472688--2472812 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 41
2472678 AGTTTCCAAA
* * * ** *
2472688 TTCGCGTTGCGATAGTCGAAATTCGCGTTGCGATAGTCCAAA
1 TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTCC-AT
*
2472730 ATCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTCCAT
* *
2472771 TTCGCGTTGTGATAGTCCAAAATTGCATTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTCCAT
2472812 T
1 T
2472813 GCATTTGTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 40 0.55
42 33 0.45
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCCAAAATCGCATTGCGATTTTCCAT
Found at i:2473759 original size:6 final size:6
Alignment explanation
Indices: 2473748--2473810 Score: 99
Period size: 6 Copynumber: 10.5 Consensus size: 6
2473738 TCTCGTCTCG
*
2473748 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCAT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
* *
2473796 AGTCGT AGTCGT GGT
1 GGTCGT GGTCGT GGT
2473811 AATACGTGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.05, C:0.16, G:0.46, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:2482143 original size:22 final size:23
Alignment explanation
Indices: 2482104--2482147 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2482094 GAATAGCACC
**
2482104 GGTCAACGGGTCGGGTCGGGTCG
1 GGTCAACGGGTCAAGTCGGGTCG
2482127 GGTCAAC-GGTCAAGTCGGGTC
1 GGTCAACGGGTCAAGTCGGGTC
2482148 AACGGTCGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (23 bp):
GGTCAACGGGTCAAGTCGGGTCG
Found at i:2482160 original size:17 final size:17
Alignment explanation
Indices: 2482117--2482160 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
2482107 CAACGGGTCG
2482117 GGTCGGGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
**
2482134 GGTCAAGTCGGGTCAAC
1 GGTCGGGTCGGGTCAAC
2482151 GGTCGGGTCG
1 GGTCGGGTCG
2482161 TGACCGGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (17 bp):
GGTCGGGTCGGGTCAAC
Found at i:2482186 original size:11 final size:11
Alignment explanation
Indices: 2482170--2482205 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
2482160 GTGACCGGTC
2482170 AAACCGGTTCA
1 AAACCGGTTCA
2482181 AAACCGGTT--
1 AAACCGGTTCA
2482190 AAACCGG-TCA
1 AAACCGGTTCA
2482200 AAACCG
1 AAACCG
2482206 ATTTCCAGCG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.04
9 7 0.30
10 6 0.26
11 9 0.39
ACGTcount: A:0.39, C:0.28, G:0.19, T:0.14
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:2482188 original size:20 final size:19
Alignment explanation
Indices: 2482163--2482205 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
2482153 TCGGGTCGTG
2482163 ACCGGTCAAACCGGTTCAAA
1 ACCGGTCAAACCGG-TCAAA
*
2482183 ACCGGTTAAACCGGTCAAA
1 ACCGGTCAAACCGGTCAAA
2482202 ACCG
1 ACCG
2482206 ATTTCCAGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.35, C:0.30, G:0.21, T:0.14
Consensus pattern (19 bp):
ACCGGTCAAACCGGTCAAA
Found at i:2482205 original size:10 final size:10
Alignment explanation
Indices: 2482163--2482205 Score: 54
Period size: 9 Copynumber: 4.4 Consensus size: 10
2482153 TCGGGTCGTG
2482163 ACCGGTC-AA
1 ACCGGTCAAA
2482172 ACCGGTTCAAA
1 ACCGG-TCAAA
*
2482183 ACCGGT-TAA
1 ACCGGTCAAA
2482192 ACCGGTCAAA
1 ACCGGTCAAA
2482202 ACCG
1 ACCG
2482206 ATTTCCAGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
9 13 0.45
10 9 0.31
11 7 0.24
ACGTcount: A:0.35, C:0.30, G:0.21, T:0.14
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:2483071 original size:20 final size:20
Alignment explanation
Indices: 2483043--2483194 Score: 106
Period size: 20 Copynumber: 7.5 Consensus size: 20
2483033 TTGCACTATT
2483043 GCAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
* ** **
2483063 GCAATGCGATTTTGGACTATC
1 GCAACGCGA-AATGGAAAATC
*
2483084 GTAACGCGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
* ** **
2483104 GCAATGCGATTTTGGACTATC
1 GCAACGCGA-AATGGAAAATC
*
2483125 GCAACACGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
* ** **
2483145 GCAATGCGATTTTGGACTATC
1 GCAACGCGA-AATGGAAAATC
*
2483166 GCAACGTGAAATGGAAAATC
1 GCAACGCGAAATGGAAAATC
*
2483186 GCAATGCGA
1 GCAACGCGA
2483195 TTTTGGACTA
Statistics
Matches: 92, Mismatches: 37, Indels: 6
0.68 0.27 0.04
Matches are distributed among these distances:
20 50 0.54
21 42 0.46
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (20 bp):
GCAACGCGAAATGGAAAATC
Found at i:2483084 original size:21 final size:21
Alignment explanation
Indices: 2483027--2483222 Score: 130
Period size: 21 Copynumber: 9.5 Consensus size: 21
2483017 CAGTCGCGTT
* *
2483027 GCGATTTTGCACTATTGCAAC
1 GCGATTTTGGACTATCGCAAC
** ** *
2483048 GCGA-AATGGAAAATCGCAAT
1 GCGATTTTGGACTATCGCAAC
*
2483068 GCGATTTTGGACTATCGTAAC
1 GCGATTTTGGACTATCGCAAC
** ** *
2483089 GCGA-AATGGAAAATCGCAAT
1 GCGATTTTGGACTATCGCAAC
2483109 GCGATTTTGGACTATCGCAAC
1 GCGATTTTGGACTATCGCAAC
* ** ** *
2483130 ACGA-AATGGAAAATCGCAAT
1 GCGATTTTGGACTATCGCAAC
2483150 GCGATTTTGGACTATCGCAAC
1 GCGATTTTGGACTATCGCAAC
* ** ** *
2483171 GTGA-AATGGAAAATCGCAAT
1 GCGATTTTGGACTATCGCAAC
2483191 GCGATTTTGGACTATCGCAAC
1 GCGATTTTGGACTATCGCAAC
*
2483212 GCGAATTTGGA
1 GCGATTTTGGA
2483223 AACTGAGTTG
Statistics
Matches: 122, Mismatches: 49, Indels: 8
0.68 0.27 0.04
Matches are distributed among these distances:
20 55 0.45
21 67 0.55
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (21 bp):
GCGATTTTGGACTATCGCAAC
Found at i:2483235 original size:41 final size:41
Alignment explanation
Indices: 2483026--2483216 Score: 337
Period size: 41 Copynumber: 4.7 Consensus size: 41
2483016 CCAGTCGCGT
* *
2483026 TGCGATTTTGCACTATTGCAACGCGAAATGGAAAATCGCAA
1 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAA
*
2483067 TGCGATTTTGGACTATCGTAACGCGAAATGGAAAATCGCAA
1 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAA
*
2483108 TGCGATTTTGGACTATCGCAACACGAAATGGAAAATCGCAA
1 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAA
*
2483149 TGCGATTTTGGACTATCGCAACGTGAAATGGAAAATCGCAA
1 TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAA
2483190 TGCGATTTTGGACTATCGCAACGCGAA
1 TGCGATTTTGGACTATCGCAACGCGAA
2483217 TTTGGAAACT
Statistics
Matches: 142, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (41 bp):
TGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCGCAA
Found at i:2483773 original size:25 final size:23
Alignment explanation
Indices: 2483718--2483773 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
2483708 CTCCCACGAC
* *
2483718 AAAGCTCTCTCCAGTCTCACGGT
1 AAAGCTCTCTCCAATCTCAAGGT
2483741 AAAGCTCTCTCCAATCTCAAGGT
1 AAAGCTCTCTCCAATCTCAAGGT
*
2483764 AAAACTCTCT
1 AAAGCTCTCT
2483774 GCAAAGCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.27
Consensus pattern (23 bp):
AAAGCTCTCTCCAATCTCAAGGT
Found at i:2488629 original size:20 final size:19
Alignment explanation
Indices: 2488570--2488629 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 19
2488560 CAAATTAATA
2488570 AAATTTAATAT-TATTATAT
1 AAATTTAATATATATT-TAT
2488589 ACTAATTTAATA-ATAATTTTAT
1 A--AATTTAATATAT-A-TTTAT
2488611 AAATTTAATGATATATTTA
1 AAATTTAAT-ATATATTTA
2488630 ATTTTCAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
19 1 0.03
20 12 0.35
21 12 0.35
22 7 0.21
23 2 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
AAATTTAATATATATTTAT
Found at i:2494106 original size:60 final size:60
Alignment explanation
Indices: 2494022--2494137 Score: 180
Period size: 60 Copynumber: 1.9 Consensus size: 60
2494012 CTGGCAGCCG
**
2494022 ATTTCTGTGAGCTATTGTTCTCATGTTTAACAGCTTGTGGTGCAGTTTCAGGTTCTGTCA
1 ATTTCTGTGAGCTACAGTTCTCATGTTTAACAGCTTGTGGTGCAGTTTCAGGTTCTGTCA
* *
2494082 ATTTCTGTGAGCTACAG-TCTTCATGTTTAACATCTTGTGGTGCAGTTTCTGGTTCT
1 ATTTCTGTGAGCTACAGTTC-TCATGTTTAACAGCTTGTGGTGCAGTTTCAGGTTCT
2494138 ACTTCCTCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 2 0.04
60 49 0.96
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.44
Consensus pattern (60 bp):
ATTTCTGTGAGCTACAGTTCTCATGTTTAACAGCTTGTGGTGCAGTTTCAGGTTCTGTCA
Found at i:2494528 original size:31 final size:31
Alignment explanation
Indices: 2494490--2494549 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
2494480 CATGAAACAT
*
2494490 AGTAGAGCTACCGGTAACCTTTTGAGGTACA
1 AGTAGAGCTACCAGTAACCTTTTGAGGTACA
*
2494521 AGTAGAGCTACCAGTAATCTTTTGAGGTA
1 AGTAGAGCTACCAGTAACCTTTTGAGGTA
2494550 AATCAGTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AGTAGAGCTACCAGTAACCTTTTGAGGTACA
Found at i:2501746 original size:60 final size:60
Alignment explanation
Indices: 2501674--2501855 Score: 244
Period size: 60 Copynumber: 3.0 Consensus size: 60
2501664 TAATAGACGG
2501674 ATGACCATTTTGTAACTTTTAATAGTC-GGAGGACTCAACAAAGCAACACTT-TATAGTCGA
1 ATGACCATTTTGTAACTTTTAATAGTCGGGA-GACTCAACAAAGCAACA-TTCTATAGTCGA
*
2501734 ATGATCATTTTGTAACTTTTAATAGTTCGGGAGACTCAACAAAGCAACATTCTATAGTCGA
1 ATGACCATTTTGTAACTTTTAATAG-TCGGGAGACTCAACAAAGCAACATTCTATAGTCGA
* ** * **
2501795 ATGACCATCTTGTAACTTTTAATAGTCAATGA-ACTTAACAAAGCATTATTCTATAGTCGA
1 ATGACCATTTTGTAACTTTTAATAGTC-GGGAGACTCAACAAAGCAACATTCTATAGTCGA
2501855 A
1 A
2501856 GGACTAGTTG
Statistics
Matches: 110, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
60 54 0.49
61 53 0.48
62 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (60 bp):
ATGACCATTTTGTAACTTTTAATAGTCGGGAGACTCAACAAAGCAACATTCTATAGTCGA
Found at i:2502082 original size:18 final size:18
Alignment explanation
Indices: 2502059--2502101 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2502049 TACGACTGTT
2502059 ATATTTTAAATCAAATTA
1 ATATTTTAAATCAAATTA
* *
2502077 ATA-TTTAGATTAAATTA
1 ATATTTTAAATCAAATTA
*
2502094 GTATTTTA
1 ATATTTTA
2502102 TTTTTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (18 bp):
ATATTTTAAATCAAATTA
Found at i:2502284 original size:48 final size:48
Alignment explanation
Indices: 2502191--2502281 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
2502181 AATGAAAACT
* * *
2502191 TTTTAGAATGAAACAAATAATTATTTTTAGAAAATAATATTTTTAATA
1 TTTTAAAATAAAACAAATAAGTATTTTTAGAAAATAATATTTTTAATA
*
2502239 TTTTAAAATAAAATAAATAAGT-TTTTT-GAATAATAATATTTTT
1 TTTTAAAATAAAACAAATAAGTATTTTTAGAA-AATAATATTTTT
2502282 TAAATGTAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
46 3 0.08
47 17 0.45
48 18 0.47
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.46
Consensus pattern (48 bp):
TTTTAAAATAAAACAAATAAGTATTTTTAGAAAATAATATTTTTAATA
Found at i:2505316 original size:29 final size:29
Alignment explanation
Indices: 2505273--2505376 Score: 174
Period size: 29 Copynumber: 3.6 Consensus size: 29
2505263 TTTCATATGT
2505273 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
* *
2505301 TCATGTAGTTCATGTCATTTATCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
2505330 TCATATAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
2505359 TCATGTAGCTCATGTCAT
1 TCATGTAGCTCATGTCAT
2505377 GTTTTCATAT
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 7 0.10
29 62 0.90
ACGTcount: A:0.20, C:0.19, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:2505393 original size:58 final size:58
Alignment explanation
Indices: 2505280--2505393 Score: 167
Period size: 58 Copynumber: 2.0 Consensus size: 58
2505270 TGTTCATGTA
* * * *
2505280 CTCATGTCATTTCTCTTGTGATCATGTAGTTCATGTCATTTATCTTGTGATCATATAG
1 CTCATGTCATTTCTCTTGTGATCATGTAGCTCATGTCATTTATCATATCATCATATAG
*
2505338 CTCATGTCATTTCTCTTGTGATCATGTAGCTCATGTCATGTTTTCATATCA-CATAT
1 CTCATGTCATTTCTCTTGTGATCATGTAGCTCATGTCAT-TTATCATATCATCATAT
2505394 CATATCACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
58 43 0.86
59 7 0.14
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (58 bp):
CTCATGTCATTTCTCTTGTGATCATGTAGCTCATGTCATTTATCATATCATCATATAG
Found at i:2505829 original size:64 final size:63
Alignment explanation
Indices: 2505759--2505915 Score: 183
Period size: 64 Copynumber: 2.5 Consensus size: 63
2505749 TACTGAAGGT
* **
2505759 ATGCATCGATGCATTACTTGTGCATCGGTGCA-TAAAATGCATTCGATG-TTTTATTATTAATGG
1 ATGCATCGATGCATTACTTGTGCATCGATGCACT-AAATGCATTCGATGTTTTTATT-TTAA-AA
2505822 G
63 G
** * *
2505823 ATGCATCGATGCATGCCTTATGCATCGATGCACTAATTGCATTCGATGTTTTTATTTTAAAAG
1 ATGCATCGATGCATTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
* *
2505886 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCATTACTTGTGCATCGAT
2505916 ACACCTTCAA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
63 2 0.03
64 68 0.87
65 8 0.10
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (63 bp):
ATGCATCGATGCATTACTTGTGCATCGATGCACTAAATGCATTCGATGTTTTTATTTTAAAAG
Found at i:2519240 original size:21 final size:21
Alignment explanation
Indices: 2519189--2519241 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
2519179 ATTATTACTA
**
2519189 TCGCAATGCGATTTTTTAATT
1 TCGCAATGCGATTTTCCAATT
**
2519210 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
2519231 TCGCAATGCGA
1 TCGCAATGCGA
2519242 ATAAGTAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:2519274 original size:21 final size:20
Alignment explanation
Indices: 2519231--2519278 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2519221 TTTTCCCAAT
*
2519231 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGAAAA
**
2519251 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TAAGAAAA
2519272 TCGCAAT
1 TCGCAAT
2519279 ACGATACTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATAAGAAAA
Found at i:2519296 original size:20 final size:20
Alignment explanation
Indices: 2519280--2519385 Score: 97
Period size: 20 Copynumber: 5.2 Consensus size: 20
2519270 AATCGCAATA
2519280 CGATACTGACTATCGCAACG
1 CGATACTGACTATCGCAACG
* * * *
2519300 CGATAAT-ACAAAATTGCAATG
1 CGATACTGAC--TATCGCAACG
*
2519321 CGATACTGACTTTCGCAACG
1 CGATACTGACTATCGCAACG
* *
2519341 CGATACTTACTTTCGCAACG
1 CGATACTGACTATCGCAACG
* *
2519361 CGATTCTGACTTTCGCAACG
1 CGATACTGACTATCGCAACG
*
2519381 AGATA
1 CGATA
2519386 GTACATAATC
Statistics
Matches: 69, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
19 2 0.03
20 52 0.75
21 13 0.19
22 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
CGATACTGACTATCGCAACG
Found at i:2519344 original size:41 final size:41
Alignment explanation
Indices: 2519268--2519405 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
2519258 GCGAATTTGG
* *
2519268 AAAATCGCAATACGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAATGCGATACTGACTTTCGCAACGCGATAATAC
* *
2519309 AAAATTGCAATGCGATACTGACTTTCGCAACGCGATACTTAC
1 AAAATCGCAATGCGATACTGACTTTCGCAACGCGATA-ATAC
** * * * *
2519351 --TTTCGCAACGCGATTCTGACTTTCGCAACGAGATAGTAC
1 AAAATCGCAATGCGATACTGACTTTCGCAACGCGATAATAC
*
2519390 ATAATCGCAATGCGAT
1 AAAATCGCAATGCGAT
2519406 TTTCAAAGCG
Statistics
Matches: 80, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 29 0.36
41 45 0.56
42 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
AAAATCGCAATGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:2519600 original size:22 final size:22
Alignment explanation
Indices: 2519572--2519615 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2519562 CACTCTCTCA
2519572 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
2519594 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
2519616 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:2519903 original size:20 final size:20
Alignment explanation
Indices: 2519866--2519922 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
2519856 TATTCTCTCA
* **
2519866 TTGCGATAGTCAAATTCGCG
1 TTGCGATTGTCATTTTCGCG
*
2519886 TTGCGATTGTCATTTTCGTG
1 TTGCGATTGTCATTTTCGCG
* *
2519906 TTACGATTTTCATTTTC
1 TTGCGATTGTCATTTTC
2519923 AGAAACTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.46
Consensus pattern (20 bp):
TTGCGATTGTCATTTTCGCG
Found at i:2520113 original size:25 final size:24
Alignment explanation
Indices: 2520059--2520113 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
2520049 TGTTTATTAT
* *
2520059 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
2520083 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
2520109 TGTTT
1 TGTTT
2520114 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:2521263 original size:18 final size:18
Alignment explanation
Indices: 2521242--2521289 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
2521232 TCCACTTCGG
2521242 GAGCCATCACCTCAGCC-A
1 GAGCCATCACCTCA-CCTA
*
2521260 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCTA
2521278 GAGCCATCACCT
1 GAGCCATCACCT
2521290 GATCGACCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.27, C:0.42, G:0.15, T:0.17
Consensus pattern (18 bp):
GAGCCATCACCTCACCTA
Found at i:2521855 original size:20 final size:20
Alignment explanation
Indices: 2521830--2521875 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
2521820 TAGTTTACTT
2521830 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
* * *
2521850 TCGCAACGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
2521870 TCGCAA
1 TCGCAA
2521876 TGCAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:2521932 original size:19 final size:19
Alignment explanation
Indices: 2521869--2521932 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
2521859 GGAAATGGCT
*
2521869 ATCGCAATGCAAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2521888 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
2521902 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
2521921 ATCGCAATGCGA
1 ATCGCAATGCGA
2521933 TTTGTGTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
14 10 0.28
15 1 0.03
16 2 0.06
17 1 0.03
18 1 0.03
19 21 0.58
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2522004 original size:20 final size:20
Alignment explanation
Indices: 2521970--2522044 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
2521960 TTGCGATTTT
*
2521970 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCGATAGC
*
2521989 CATTTCCGCGTTGCGATAAC
1 CATTTCCGCGTTGCGATAGC
* *
2522009 CATTTCCGCGTTGCTATAGT
1 CATTTCCGCGTTGCGATAGC
*
2522029 CATTTTCGCGTTGCGA
1 CATTTCCGCGTTGCGA
2522045 AAGTAAGTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 5 0.10
20 43 0.90
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTCCGCGTTGCGATAGC
Found at i:2522055 original size:20 final size:20
Alignment explanation
Indices: 2522032--2522070 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2522022 CTATAGTCAT
2522032 TTTCGCGTTGCGAAAGTAAG
1 TTTCGCGTTGCGAAAGTAAG
*
2522052 TTTCGTGTTGCGAAAGTAA
1 TTTCGCGTTGCGAAAGTAA
2522071 ACTATTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (20 bp):
TTTCGCGTTGCGAAAGTAAG
Found at i:2522464 original size:21 final size:20
Alignment explanation
Indices: 2522412--2522472 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
2522402 GACTCACCTG
*
2522412 TCATCCCTCAAGAGTCTCCT
1 TCATCCCTCAAGAGTCCCCT
* **
2522432 CCAATCGTTCAAGAGTCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
2522453 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
2522473 CCCACCGTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.41, G:0.11, T:0.25
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:2522499 original size:41 final size:42
Alignment explanation
Indices: 2522409--2522499 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 42
2522399 CCCGACTCAC
* * * *
2522409 CTGTCATCCCTCAAGAGTCTCCTCCAATCGTTCAAGAGTCCC
1 CTGTCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCA
* *
2522451 CTATCATCCCTCAAGAGTC-CCCCCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCA
2522492 CTGTCATC
1 CTGTCATC
2522500 ATTGAAGAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 24 0.57
42 18 0.43
ACGTcount: A:0.22, C:0.41, G:0.14, T:0.23
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCTCCCCCAACCGTTCAAGAGGCCA
Found at i:2524077 original size:20 final size:20
Alignment explanation
Indices: 2524052--2524102 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
2524042 GGCAAAACAT
2524052 ACTATCGCAACACGAAATTG
1 ACTATCGCAACACGAAATTG
2524072 ACTATCGCAACACGAAATTG
1 ACTATCGCAACACGAAATTG
2524092 ACTATCGCAAC
1 ACTATCGCAAC
2524103 GAGAGAATCG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.27, G:0.14, T:0.20
Consensus pattern (20 bp):
ACTATCGCAACACGAAATTG
Found at i:2524114 original size:14 final size:14
Alignment explanation
Indices: 2524095--2524148 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
2524085 GAAATTGACT
*
2524095 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
2524109 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
2524128 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
2524142 ATCGCAA
1 ATCGCAA
2524149 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:2524132 original size:19 final size:17
Alignment explanation
Indices: 2524108--2524153 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 17
2524098 GCAACGAGAG
2524108 AATCGCAATGCGAAATGAA
1 AATCGCAATGCG-AA-GAA
2524127 AATCGCAA--CG-AGAA
1 AATCGCAATGCGAAGAA
2524141 AATCGCAATGCGA
1 AATCGCAATGCGA
2524154 TTTTCATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
14 11 0.46
15 1 0.04
16 2 0.08
17 2 0.08
19 8 0.33
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.13
Consensus pattern (17 bp):
AATCGCAATGCGAAGAA
Found at i:2524184 original size:14 final size:14
Alignment explanation
Indices: 2524167--2524201 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
2524157 TCATTTCGCA
*
2524167 TTGCGATTTTCTCG
1 TTGCGATTTTCCCG
2524181 TTGCGATTTTCCCG
1 TTGCGATTTTCCCG
2524195 TTGCGAT
1 TTGCGAT
2524202 AGTCAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.09, C:0.23, G:0.23, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCCCG
Found at i:2524454 original size:41 final size:41
Alignment explanation
Indices: 2524360--2524472 Score: 149
Period size: 41 Copynumber: 2.8 Consensus size: 41
2524350 GTCAGAATCA
* * ** *
2524360 CGTTGCGAAAGTCAGAATCGCGTTGCGA--AAGTAAGTATCG
1 CGTTGCGAAAGTCAGTATCGCATTGCGATTTTGT-ATTATCG
2524400 CGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATTATCG
1 CGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATTATCG
*
2524441 CGTTGCGATAGTCAGTATCGCATTGCGATTTT
1 CGTTGCGAAAGTCAGTATCGCATTGCGATTTT
2524473 CCAAATTCGC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
40 26 0.40
41 37 0.57
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
CGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATTATCG
Found at i:2524469 original size:20 final size:20
Alignment explanation
Indices: 2524348--2524468 Score: 127
Period size: 20 Copynumber: 6.0 Consensus size: 20
2524338 AAAATCACCT
* *
2524348 AAGTCAGAATCACGTTGCGA
1 AAGTCAGTATCGCGTTGCGA
*
2524368 AAGTCAGAATCGCGTTGCGA
1 AAGTCAGTATCGCGTTGCGA
*
2524388 AAGTAAGTATCGCGTTGCGA
1 AAGTCAGTATCGCGTTGCGA
*
2524408 AAGTCAGTATCGCATTGCGA
1 AAGTCAGTATCGCGTTGCGA
** *
2524428 TTTTGT-ATTATCGCGTTGCGA
1 --AAGTCAGTATCGCGTTGCGA
* *
2524449 TAGTCAGTATCGCATTGCGA
1 AAGTCAGTATCGCGTTGCGA
2524469 TTTTCCAAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
19 3 0.03
20 68 0.79
21 13 0.15
22 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.28
Consensus pattern (20 bp):
AAGTCAGTATCGCGTTGCGA
Found at i:2524488 original size:41 final size:41
Alignment explanation
Indices: 2524360--2524489 Score: 138
Period size: 41 Copynumber: 3.2 Consensus size: 41
2524350 GTCAGAATCA
* * *** *
2524360 CGTTGCGAAAGTCAGAATCGCGTTGCGAAAGT-AAGTATCG
1 CGTTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCG
** *
2524400 CGTTGCGAAAGTCAGTATCGCATTGCGATTTTGTATTATCG
1 CGTTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCG
*
2524441 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAAT-TCG
1 CGTTGCGAAAGTCAGTATCGCATTGCGATTTT-CAAATATCG
*
2524482 CATTGCGA
1 CGTTGCGA
2524490 CTTGGGAAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
40 27 0.36
41 47 0.62
42 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
CGTTGCGAAAGTCAGTATCGCATTGCGATTTTCAAATATCG
Found at i:2524503 original size:21 final size:20
Alignment explanation
Indices: 2524479--2524594 Score: 60
Period size: 20 Copynumber: 5.7 Consensus size: 20
2524469 TTTTCCAAAT
*
2524479 TCGCATTGCGACTTGGGAAAA
1 TCGCATTGCGAATT-GGAAAA
**
2524500 TCGCAACGCGAAATTGGAAAA
1 TCGCATTGCG-AATTGGAAAA
* * *
2524521 TCACATTGCG-ATAGTAATAA
1 TCGCATTGCGAATTGGAA-AA
* *
2524541 TCGCGTTGCGAATCTGGAAAC
1 TCGCATTGCGAAT-TGGAAAA
* *
2524562 T-G-ATTTGCGATAATGG-AGA
1 TCGCA-TTGCGA-ATTGGAAAA
2524581 TCGCATTGCGAATT
1 TCGCATTGCGAATT
2524595 AGCGATCGCA
Statistics
Matches: 69, Mismatches: 18, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
19 9 0.13
20 27 0.39
21 27 0.39
22 6 0.09
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (20 bp):
TCGCATTGCGAATTGGAAAA
Found at i:2524975 original size:13 final size:13
Alignment explanation
Indices: 2524957--2524990 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
2524947 TTATAAAAGT
2524957 TTTTATTTTAAAA
1 TTTTATTTTAAAA
2524970 TTTTATTTTAAAA
1 TTTTATTTTAAAA
2524983 TTTTATTT
1 TTTTATTT
2524991 ATGTCCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTTTATTTTAAAA
Found at i:2533127 original size:25 final size:25
Alignment explanation
Indices: 2533093--2533145 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
2533083 TATTAACACG
2533093 AACCAAAATATAAATACGATACAAA
1 AACCAAAATATAAATACGATACAAA
2533118 AACCAAAATATAAATACGATACAAA
1 AACCAAAATATAAATACGATACAAA
2533143 AAC
1 AAC
2533146 TAGATGCGGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.64, C:0.17, G:0.04, T:0.15
Consensus pattern (25 bp):
AACCAAAATATAAATACGATACAAA
Found at i:2533779 original size:59 final size:58
Alignment explanation
Indices: 2533688--2533810 Score: 228
Period size: 59 Copynumber: 2.1 Consensus size: 58
2533678 TAGTTTGATT
2533688 TCTAACAACACCTGGAGGAGGCACAACTATTAATGGGTTCCCATCAGTGGATGCCATA
1 TCTAACAACACCTGGAGGAGGCACAACTATTAATGGGTTCCCATCAGTGGATGCCATA
2533746 TCTAACAAACACCTGGAGGAGGCACAACTATTAATGGGTTCCCATCAGTGGATGCCATA
1 TCTAAC-AACACCTGGAGGAGGCACAACTATTAATGGGTTCCCATCAGTGGATGCCATA
*
2533805 GCTAAC
1 TCTAAC
2533811 TCAACAGAAC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 6 0.10
59 57 0.90
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (58 bp):
TCTAACAACACCTGGAGGAGGCACAACTATTAATGGGTTCCCATCAGTGGATGCCATA
Found at i:2544254 original size:125 final size:121
Alignment explanation
Indices: 2544003--2544250 Score: 356
Period size: 125 Copynumber: 2.0 Consensus size: 121
2543993 GTGGTTAGCT
* ** * *
2544003 TGGACATAAGGAAAGGATTGTTAATGTTGAGATTTGAATTTTTGGTTAGTTGATTCTTATATATG
1 TGGAAATAAGGAAAGGATTGTTAATGTTGAGATTCAAATTTTCGGTTAGTTGATGCTTATATATG
* *
2544068 TACTTGATGATATTGTGAATACATAGGCTGTTGGAAAGGGTTCTTCCTGGCCTCAA
66 TACTCGATGATATTGTGAATACATAGGCTGTTAGAAAGGGTTCTTCCTGGCCTCAA
*
2544124 TGGAAATAAGTAAAGGATTGTTAATGTTGAGATTCAAATTTTCGGTTACTCAGTTGATGCTTATA
1 TGGAAATAAGGAAAGGATTGTTAATGTTGAGATTCAAATTTTCGG-T--T-AGTTGATGCTTATA
*
2544189 TATGTACTCGATGATATTGTGAATACGTAGGCTGTTAGAAA-GGTTCTTCCT-GCACTCAA
62 TATGTACTCGATGATATTGTGAATACATAGGCTGTTAGAAAGGGTTCTTCCTGGC-CTCAA
2544248 TGG
1 TGG
2544251 GAAACTAACT
Statistics
Matches: 113, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
121 40 0.35
122 1 0.01
123 2 0.02
124 19 0.17
125 51 0.45
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (121 bp):
TGGAAATAAGGAAAGGATTGTTAATGTTGAGATTCAAATTTTCGGTTAGTTGATGCTTATATATG
TACTCGATGATATTGTGAATACATAGGCTGTTAGAAAGGGTTCTTCCTGGCCTCAA
Found at i:2562844 original size:25 final size:26
Alignment explanation
Indices: 2562816--2562872 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
2562806 TTAAAAAATT
2562816 TTAAATTGAT-TTTATG-AAA-TTCAA
1 TTAAATT-ATATTTATGAAAATTTCAA
2562840 GTTAAA-TATATTTATGAAAATTTCAA
1 -TTAAATTATATTTATGAAAATTTCAA
2562866 TTAAATT
1 TTAAATT
2562873 TTAAATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 13 0.46
26 6 0.21
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (26 bp):
TTAAATTATATTTATGAAAATTTCAA
Found at i:2574819 original size:15 final size:15
Alignment explanation
Indices: 2574799--2574844 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
2574789 TAACCGTCTG
*
2574799 ATTGAAAGAAAAAAA
1 ATTGAAATAAAAAAA
*
2574814 ATTG-AATTAAAAAA
1 ATTGAAATAAAAAAA
*
2574828 ATTGAATTAAAAAAA
1 ATTGAAATAAAAAAA
2574843 AT
1 AT
2574845 CTCATCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
ATTGAAATAAAAAAA
Found at i:2574827 original size:14 final size:14
Alignment explanation
Indices: 2574808--2574842 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2574798 GATTGAAAGA
2574808 AAAAAAATTGAATT
1 AAAAAAATTGAATT
2574822 AAAAAAATTGAATT
1 AAAAAAATTGAATT
2574836 AAAAAAA
1 AAAAAAA
2574843 ATCTCATCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (14 bp):
AAAAAAATTGAATT
Found at i:2575140 original size:22 final size:23
Alignment explanation
Indices: 2575103--2575194 Score: 102
Period size: 22 Copynumber: 4.0 Consensus size: 23
2575093 TTTAAAAAAT
2575103 ATATAGTATATATAGTTTTTGAAA
1 ATATA-TATATATAGTTTTTGAAA
2575127 ATATATA-ATATAGTTTTTGAAA
1 ATATATATATATAGTTTTTGAAA
* *
2575149 ACATAT-TATATA-ATTTTGAAA
1 ATATATATATATAGTTTTTGAAA
*
2575170 ACGTATA-ATATATAGTTTTTTAAA
1 A--TATATATATATAGTTTTTGAAA
2575194 A
1 A
2575195 ATAGTTTTTG
Statistics
Matches: 58, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
21 9 0.16
22 25 0.43
23 11 0.19
24 13 0.22
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (23 bp):
ATATATATATATAGTTTTTGAAA
Found at i:2575310 original size:6 final size:6
Alignment explanation
Indices: 2575291--2575365 Score: 50
Period size: 6 Copynumber: 12.7 Consensus size: 6
2575281 AATATATACA
* *
2575291 TATTAT TATATAT TATTAT TATTAA TATT-T TATT-T TATT-T T-TTCT
1 TATTAT TAT-TAT TATTAT TATTAT TATTAT TATTAT TATTAT TATTAT
* * *
2575336 TATCTAT TTTTAT TTTTATT TATTTT TATT
1 TAT-TAT TATTAT TATTA-T TATTAT TATT
2575366 TCATTTTATT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
4 2 0.03
5 13 0.22
6 29 0.50
7 14 0.24
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (6 bp):
TATTAT
Found at i:2575329 original size:16 final size:16
Alignment explanation
Indices: 2575291--2575328 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2575281 AATATATACA
2575291 TATTATTATATATTAT
1 TATTATTATATATTAT
2575307 TATTATTA-ATATT-T
1 TATTATTATATATTAT
2575321 TATT-TTAT
1 TATTATTAT
2575329 TTTTTCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 5 0.24
15 5 0.24
16 8 0.38
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATTATTATATATTAT
Found at i:2575359 original size:16 final size:16
Alignment explanation
Indices: 2575318--2575366 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2575308 ATTATTAATA
2575318 TTTTATTT-TATTTT-T
1 TTTTATTTAT-TTTTAT
* *
2575333 TCTTATCTATTTTTAT
1 TTTTATTTATTTTTAT
2575349 TTTTATTTATTTTTAT
1 TTTTATTTATTTTTAT
2575365 TT
1 TT
2575367 CATTTTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTTATTTTTAT
Found at i:2575373 original size:16 final size:16
Alignment explanation
Indices: 2575318--2575380 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
2575308 ATTATTAATA
2575318 TTTTATTT-TATTT-T
1 TTTTATTTATATTTAT
* *
2575332 TTCTTATCTATTTTTAT
1 TT-TTATTTATATTTAT
*
2575349 TTTTATTTATTTTTA-
1 TTTTATTTATATTTAT
*
2575364 TTTCATTT-TATTTAT
1 TTTTATTTATATTTAT
2575379 TT
1 TT
2575381 CATCTTTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
14 7 0.17
15 14 0.35
16 16 0.40
17 3 0.08
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTATTTATATTTAT
Found at i:2595104 original size:16 final size:17
Alignment explanation
Indices: 2595083--2595115 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2595073 TAATTGTTAC
2595083 AATTTTCATT-AATTTT
1 AATTTTCATTAAATTTT
*
2595099 AATTTTCTTTAAATTTT
1 AATTTTCATTAAATTTT
2595116 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
AATTTTCATTAAATTTT
Found at i:2595909 original size:32 final size:31
Alignment explanation
Indices: 2595873--2595949 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
2595863 TGGGGCTACG
*
2595873 GGGCCTACCTAAGAACACATCTTAGGGCCGCA
1 GGGCCTACCTAAGAA-ACATCTCAGGGCCGCA
** **
2595905 GGGCCTACCCGAGAATGATCTCAGGGCCGCA
1 GGGCCTACCTAAGAAACATCTCAGGGCCGCA
*
2595936 GAGCCTACCTAAGA
1 GGGCCTACCTAAGA
2595950 GTCACATTAG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
31 24 0.65
32 13 0.35
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.14
Consensus pattern (31 bp):
GGGCCTACCTAAGAAACATCTCAGGGCCGCA
Found at i:2599923 original size:20 final size:21
Alignment explanation
Indices: 2599898--2599938 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
2599888 TTTTAAATTA
2599898 AAAGAAATCTAACC-CATATT
1 AAAGAAATCTAACCTCATATT
2599918 AAAGAAATCTAACCTCATATT
1 AAAGAAATCTAACCTCATATT
2599939 GGGGTGTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.49, C:0.20, G:0.05, T:0.27
Consensus pattern (21 bp):
AAAGAAATCTAACCTCATATT
Found at i:2599981 original size:22 final size:23
Alignment explanation
Indices: 2599949--2599991 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2599939 GGGGTGTGAC
2599949 AAATTAAATGT-AAAACTCGTAT
1 AAATTAAATGTAAAAACTCGTAT
*
2599971 AAATTATATGTAAAAACTCGT
1 AAATTAAATGTAAAAACTCGT
2599992 TGTTTAGCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (23 bp):
AAATTAAATGTAAAAACTCGTAT
Found at i:2600958 original size:31 final size:29
Alignment explanation
Indices: 2600923--2600991 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 29
2600913 GATTTTTAAC
**
2600923 AATTTAATATTTTAATTAAAATTAAAACTAA
1 AATTTAATATTAAAATTAAAA-TAAAA-TAA
*
2600954 AATTT-ATGATTAAAATTAAAATAATATAA
1 AATTTAAT-ATTAAAATTAAAATAAAATAA
2600983 AATTTAATA
1 AATTTAATA
2600992 GTATAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 9 0.27
30 8 0.24
31 16 0.48
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (29 bp):
AATTTAATATTAAAATTAAAATAAAATAA
Found at i:2610013 original size:107 final size:107
Alignment explanation
Indices: 2609884--2610102 Score: 386
Period size: 107 Copynumber: 2.1 Consensus size: 107
2609874 AGACATCATC
*
2609884 TTAAA-ATAAAAAGATCGGGTGAACAAAATCATTTTAAAACGAGTCGATCAAAATTTTATTACTA
1 TTAAATATAAAAAGATCGGGTGAACAAAATCATTTTAAAACGAGTCGATCAAAATTTTATTACAA
*
2609948 GATTCAATTTTCAAATAAATGTTTGTGTATAAGGATTATATT
66 GATTCAATTTTCAAATAAATGTTCGTGTATAAGGATTATATT
* *
2609990 TTAAATATAAAAGGATCGGGTGAACAAAATCATTTTAAAACGAGTCGATCAAGATTTTATTACAA
1 TTAAATATAAAAAGATCGGGTGAACAAAATCATTTTAAAACGAGTCGATCAAAATTTTATTACAA
*
2610055 GATTCACTTTTCAAATAAATGTTCGTGTATAAGGATTATATT
66 GATTCAATTTTCAAATAAATGTTCGTGTATAAGGATTATATT
2610097 TTAAAT
1 TTAAAT
2610103 TCTAACTTCG
Statistics
Matches: 107, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 5 0.05
107 102 0.95
ACGTcount: A:0.42, C:0.09, G:0.14, T:0.36
Consensus pattern (107 bp):
TTAAATATAAAAAGATCGGGTGAACAAAATCATTTTAAAACGAGTCGATCAAAATTTTATTACAA
GATTCAATTTTCAAATAAATGTTCGTGTATAAGGATTATATT
Found at i:2612804 original size:39 final size:40
Alignment explanation
Indices: 2612735--2612816 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 40
2612725 CGTTAATTGA
2612735 GTTGGCGAGTCTTATTTTATCATTCCAATTGTATTTGAAT
1 GTTGGCGAGTCTTATTTTATCATTCCAATTGTATTTGAAT
*
2612775 GTTGGTGAGTCTTA-TTTATCATTCCAATTGTATTTGAAT
1 GTTGGCGAGTCTTATTTTATCATTCCAATTGTATTTGAAT
2612814 GTT
1 GTT
2612817 TTTCATGTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 28 0.68
40 13 0.32
ACGTcount: A:0.22, C:0.11, G:0.18, T:0.49
Consensus pattern (40 bp):
GTTGGCGAGTCTTATTTTATCATTCCAATTGTATTTGAAT
Found at i:2617789 original size:23 final size:24
Alignment explanation
Indices: 2617727--2617831 Score: 70
Period size: 25 Copynumber: 4.3 Consensus size: 24
2617717 AAATATATTT
*
2617727 TATTTTTATTTTAACTTATTAAATA
1 TATTTTAATTTTAACTTATT-AATA
* *
2617752 TATTTTTACTATTAACTTAATT-A-A
1 TA-TTTTAATTTTAACTT-ATTAATA
** *
2617776 TATTTTAATTTTAAAATATATAATT
1 TATTTTAATTTTAACTTAT-TAATA
* * **
2617801 TATTTTGATGTTAACTTAAAAATA
1 TATTTTAATTTTAACTTATTAATA
2617825 TATTTTA
1 TATTTTA
2617832 TTCTTATTGT
Statistics
Matches: 59, Mismatches: 16, Indels: 11
0.69 0.19 0.13
Matches are distributed among these distances:
22 2 0.03
23 12 0.20
24 13 0.22
25 17 0.29
26 12 0.20
27 3 0.05
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (24 bp):
TATTTTAATTTTAACTTATTAATA
Found at i:2617855 original size:30 final size:29
Alignment explanation
Indices: 2617785--2617860 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 29
2617775 ATATTTTAAT
* *
2617785 TTTAAAATATATAATTTATTTTGATGTTAAC
1 TTTAAAATATAT--TTTATTTTGATGTAAAA
*
2617816 TTAAAAATATATTTTATTCTT-ATTGTAAAA
1 TTTAAAATATATTTTATT-TTGA-TGTAAAA
2617846 TTTAAAATATATTTT
1 TTTAAAATATATTTT
2617861 TAAATTAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
29 7 0.18
30 21 0.54
31 11 0.28
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (29 bp):
TTTAAAATATATTTTATTTTGATGTAAAA
Found at i:2617859 original size:54 final size:53
Alignment explanation
Indices: 2617713--2617860 Score: 126
Period size: 54 Copynumber: 2.8 Consensus size: 53
2617703 TTATATACCT
* * * *
2617713 TTAAAAATATATTTTATTTTTATTTTAACTTATTAAATATATTTTTACTATTAAC
1 TTAAAAATATATTTTA-TTTTATTTAAAATT-TAAAATATATTTTGACTATTAAC
** * * * * *
2617768 TTAATTA-ATATTTTA--AT-TTTAAAATATATAATTTATTTTGA-TGTTAAC
1 TTAAAAATATATTTTATTTTATTTAAAATTTAAAATATATTTTGACTATTAAC
2617816 TTAAAAATATATTTTATTCTTATTGTAAAATTTAAAATATATTTT
1 TTAAAAATATATTTTATT-TTATT-TAAAATTTAAAATATATTTT
2617861 TAAATTAAGA
Statistics
Matches: 70, Mismatches: 17, Indels: 13
0.70 0.17 0.13
Matches are distributed among these distances:
48 11 0.16
49 19 0.27
50 6 0.09
51 1 0.01
52 1 0.01
53 2 0.03
54 25 0.36
55 5 0.07
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (53 bp):
TTAAAAATATATTTTATTTTATTTAAAATTTAAAATATATTTTGACTATTAAC
Found at i:2617913 original size:31 final size:29
Alignment explanation
Indices: 2617848--2618005 Score: 162
Period size: 31 Copynumber: 5.4 Consensus size: 29
2617838 TTGTAAAATT
* *
2617848 TAAAATATATTTTTAAATTAAGATAATAA
1 TAAAATATATTTTTAAATTAAAATAAGAA
2617877 TAAAATATATTTTTAAAATTTAAAATAAGAA
1 TAAAATATATTTTT-AAA-TTAAAATAAGAA
* *
2617908 TAAAATATA-TTTTAAGTTAAAATAAGTA
1 TAAAATATATTTTTAAATTAAAATAAGAA
* *
2617936 TAAGATATATGTTTTTAAATTAAAATAATAA
1 TAA-A-ATATATTTTTAAATTAAAATAAGAA
* ** *
2617967 T-AAA-ATACTTTTAAATTAAGTTAAAAA
1 TAAAATATATTTTTAAATTAAAATAAGAA
2617994 TAAAATAT-TTTT
1 TAAAATATATTTT
2618006 ATAGATATTT
Statistics
Matches: 108, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
27 19 0.18
28 21 0.19
29 20 0.19
30 12 0.11
31 36 0.33
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (29 bp):
TAAAATATATTTTTAAATTAAAATAAGAA
Found at i:2617953 original size:26 final size:25
Alignment explanation
Indices: 2617895--2617968 Score: 69
Period size: 28 Copynumber: 2.8 Consensus size: 25
2617885 ATTTTTAAAA
2617895 TTTAAAATAAGAATAAAATATATTT
1 TTTAAAATAAGAATAAAATATATTT
* *
2617920 TAAGTTAAAATAAGTATAAGATATATGTT
1 T---TTAAAATAAGAATAAAATATAT-TT
*
2617949 TTTAAATTAA-AATAATAATA
1 TTTAAAATAAGAATAA-AATA
2617969 AAATACTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
25 5 0.13
26 11 0.28
28 20 0.51
29 3 0.08
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (25 bp):
TTTAAAATAAGAATAAAATATATTT
Found at i:2618018 original size:59 final size:58
Alignment explanation
Indices: 2617848--2618021 Score: 183
Period size: 59 Copynumber: 2.9 Consensus size: 58
2617838 TTGTAAAATT
*
2617848 TAAAATATATTTTTAAATTAAGATAATAATAAAATATATTTTTAAAATTTAAAATAAGAA
1 TAAAATATA-TTTTAAATTAAGATAAAAATAAAATATATTTTT-AAATTTAAAATAAGAA
* * ** * *
2617908 TAAAATATATTTTAAGTTAAAATAAGTATAAGATATATGTTTTTAAA-TTAAAATAATAA
1 TAAAATATATTTTAAATTAAGATAAAAATAA-A-ATATATTTTTAAATTTAAAATAAGAA
* *
2617967 TAAAATA-CTTTTAAATTAAGTTAAAAATAAAATAT-TTTTATAGATATTTAAAATA
1 TAAAATATATTTTAAATTAAGATAAAAATAAAATATATTTT-TA-A-ATTTAAAATA
2618022 TTATTACTTT
Statistics
Matches: 96, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
55 4 0.04
56 6 0.06
57 2 0.02
58 18 0.19
59 44 0.46
60 13 0.14
61 9 0.09
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.41
Consensus pattern (58 bp):
TAAAATATATTTTAAATTAAGATAAAAATAAAATATATTTTTAAATTTAAAATAAGAA
Found at i:2618274 original size:21 final size:21
Alignment explanation
Indices: 2618234--2618302 Score: 102
Period size: 21 Copynumber: 3.2 Consensus size: 21
2618224 AATTCCAGAA
* *
2618234 TGCTACAAGGGTATCGATACCC
1 TGCTAC-AGTGTACCGATACCC
2618256 TGCTACAGTGTACCGATACCC
1 TGCTACAGTGTACCGATACCC
*
2618277 TACTACAGTGTACCGATACCC
1 TGCTACAGTGTACCGATACCC
2618298 TGCTA
1 TGCTA
2618303 TAGTAATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
21 37 0.86
22 6 0.14
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (21 bp):
TGCTACAGTGTACCGATACCC
Found at i:2618975 original size:31 final size:31
Alignment explanation
Indices: 2618937--2618996 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
2618927 GAAGAACCAG
2618937 TCCATATGTTCC-GAAGAACATAGGTAAACAT
1 TCCATATG-TCCTGAAGAACATAGGTAAACAT
2618968 TCCATATGTCCTGAAGAACATAGGTAAAC
1 TCCATATGTCCTGAAGAACATAGGTAAAC
2618997 CCTCGACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (31 bp):
TCCATATGTCCTGAAGAACATAGGTAAACAT
Found at i:2625271 original size:18 final size:18
Alignment explanation
Indices: 2625248--2625285 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
2625238 AGGCGATGGA
*
2625248 GGCATCATATATGGTTGT
1 GGCATCATAAATGGTTGT
2625266 GGCATCATAAATGGTTGT
1 GGCATCATAAATGGTTGT
2625284 GG
1 GG
2625286 TGGCTGCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.11, G:0.32, T:0.34
Consensus pattern (18 bp):
GGCATCATAAATGGTTGT
Found at i:2626984 original size:17 final size:18
Alignment explanation
Indices: 2626964--2627004 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2626954 GAATTATAGT
2626964 AGTAAAAT-ATTAAATAA
1 AGTAAAATAATTAAATAA
2626981 AGTAAAATAATTAAATAA
1 AGTAAAATAATTAAATAA
*
2626999 ATTAAA
1 AGTAAA
2627005 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATAATTAAATAA
Found at i:2627067 original size:10 final size:10
Alignment explanation
Indices: 2627044--2627081 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
2627034 ACCTTAAACA
2627044 GAGAGAATATTT
1 GAGAGAA-A-TT
2627056 GAGAGAAATT
1 GAGAGAAATT
2627066 GAGAG-AATT
1 GAGAGAAATT
2627075 GAGAGAA
1 GAGAGAA
2627082 TTTGGTGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
10 8 0.32
11 1 0.04
12 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.21
Consensus pattern (10 bp):
GAGAGAAATT
Found at i:2628754 original size:49 final size:50
Alignment explanation
Indices: 2628695--2628843 Score: 232
Period size: 49 Copynumber: 3.0 Consensus size: 50
2628685 GGGCATTAAA
2628695 AATTAACATAAATAATAACATTATCTGATATAATAATAATTTTAATTATT
1 AATTAACATAAATAATAACATTATCTGATATAATAATAATTTTAATTATT
*
2628745 -ATTAACATAAATAATAACATTATCTGATATAATAATAATTCATTAAGTATT
1 AATTAACATAAATAATAACATTATCTGATATAATAATAATT--TTAATTATT
**
2628796 AATT-TTA-AAATAATAACATTATCTGATATAATAATAATTTTAATTATT
1 AATTAACATAAATAATAACATTATCTGATATAATAATAATTTTAATTATT
2628844 GGGCATTAAA
Statistics
Matches: 92, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
48 8 0.09
49 40 0.43
50 32 0.35
51 9 0.10
52 3 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (50 bp):
AATTAACATAAATAATAACATTATCTGATATAATAATAATTTTAATTATT
Found at i:2628961 original size:16 final size:16
Alignment explanation
Indices: 2628940--2628989 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
2628930 GATATAATAA
2628940 TAATTTTAATTATTAT
1 TAATTTTAATTATTAT
* *
2628956 TAATTTAAAATAATT-T
1 TAATTT-TAATTATTAT
*
2628972 TATTTTTAATTATTAT
1 TAATTTTAATTATTAT
2628988 TA
1 TA
2628990 TTAATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 6 0.22
16 15 0.56
17 6 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TAATTTTAATTATTAT
Found at i:2633623 original size:16 final size:16
Alignment explanation
Indices: 2633604--2633639 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2633594 AACACCATAA
2633604 AACACGAACATAAACG
1 AACACGAACATAAACG
2633620 AACACGAACATAAACG
1 AACACGAACATAAACG
2633636 AACA
1 AACA
2633640 AAATTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.58, C:0.25, G:0.11, T:0.06
Consensus pattern (16 bp):
AACACGAACATAAACG
Found at i:2633730 original size:16 final size:16
Alignment explanation
Indices: 2633709--2633753 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
2633699 TAATAAATAA
2633709 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
2633725 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
2633741 ACGAACATAAACG
1 ACGAACATAAACG
2633754 TTGGAGACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:2635483 original size:14 final size:14
Alignment explanation
Indices: 2635466--2635492 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2635456 GATTGGGTTA
2635466 AACATAAACGAACG
1 AACATAAACGAACG
2635480 AACATAAACGAAC
1 AACATAAACGAAC
2635493 ATAACCGAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.22, G:0.11, T:0.07
Consensus pattern (14 bp):
AACATAAACGAACG
Found at i:2639720 original size:261 final size:260
Alignment explanation
Indices: 2639423--2640021 Score: 765
Period size: 261 Copynumber: 2.3 Consensus size: 260
2639413 AATGTCGATT
2639423 GTGTATCAGAAGCAGAAACTGGTCACAACAAAGTAAAACTCCCTACACAATCCTTTAATGTTGGT
1 GTGTATCAGAAGCAGAAACTGGTCACAACAAAGTAAAACTCCCTACACAATCCTTTAATGTTGGT
* *
2639488 CGAT-TACCAGAAGTGGAAATTGATCATACCGAAGCAAAA-TTTCCCATAGAATCCCTGAATGTT
66 CG-TGTACCAGAAGTGGAAATTGATCATACCGAAG-AAAAGTTCCCCATAGAATCCATGAATGTT
* * ** * * * *
2639551 GGTCATGTGTCAGAAATGGAAACTGATCATAGCGAA-ATAAAGCTCTCCACAGAATCCCTTAATG
129 GATCAAGTGTCAGAAACAGAAACTGATCACAACGAAGA-AAAGCTCCCCACACAA-CCCTTAATG
* * * *
2639615 TTGATTGTGCATCAGAAACGAAAATTCATCCTATTGAACCAAAGCTCCCTACAAAATCACTTGTT
192 TCGATTGTGCATCAGAAACGAAAATTCATCATACTGAACCAAAACTCCCTACAAAATCACTTGTT
*
2639680 GGTC
257 GATC
* * *
2639684 GTGTATCAGAAGCAGAAA-TCGATCACAACAAAGTAAAGCACCCTACACAATCCTTTAATGTTGG
1 GTGTATCAGAAGCAGAAACT-GGTCACAACAAAGTAAAACTCCCTACACAATCCTTTAATGTTGG
* * ** *
2639748 TCGTGTATCAGAAGTGGACATTGATCATATTGAAGAAAAGTTCCCCATAGAATCCATTAATGTTG
65 TCGTGTACCAGAAGTGGAAATTGATCATACCGAAGAAAAGTTCCCCATAGAATCCATGAATGTTG
* *
2639813 ATCAAGTGTTAGAAGCAGAAACTGATCACAACGAAGAAAAGCTCCCCACACAACCCTTAATGTCG
130 ATCAAGTGTCAGAAACAGAAACTGATCACAACGAAGAAAAGCTCCCCACACAACCCTTAATGTCG
* * * *
2639878 GTTGTGTATCAGAAGCGAAAATTGATCATACTGAACCAAAACTCCCTACAAAATCACTTGTTGAT
195 ATTGTGCATCAGAAACGAAAATTCATCATACTGAACCAAAACTCCCTACAAAATCACTTGTTGAT
2639943 C
260 C
* * * * * * * * * *
2639944 CTGTATCAAAAGAAGAGACTGGTCACATCGAAGTAAAACTCCCCATACAATCCTTAAATGTTGAT
1 GTGTATCAGAAGCAGAAACTGGTCACAACAAAGTAAAACTCCCTACACAATCCTTTAATGTTGGT
*
2640009 CGTGTATCAGAAG
66 CGTGTACCAGAAG
2640022 CAGAAACTAA
Statistics
Matches: 291, Mismatches: 42, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
260 138 0.47
261 152 0.52
262 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (260 bp):
GTGTATCAGAAGCAGAAACTGGTCACAACAAAGTAAAACTCCCTACACAATCCTTTAATGTTGGT
CGTGTACCAGAAGTGGAAATTGATCATACCGAAGAAAAGTTCCCCATAGAATCCATGAATGTTGA
TCAAGTGTCAGAAACAGAAACTGATCACAACGAAGAAAAGCTCCCCACACAACCCTTAATGTCGA
TTGTGCATCAGAAACGAAAATTCATCATACTGAACCAAAACTCCCTACAAAATCACTTGTTGATC
Found at i:2639856 original size:459 final size:457
Alignment explanation
Indices: 2638964--2639897 Score: 1109
Period size: 459 Copynumber: 2.0 Consensus size: 457
2638954 CTTGCTGACC
* * *
2638964 GTGTATCAAAAGCAGAAACTGATCACAACGAAGCAAAACTCTTCACACAATCCCTTAATGTTAGT
1 GTGTATCAGAAGCAGAAACTGATCACAACAAAGCAAAACTCCTCACACAATCCCTTAATGTTAGT
* * * *
2639029 TGTGTAACAAAAACAGAAACTGAAAATACGGAAGCAAAGTTTCCCATAGAATACCTTGATGTTGG
66 CGTGTAACAAAAACAGAAACTGAAAATACCGAAGCAAAATTTCCCATAGAATACCCTGATGTTGG
*
2639094 TCACATGTCAAAAGTGGAAACTAACCACAACGAAGCAAAGCTCTCCACACAATCCCTTAATGTCG
131 TCACATGTCAAAAGTGGAAACTAACCACAACGAAACAAAGCTCTCCACACAATCCCTTAATGTCG
* * *
2639159 GTTGTGTATCAGAAGAGAAAATCGATCATATTGAACCAAATCTCCCTACAAAATCACTTGTTGAT
196 ATTGTGCATCAGAAGAGAAAATCGATCATATTGAACCAAAGCTCCCTACAAAATCACTTGTTGAT
** * * * * * *
2639224 CGGATACCAAAATTAAAAGCTGGTCGCAGCAAAGTAGAGCTCCTCATACAATCCTTTAATGTTGG
261 CGGATACCAAAAGCAAAAGCTGATCACAACAAAGTAAAGCCCCTCACACAATCCTTTAATGTTGG
* *
2639289 TCGTGTACCAGAAGTGGAAATTGATCATATTGAAGCAAAGTTTCCCATAGAATCTCCAAATGTTG
326 TCGTGTACCAGAAGTGGAAATTGATCATATTGAAGAAAAGTTCCCCATAGAA-CTCCAAATGTTG
* * ** * * *
2639354 GTCGAGTGTCAGAAATGGAAAATGGTCACAATGAAACAAAGCTCCCCACGCAACCTCATAATGTC
390 ATCAAGTGTCAGAAACAGAAAATGATCACAACGAAACAAAGCTCCCCACACAACC-CATAATGTC
2639419 GATT
454 GATT
* * * *
2639423 GTGTATCAGAAGCAGAAACTGGTCACAACAAAGTAAAACTCC-CTACACAATCCTTTAATGTTGG
1 GTGTATCAGAAGCAGAAACTGATCACAACAAAGCAAAACTCCTC-ACACAATCCCTTAATGTTAG
* * *** * **
2639487 TCGAT-TACCAGAAGTGGAAATTGATCATACCGAAGCAAAATTTCCCATAGAAT-CCCTGAATGT
65 TCG-TGTAACAAAAACAGAAACTGAAAATACCGAAGCAAAATTTCCCATAGAATACCCTG-ATGT
** * * * * * *
2639550 TGGTCATGTGTCAGAAA-TGGAAACTGATCATAGCGAAATAAAGCTCTCCACAGAATCCCTTAAT
128 TGGTCACATGTCA-AAAGTGGAAACTAACCACAACGAAACAAAGCTCTCCACACAATCCCTTAAT
* *
2639614 GTTGATTGTGCATCAGAA-ACGAAAATTC-ATCCTATTGAACCAAAGCTCCCTACAAAATCACTT
192 GTCGATTGTGCATCAGAAGA-GAAAA-TCGATCATATTGAACCAAAGCTCCCTACAAAATCACTT
* * * *
2639677 GTTGGTCGTG-TATCAGAAGCAGAAATC-GATCACAACAAAGTAAAGCACCCT-ACACAATCCTT
255 GTTGATCG-GATACCAAAAGCA-AAAGCTGATCACAACAAAGTAAAGC-CCCTCACACAATCCTT
* *
2639739 TAATGTTGGTCGTGTATCAGAAGTGGACATTGATCATATTGAAGAAAAGTTCCCCATAGAA-TCC
317 TAATGTTGGTCGTGTACCAGAAGTGGAAATTGATCATATTGAAGAAAAGTTCCCCATAGAACTCC
* * *
2639803 ATTAATGTTGATCAAGTGTTAGAAGCAGAAACTGATCACAACGAAGA-AAAGCTCCCCACACAAC
382 A--AATGTTGATCAAGTGTCAGAAACAGAAAATGATCACAACGAA-ACAAAGCTCCCCACACAAC
* *
2639867 CCTTAATGTCGGTT
444 CCATAATGTCGATT
2639881 GTGTATCAGAAGC-GAAA
1 GTGTATCAGAAGCAGAAA
2639898 ATTGATCATA
Statistics
Matches: 402, Mismatches: 61, Indels: 26
0.82 0.12 0.05
Matches are distributed among these distances:
457 8 0.02
458 30 0.07
459 349 0.87
460 15 0.04
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (457 bp):
GTGTATCAGAAGCAGAAACTGATCACAACAAAGCAAAACTCCTCACACAATCCCTTAATGTTAGT
CGTGTAACAAAAACAGAAACTGAAAATACCGAAGCAAAATTTCCCATAGAATACCCTGATGTTGG
TCACATGTCAAAAGTGGAAACTAACCACAACGAAACAAAGCTCTCCACACAATCCCTTAATGTCG
ATTGTGCATCAGAAGAGAAAATCGATCATATTGAACCAAAGCTCCCTACAAAATCACTTGTTGAT
CGGATACCAAAAGCAAAAGCTGATCACAACAAAGTAAAGCCCCTCACACAATCCTTTAATGTTGG
TCGTGTACCAGAAGTGGAAATTGATCATATTGAAGAAAAGTTCCCCATAGAACTCCAAATGTTGA
TCAAGTGTCAGAAACAGAAAATGATCACAACGAAACAAAGCTCCCCACACAACCCATAATGTCGA
TT
Found at i:2640308 original size:63 final size:63
Alignment explanation
Indices: 2640241--2640451 Score: 188
Period size: 63 Copynumber: 3.3 Consensus size: 63
2640231 CATTTCAAAG
* * * *
2640241 CAAAGCTCCTTACAAAATCAGTTGTTGGTCGCGTATCAGAAGCAGAAACTGGTCAAAGAGAAA
1 CAAAGCTCCCTACAAAATCACTTGTTGGTCGTGTATCAGAAGCAGAAACTGGTCAAAGCGAAA
* * * * * * * * * ** * *
2640304 CAAAGTTCCCCACACAATCCCTTAATGTCGATTGTGTATCAGTAGCAGAAATTTATCATATCGAA
1 CAAAGCTCCCTACAAAATCAC-T--TGTTGGTCGTGTATCAGAAGCAGAAACTGGTCAAAGCGAA
*
2640369 G
63 A
* **
2640370 CAAAGCTCCCTACAGAATCACTTGTTGGTCGTGTATCAGAAGTTGAAACTGGTCAAAGCGAAA
1 CAAAGCTCCCTACAAAATCACTTGTTGGTCGTGTATCAGAAGCAGAAACTGGTCAAAGCGAAA
* *
2640433 CAAAGCTCCCCACACAATC
1 CAAAGCTCCCTACAAAATC
2640452 TCTTAATTTT
Statistics
Matches: 109, Mismatches: 36, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
63 61 0.56
64 1 0.01
65 1 0.01
66 46 0.42
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (63 bp):
CAAAGCTCCCTACAAAATCACTTGTTGGTCGTGTATCAGAAGCAGAAACTGGTCAAAGCGAAA
Found at i:2640353 original size:327 final size:326
Alignment explanation
Indices: 2639767--2640354 Score: 761
Period size: 327 Copynumber: 1.8 Consensus size: 326
2639757 AGAAGTGGAC
* * * *
2639767 ATTGATCATATTGAAGAAAAGTTCCCCATAGAATCCATTAATGTTGATCAAGTGTTAGAAGCAGA
1 ATTGATCATACTGAAGAAAAGCTCCCCATAGAATCCATTAATGTCGATCAAGTGTCAGAAGCAGA
* *
2639832 AACTGATCACAACGAAGAAAAGCTCCCCACACAACCCTTAATGTCGGTTGTGTATCAGAAGCGAA
66 AACTGATCACAACGAAGAAAAGCTCCCCACACAACCCTTAATCTAGGTTGTGTATCAGAAGCGAA
* *
2639897 AATTGATCATACTGAACCAAAACTCCCTACAAAATCACTTGTTGATCCTGTATCAAAAGAAGAGA
131 AATTGATCATACTAAACCAAAACTCCCTACAAAATCACTTGTTGATCCTGTATCAAAAGAAGAAA
* ** ** * *
2639962 CTGGTCACATCGAAGTAAAACTCCCCATACAATCCTTAAATGTTGATCGTGTATCAGAAGCAGAA
196 CTGGTCAAAGAGAAACAAAACTCCCCACACAATCCTTAAATGTCGATCGTGTATCAGAAGCAGAA
2640027 ACTAAAAGCGAAGCAAAGCTCCCCACACAAATCGTTAATAAAGGTAGCTGTGTATCAAATGCAGA
261 ACTAAAAGCGAAGCAAAGCTCCCCACACAAATCGTTAATAAAGGTAGCTGTGTATCAAATGCAGA
2640092 A
326 A
* * * **
2640093 ATTGATCATACTGAAGCAAAGCTCCCCATAGAATTCC-TTAATGTCGATCATGTGTCAGTAGTGG
1 ATTGATCATACTGAAGAAAAGCTCCCCATAGAA-TCCATTAATGTCGATCAAGTGTCAGAAGCAG
* * ** * *
2640157 AAATTGATCACAATGAAGCTAAGCTCCCGACACAATCCCTTAATCTAGGTTGTGTATCAGAATCG
65 AAACTGATCACAACGAAGAAAAGCTCCCCACACAA-CCCTTAATCTAGGTTGTGTATCAGAAGCG
* * * * * * * *
2640222 AAAATTGATCAT-TTCAAAGCAAAGCTCCTTACAAAATCAGTTGTTGGTCGC-GTATCAGAAGCA
129 AAAATTGATCATACT-AAACCAAAACTCCCTACAAAATCACTTGTTGATC-CTGTATCAAAAGAA
** * *
2640285 GAAACTGGTCAAAGAGAAACAAAGTTCCCCACACAATCCCTT-AATGTCGATTGTGTATCAGTAG
192 GAAACTGGTCAAAGAGAAACAAAACTCCCCACACAAT-CCTTAAATGTCGATCGTGTATCAGAAG
2640349 CAGAAA
256 CAGAAA
2640355 TTTATCATAT
Statistics
Matches: 219, Mismatches: 38, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
326 82 0.37
327 132 0.60
328 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (326 bp):
ATTGATCATACTGAAGAAAAGCTCCCCATAGAATCCATTAATGTCGATCAAGTGTCAGAAGCAGA
AACTGATCACAACGAAGAAAAGCTCCCCACACAACCCTTAATCTAGGTTGTGTATCAGAAGCGAA
AATTGATCATACTAAACCAAAACTCCCTACAAAATCACTTGTTGATCCTGTATCAAAAGAAGAAA
CTGGTCAAAGAGAAACAAAACTCCCCACACAATCCTTAAATGTCGATCGTGTATCAGAAGCAGAA
ACTAAAAGCGAAGCAAAGCTCCCCACACAAATCGTTAATAAAGGTAGCTGTGTATCAAATGCAGA
A
Found at i:2640356 original size:129 final size:129
Alignment explanation
Indices: 2640177--2640490 Score: 398
Period size: 129 Copynumber: 2.4 Consensus size: 129
2640167 CAATGAAGCT
* * * *
2640177 AAGCTCCCGACACAATCCCTTAATCTAGGTTGTGTATCAGAATCGAAAATTGATCATTTCAAAGC
1 AAGCTCCCCACACAATCCCTTAATCTAGATTGTGTATCAGAAGCGAAAATTGATCATATCAAAGC
* *
2640242 AAAGCTCCTTACAAAATCAGTTGTTGGTCGCGTATCAGAAGCAGAAACTGGTCAAAGAGAAACA
66 AAAGCTCCCTACAAAATCACTTGTTGGTCGCGTATCAGAAGCAGAAACTGGTCAAAGAGAAACA
* * * * * *
2640306 AAGTTCCCCACACAATCCCTTAATGTCGATTGTGTATCAGTAGC-AGAAATTTATCATATCGAAG
1 AAGCTCCCCACACAATCCCTTAATCTAGATTGTGTATCAGAAGCGA-AAATTGATCATATCAAAG
* * ** *
2640370 CAAAGCTCCCTACAGAATCACTTGTTGGTCGTGTATCAGAAGTTGAAACTGGTCAAAGCGAAACA
65 CAAAGCTCCCTACAAAATCACTTGTTGGTCGCGTATCAGAAGCAGAAACTGGTCAAAGAGAAACA
* * * * *
2640435 AAGCTCCCCACACAATCTCTTAATTTTAG-TTGTGTATCAAAAGAGAAAACTGATCA
1 AAGCTCCCCACACAATCCCTTAA-TCTAGATTGTGTATCAGAAGCGAAAATTGATCA
2640491 CACAAAAGTA
Statistics
Matches: 156, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
128 1 0.01
129 151 0.97
130 4 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (129 bp):
AAGCTCCCCACACAATCCCTTAATCTAGATTGTGTATCAGAAGCGAAAATTGATCATATCAAAGC
AAAGCTCCCTACAAAATCACTTGTTGGTCGCGTATCAGAAGCAGAAACTGGTCAAAGAGAAACA
Found at i:2640617 original size:66 final size:66
Alignment explanation
Indices: 2638963--2640642 Score: 626
Period size: 66 Copynumber: 25.7 Consensus size: 66
2638953 ACTTGCTGAC
* * * * ** *
2638963 CGTGTATCAAAAGCAGAAACTGATCACAACGAAGCAAAACTCTTCACACAATCCCTTAATGTTAG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2639028 T
66 T
* * * * * * * * * * * *
2639029 TGTGTAACAAAAACAGAAACTGA--AAATACGGAAGCAAAGTTTCCCATAGAATACCTTGATGTT
1 CGTGTATCAGAAGCAGAAATTGATCACAT-C-GAAGCAAAGCTCCCCACACAATCCCTTAATGTT
2639092 GGT
64 GGT
*** * * ** * * * * * *
2639095 CACATGTCAAAAGTGGAAACTAACCACAACGAAGCAAAGCTCTCCACACAATCCCTTAATGTCGG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2639160 T
66 T
* * * * * * * * *
2639161 TGTGTATCAGAAG-AGAAAATCGATCATATTGAACCAAATCTCCCTACAAAATCAC-T--TGTTG
1 CGTGTATCAGAAGCAG-AAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTG
*
2639222 AT
65 GT
* * ** * * * * * * * * * *
2639224 CG-GATACCAAAATTA-AAAGCTGGTCGCAGCAAAGTAGAGCTCCTCATACAATCCTTTAATGTT
1 CGTG-TATCAGAAGCAGAAA-TTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTT
2639287 GGT
64 GGT
* ** * * * * * * *
2639290 CGTGTACCAGAAGTGGAAATTGATCATATTGAAGCAAAGTTTCCCATAGAATCTCC-AAATGTTG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATC-CCTTAATGTTG
2639354 GT
65 GT
* * *** * * * * * *
2639356 CGAGTGTCAGAAATGGAAAATGGTCACAAT-GAAACAAAGCTCCCCACGCAA-CCTCATAATGTC
1 CGTGTATCAGAAGCAGAAATTGATCAC-ATCGAAGCAAAGCTCCCCACACAATCC-CTTAATGTT
*
2639419 GAT
64 GGT
* * * * * * * * *
2639422 TGTGTATCAGAAGCAGAAACTGGTCACAACAAAGTAAAACTCCCTACACAATCCTTTAATGTTGG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2639487 T
66 T
* ** * * ** * * * *
2639488 CGAT-TACCAGAAGTGGAAATTGATCATACCGAAGCAAAATTTCCCATAGAATCCCTGAATGTTG
1 CG-TGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTG
2639552 GT
65 GT
* * *** * * * ** * * *
2639554 CATGTGTCAGAAATGGAAACTGATCATAGCGAAATAAAGCTCTCCACAGAATCCCTTAATGTTGA
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2639619 T
66 T
* * * * * * * * *
2639620 TGTGCATCAGAAAC-GAAAATTCATC-CTATTGAACCAAAGCTCCCTACAAAATCAC-T--TGTT
1 CGTGTATCAGAAGCAG-AAATTGATCAC-ATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTT
2639680 GGT
64 GGT
* * * * * * *
2639683 CGTGTATCAGAAGCAGAAATCGATCACAACAAAGTAAAGCACCCTACACAATCCTTTAATGTTGG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2639748 T
66 T
** * * * * * * * * *
2639749 CGTGTATCAGAAGTGGACATTGATCATATTGAAGAAAAGTTCCCCATAGAATCCATTAATGTTGA
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2639814 T
66 T
* * * *
2639815 CAAGTGT-T-AGAAGCAGAAACTGATCACAACGAAGAAAAGCTCCCCACACAA-CCCTTAATGTC
1 C--GTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTT
2639877 GGT
64 GGT
* * * * * * *
2639880 TGTGTATCAGAAGC-GAAAATTGATCATA-CTGAACCAAAACTCCCTACAAAATCAC-T--TGTT
1 CGTGTATCAGAAGCAG-AAATTGATCACATC-GAAGCAAAGCTCCCCACACAATCCCTTAATGTT
*
2639940 GAT
64 GGT
* * * * * * * * *
2639943 CCTGTATCAAAAGAAGAGACTGGTCACATCGAAGTAAAACTCCCCATACAAT-CCTTAAATGTTG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTT-AATGTTG
*
2640007 AT
65 GT
* * * * ***
2640009 CGTGTATCAGAAGCAGAAACT-A--AAAGCGAAGCAAAGCTCCCCACACAAAT-CGTTAATAAAG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACAC-AATCCCTTAATGTTG
2640070 GT
65 GT
* * * *
2640072 AGCTGTGTATCA-AATGCAGAAATTGATCATA-CTGAAGCAAAGCTCCCCATAGAATTCCTTAAT
1 --C-GTGTATCAGAA-GCAGAAATTGATCACATC-GAAGCAAAGCTCCCCACACAATCCCTTAAT
* *
2640135 GTCGAT
61 GTTGGT
* * * ** * * * *
2640141 CATGTGTCAGTAGTGGAAATTGATCACAAT-GAAGCTAAGCTCCCGACACAATCCCTTAATCTAG
1 CGTGTATCAGAAGCAGAAATTGATCAC-ATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTG
2640205 GT
65 GT
* * ** * ** * **
2640207 TGTGTATCAGAATC-GAAAATTGATCATTTCAAAGCAAAGCTCCTTACAAAAT-CAGT--TGTTG
1 CGTGTATCAGAAGCAG-AAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTG
2640268 GT
65 GT
* * * * ** * * * *
2640270 CGCGTATCAGAAGCAGAAACTGGTCAAAGAGAAACAAAGTTCCCCACACAATCCCTTAATGTCGA
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2640335 T
66 T
* * * * * * *
2640336 TGTGTATCAGTAGCAGAAATTTATCATATCGAAGCAAAGCTCCCTACAGAATCAC-T--TGTTGG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2640398 T
66 T
** * * * * * * * *
2640399 CGTGTATCAGAAGTTGAAACTGGTCAAAGCGAAACAAAGCTCCCCACACAATCTCTTAATTTTAG
1 CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
2640464 T
66 T
* * * * * * * * *
2640465 TGTGTATCAAAAG-AGAAAACTGATCACA-CAAAAGTAAAGCTGCCAATA-ACATCCCTTAATTT
1 CGTGTATCAGAAGCAG-AAATTGATCACATC-GAAGCAAAGCTCCCCACACA-ATCCCTTAATGT
*
2640527 TGGC
63 TGGT
* * * * *
2640531 CAG-G-ATTCAGAAGCAAAAATTGATCACATTGAAGCAAAACTCCCCACTCAATCCCTCAATGTT
1 C-GTGTA-TCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTT
2640594 GGT
64 GGT
* * * *
2640597 TGTGTATCAGAAGCAGAAATTGAACATACCGTAA-CAAAGCTCCCCA
1 CGTGTATCAGAAGCAGAAATTGATCACATCG-AAGCAAAGCTCCCCA
2640643 TGAAAACCCT
Statistics
Matches: 1150, Mismatches: 390, Indels: 148
0.68 0.23 0.09
Matches are distributed among these distances:
62 5 0.00
63 229 0.20
64 23 0.02
65 66 0.06
66 768 0.67
67 22 0.02
68 10 0.01
69 27 0.02
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.24
Consensus pattern (66 bp):
CGTGTATCAGAAGCAGAAATTGATCACATCGAAGCAAAGCTCCCCACACAATCCCTTAATGTTGG
T
Found at i:2640714 original size:45 final size:45
Alignment explanation
Indices: 2640658--2640748 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
2640648 ACCCTTAATT
* **
2640658 TTGGCCACATATCAGAAGCAAAAACTCATCACAATGAAGTAAAGC
1 TTGGCCACATATCAAAAGCAAAAACTCATCACAACAAAGTAAAGC
* * * *
2640703 TTGGTCACATATCAAAAGCAGACACTGATCACAACAAAGTAAAGC
1 TTGGCCACATATCAAAAGCAAAAACTCATCACAACAAAGTAAAGC
2640748 T
1 T
2640749 CCCTAAAGTA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (45 bp):
TTGGCCACATATCAAAAGCAAAAACTCATCACAACAAAGTAAAGC
Found at i:2642393 original size:23 final size:25
Alignment explanation
Indices: 2642328--2642393 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 25
2642318 GAAATTAGAG
*
2642328 TTTTTAAATAAA-TAT-AATAATAT
1 TTTTTAAAAAAATTATAAATAATAT
*
2642351 TTTTTAAGAAAAATGA-AAAT-A-AT
1 TTTTTAA-AAAAATTATAAATAATAT
2642374 TTTTTAAAAAAATTATAAAT
1 TTTTTAAAAAAATTATAAAT
2642394 GTGACATGTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 7 0.19
23 20 0.56
24 5 0.14
25 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
TTTTTAAAAAAATTATAAATAATAT
Found at i:2645011 original size:53 final size:52
Alignment explanation
Indices: 2644945--2645073 Score: 181
Period size: 53 Copynumber: 2.5 Consensus size: 52
2644935 CGTCGTCAAG
*
2644945 ACAATAATATTCGTTATTTTATCAACGATAAAAA-GAATTTGTTTTATATACTCA
1 ACAA-AATATTCGTTATTTTATCAACG-TAAAAATGAATTTG-TTTATACACTCA
* **
2644999 ACAAAATATTCGTTATTTTATAAACGTAAAAATGAATTTGTTTATACACTTG
1 ACAAAATATTCGTTATTTTATCAACGTAAAAATGAATTTGTTTATACACTCA
2645051 ACAAAATATTC-TTATTTTATCAA
1 ACAAAATATTCGTTATTTTATCAA
2645074 TGACAACATA
Statistics
Matches: 69, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
51 11 0.16
52 26 0.38
53 28 0.41
54 4 0.06
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (52 bp):
ACAAAATATTCGTTATTTTATCAACGTAAAAATGAATTTGTTTATACACTCA
Found at i:2645095 original size:52 final size:51
Alignment explanation
Indices: 2644944--2645096 Score: 148
Period size: 52 Copynumber: 2.9 Consensus size: 51
2644934 TCGTCGTCAA
* * *
2644944 GACAATAATATTCGTTATTTTATCAACGATAAAAAGAATTTGTTTTATATACTC
1 GACAA-AATATTCGTTATTTTATCAACG--AAAAATAATTTTTTTTATACACTC
* * * *
2644998 AACAAAATATTCGTTATTTTATAAACGTAAAAATGAA-TTTGTTTATACACTT
1 GACAAAATATTCGTTATTTTATCAACG-AAAAAT-AATTTTTTTTATACACTC
* *
2645050 GACAAAATATTC-TTATTTTATCAATGACAACATAATTTATTTTTATA
1 GACAAAATATTCGTTATTTTATCAACGA-AAAATAATTT-TTTTTATA
2645097 TTTTATAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
50 3 0.04
51 18 0.22
52 35 0.42
53 23 0.28
54 4 0.05
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (51 bp):
GACAAAATATTCGTTATTTTATCAACGAAAAATAATTTTTTTTATACACTC
Found at i:2645743 original size:21 final size:19
Alignment explanation
Indices: 2645709--2645750 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
2645699 TCATGAATTT
2645709 TGAGTTTAAGAATGAGCTTTA
1 TGAGTTTAAGAATG-G-TTTA
2645730 TGAGTTTTAA-AATGGTTTA
1 TGAG-TTTAAGAATGGTTTA
2645749 TG
1 TG
2645751 TAAAATTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.30
20 1 0.05
21 8 0.40
22 5 0.25
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (19 bp):
TGAGTTTAAGAATGGTTTA
Found at i:2649999 original size:20 final size:20
Alignment explanation
Indices: 2649974--2650014 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2649964 TAAAGATGTC
*
2649974 ACAATTATTTGATA-ATATAT
1 ACAATTATAT-ATATATATAT
2649994 ACAATTATATATATATATAT
1 ACAATTATATATATATATAT
2650014 A
1 A
2650015 TATTGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (20 bp):
ACAATTATATATATATATAT
Found at i:2650979 original size:2 final size:2
Alignment explanation
Indices: 2650925--2650966 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2650915 TATTTCAAGC
2650925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2650967 TCAAAAATAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2654985 original size:16 final size:16
Alignment explanation
Indices: 2654966--2655000 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
2654956 TCATAATAAA
2654966 TTATTTATTTCCTTAG
1 TTATTTATTTCCTTAG
2654982 TTATTTATTTCCTTAG
1 TTATTTATTTCCTTAG
2654998 TTA
1 TTA
2655001 AGACTTGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (16 bp):
TTATTTATTTCCTTAG
Found at i:2655342 original size:24 final size:24
Alignment explanation
Indices: 2655312--2655361 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
2655302 CTTCTATGTA
2655312 TTTTACTTTTGAAATAATATTGTT
1 TTTTACTTTTGAAATAATATTGTT
*
2655336 TTTTACTTTTGAAATAATCTTGTT
1 TTTTACTTTTGAAATAATATTGTT
2655360 TT
1 TT
2655362 AGAGTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.26, C:0.06, G:0.08, T:0.60
Consensus pattern (24 bp):
TTTTACTTTTGAAATAATATTGTT
Found at i:2657687 original size:2 final size:2
Alignment explanation
Indices: 2657676--2657733 Score: 68
Period size: 2 Copynumber: 30.5 Consensus size: 2
2657666 CCTTTAACAT
* * *
2657676 TA TA TA -A TA TA TT TA CA T- TA TA -A TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2657715 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
2657734 TTTACATATG
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
1 3 0.06
2 44 0.94
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2658781 original size:63 final size:63
Alignment explanation
Indices: 2658682--2658807 Score: 216
Period size: 63 Copynumber: 2.0 Consensus size: 63
2658672 TTGTTAAAAG
*
2658682 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTGAAAAACATTCAATTTGGTCCCCAAACCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAACCGGTT
* * *
2658745 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACGTTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAACCGGTT
2658808 TAATTCCCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
63 59 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (63 bp):
GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAACCGGTT
Found at i:2659248 original size:12 final size:12
Alignment explanation
Indices: 2659233--2659271 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
2659223 TTATATTTTA
2659233 ATATATATGTAT
1 ATATATATGTAT
*
2659245 ATATATGTGTAT
1 ATATATATGTAT
*
2659257 ATATCTATGTAT
1 ATATATATGTAT
2659269 ATA
1 ATA
2659272 CTTGTAATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:2659277 original size:10 final size:12
Alignment explanation
Indices: 2659233--2659309 Score: 58
Period size: 12 Copynumber: 6.8 Consensus size: 12
2659223 TTATATTTTA
*
2659233 ATATATATGTAT
1 ATATCTATGTAT
* *
2659245 ATATATGTGTAT
1 ATATCTATGTAT
2659257 ATATCTATGTAT
1 ATATCTATGTAT
2659269 ATA-CT-TGTA-
1 ATATCTATGTAT
* *
2659278 ATAGTTTATTTAT
1 ATA-TCTATGTAT
2659291 ATATCTAT-TAT
1 ATATCTATGTAT
2659302 -TAT-TATGT
1 ATATCTATGT
2659310 GTACATTTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
9 6 0.11
10 8 0.15
11 6 0.11
12 31 0.57
13 3 0.06
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.53
Consensus pattern (12 bp):
ATATCTATGTAT
Found at i:2669868 original size:1 final size:1
Alignment explanation
Indices: 2669862--2669886 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2669852 TCCTAAGTTG
2669862 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2669887 CGTTTAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2670876 original size:105 final size:105
Alignment explanation
Indices: 2670694--2671871 Score: 2026
Period size: 105 Copynumber: 11.2 Consensus size: 105
2670684 AGGTTTTACC
2670694 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2670759 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2670799 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
2670864 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2670904 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2670969 ACGAAGGGACCGCTGGTTGTCAACAAACA-TTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2671008 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
2671073 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2671113 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2671178 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2671218 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2671283 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2671323 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
2671388 ACGAAGGGACCGCTGGTTGTCACCAAACATTTCTCCAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
2671428 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
2671493 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
2671533 CAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCCGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* ** *
2671598 ACGAAGGGACCGCTGGTTGTCAATAAACACCTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
**
2671638 CAGAGCCAATTTCAACTTTGCAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
2671703 ACGAAGGGACCGCTGGTTGTCAACAAACATCTCTC-AATGT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAAT-T
* * * * * * * *
2671743 CAGAGCCAATTTCAACTTCACAGCAAAGGATATTGGACTCAAGACAGCACAAGCTCGACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
**
2671808 ACGAAGGGA-CGACTGACTGTCAACGAATA-ATTTCTC-AATT
66 ACGAAGGGACCG-CTGGTTGTCAAC-AA-ACATTTCTCAAATT
*
2671848 CCATAGCC-ATTTCCAACTTCACAA
1 -CAGAGCCAATTT-CAACTTCACAA
2671872 ACAGGTTGAC
Statistics
Matches: 1026, Mismatches: 40, Indels: 13
0.95 0.04 0.01
Matches are distributed among these distances:
104 106 0.10
105 892 0.87
106 27 0.03
107 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:2672229 original size:2 final size:2
Alignment explanation
Indices: 2672218--2672267 Score: 52
Period size: 2 Copynumber: 26.5 Consensus size: 2
2672208 CCTTTAACAT
* * *
2672218 TA TA TA -A TA TA TT TA CA T- TA TA -A TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2672257 TA TA TA TA TA T
1 TA TA TA TA TA T
2672268 TTACATATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
1 3 0.08
2 36 0.92
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2672237 original size:18 final size:19
Alignment explanation
Indices: 2672214--2672273 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
2672204 TTATCCTTTA
2672214 ACATTATATA-ATATATTT
1 ACATTATATATATATATTT
* *
2672232 ACATTATA-ATTTATATAT
1 ACATTATATATATATATTT
*
2672250 ATATATATATATATATATTT
1 ACAT-TATATATATATATTT
2672270 ACAT
1 ACAT
2672274 ATGGTGCATA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 1 0.03
18 17 0.52
19 4 0.12
20 11 0.33
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
ACATTATATATATATATTT
Found at i:2673307 original size:63 final size:62
Alignment explanation
Indices: 2673209--2673333 Score: 205
Period size: 63 Copynumber: 2.0 Consensus size: 62
2673199 TTTGTTAAAA
*
2673209 GGGTAACTTCATTTTGGCTCCCTCTGTTTTGAAAAACATTCAATTTGGTCCCCAAACCGGTT
1 GGGTAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAACCGGTT
* * *
2673271 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACGTTTAATTTGGTCCCCAAATCGGTT
1 GGGT-AACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAACCGGTT
2673334 TAATTCCCTT
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
62 4 0.07
63 54 0.93
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (62 bp):
GGGTAACTTCATTTTGGCTCCCTCTGTTTTAAAAAACATTCAATTTGGTCCCCAAACCGGTT
Found at i:2673777 original size:12 final size:12
Alignment explanation
Indices: 2673762--2673798 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
2673752 TTATATTTTA
2673762 ATATATATG--T
1 ATATATATGTAT
2673772 ATATATATGTAT
1 ATATATATGTAT
*
2673784 ATATCTATGTAT
1 ATATATATGTAT
2673796 ATA
1 ATA
2673799 CTTGTAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.41, C:0.03, G:0.08, T:0.49
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:2673804 original size:10 final size:11
Alignment explanation
Indices: 2673762--2673804 Score: 56
Period size: 10 Copynumber: 4.1 Consensus size: 11
2673752 TTATATTTTA
2673762 ATATA-TATGT
1 ATATACTATGT
2673772 ATATA-TATGT
1 ATATACTATGT
2673782 ATATATCTATGT
1 ATATA-CTATGT
2673794 ATATACT-TGT
1 ATATACTATGT
2673804 A
1 A
2673805 ATAGTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 19 0.61
11 2 0.06
12 10 0.32
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (11 bp):
ATATACTATGT
Found at i:2677409 original size:29 final size:29
Alignment explanation
Indices: 2677370--2677427 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
2677360 AATATTAAGG
*
2677370 AAGAAATAAATTTATAAAATT-ATGATTAA
1 AAGAAAGAAATTTAT-AAATTCATGATTAA
*
2677399 AAGAAAGAAATTTATAGATTCATGATTAA
1 AAGAAAGAAATTTATAAATTCATGATTAA
2677428 TTTGTTCATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (29 bp):
AAGAAAGAAATTTATAAATTCATGATTAA
Found at i:2678117 original size:3 final size:3
Alignment explanation
Indices: 2678111--2678136 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2678101 AAAATAATAA
2678111 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
2678137 GAAATTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2683989 original size:27 final size:27
Alignment explanation
Indices: 2683953--2684093 Score: 117
Period size: 27 Copynumber: 5.2 Consensus size: 27
2683943 ATGGTGTTGA
* * *
2683953 AGGAGTTCCAAAAGCCGGTGTCGA-GG
1 AGGAGTCCCAAACGCAGGTGTCGAGGG
*
2683979 ACGGAGTTCCAAACGCAGGTGTCGAGGG
1 A-GGAGTCCCAAACGCAGGTGTCGAGGG
*
2684007 AGGAGTCCCAAACGCAGGAGTCGAGGG
1 AGGAGTCCCAAACGCAGGTGTCGAGGG
* * * *
2684034 AGGAGTACCAAATGCCA-GTGTGGA-AG
1 AGGAGTCCCAAACG-CAGGTGTCGAGGG
* * * *
2684060 AGGGAGTCCCAAAGGCAGGAGTGGAGGA
1 A-GGAGTCCCAAACGCAGGTGTCGAGGG
2684088 AGGAGT
1 AGGAGT
2684094 GCCGAAGGCG
Statistics
Matches: 95, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
26 5 0.05
27 84 0.88
28 6 0.06
ACGTcount: A:0.30, C:0.18, G:0.40, T:0.12
Consensus pattern (27 bp):
AGGAGTCCCAAACGCAGGTGTCGAGGG
Found at i:2686412 original size:251 final size:251
Alignment explanation
Indices: 2686002--2686683 Score: 910
Period size: 251 Copynumber: 2.7 Consensus size: 251
2685992 TTGCACTCAG
* * *
2686002 TATCATATCAATCCAAAAACTAAATTCCTTGCAAAGGATTACAAAATATAGCATCATTTACTGAA
1 TATCATATCAATCCAAAAACTAAATTCCTTACAGAGGAATACAAAATATAGCATCATTTACTGAA
*
2686067 CCTTCAGGCACCAATAAAATCCAGAGGTTCACCTAAGAACAATGCACAAGTAATTTTCCTGAAGT
66 CCTTCAGGCACCAATAAAA-CCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGT
* * * * *
2686132 TTACGAGAACCTGGTTCATGAACGGCAACAATATCCTGCTTTTTT-ATCAGGTTTAAGAATCCAA
130 TTACGAGAACCTAGTTCACGAAAGGCAACAAGACCCTGCTTTTTTCATCAGGTTTAAGAATCC-A
* * *
2686196 AAATTAAGCCAAAAACCAAACC-CAACATCAAAACATCC-CAAAAAACAATTTTACTAA
194 AAACTAAGCCAAAAACCAAACCAAAACATCAAAACA-CCTCAAAAAACAATTTAACTAA
* * * *
2686253 TATCAAATCCATCCAAAAACTAAATTCCTTACAGAGGAATGCAAAATCTAGCATCATTTACTGAA
1 TATCATATCAATCCAAAAACTAAATTCCTTACAGAGGAATACAAAATATAGCATCATTTACTGAA
* *
2686318 CCTTCAGGAACCAATAAGAACCATAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGT
66 CCTTCAGGCACCAATAA-AACCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGT
** *
2686383 TTAATAGAACCTAGTTCACGAAAGGCAACAAGGCCCTGCTTTTTTCATCAGGTTTAAGAATCCAA
130 TTACGAGAACCTAGTTCACGAAAGGCAACAAGACCCTGCTTTTTTCATCAGGTTTAAGAATCCAA
** * * * *
2686448 AACTCGGCCTAAAACCGAACCGAAAAACATCAAGACACCTCAAGAAACAATTTAACTAA
195 AACTAAGCCAAAAACCAAACC--AAAACATCAAAACACCTCAAAAAACAATTTAACTAA
* * * * *
2686507 TATCATATCAATCCAAAACCTAAACTCATGACAGAGGAATACAAAATGTAGCATCATTTACTGAA
1 TATCATATCAATCCAAAAACTAAATTCCTTACAGAGGAATACAAAATATAGCATCATTTACTGAA
*
2686572 CCTTCAGGCACCAATAACAACCAGAGGTACACCCAAGAACAATGCACAAGTAATTTTCCTG--GT
66 CCTTCAGGCACCAATAA-AACCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGT
* * *
2686635 TTACGAGAACCTAGTTCAC-ATAAAGCAACAAAGGCCC-GCATTTTTCATC
130 TTACGAGAACCTAGTTCACGA-AAGGCAAC-AAGACCCTGCTTTTTTCATC
2686684 TGACTTAAAA
Statistics
Matches: 380, Mismatches: 43, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
251 173 0.46
252 56 0.15
253 9 0.02
254 142 0.37
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.23
Consensus pattern (251 bp):
TATCATATCAATCCAAAAACTAAATTCCTTACAGAGGAATACAAAATATAGCATCATTTACTGAA
CCTTCAGGCACCAATAAAACCAGAGGTTCACCCAAGAACAATGCACAAGTAATTTTCCTGAAGTT
TACGAGAACCTAGTTCACGAAAGGCAACAAGACCCTGCTTTTTTCATCAGGTTTAAGAATCCAAA
ACTAAGCCAAAAACCAAACCAAAACATCAAAACACCTCAAAAAACAATTTAACTAA
Found at i:2688019 original size:20 final size:19
Alignment explanation
Indices: 2687996--2688048 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 19
2687986 ATAAATTTTT
2687996 AAATTTATTAAAAACAATAG
1 AAATTTATTAAAAA-AATAG
* *
2688016 AAATTTTTTTAAAAAATTAG
1 AAA-TTTATTAAAAAAATAG
*
2688036 ATAATTTAATAAA
1 A-AATTTATTAAA
2688049 TTTCTTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (19 bp):
AAATTTATTAAAAAAATAG
Found at i:2690172 original size:13 final size:13
Alignment explanation
Indices: 2690154--2690178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2690144 AACCAATTTT
2690154 AAAAAAAATAAAC
1 AAAAAAAATAAAC
2690167 AAAAAAAATAAA
1 AAAAAAAATAAA
2690179 ATCCGAGAGA
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:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (13 bp):
AAAAAAAATAAAC
Found at i:2692063 original size:20 final size:20
Alignment explanation
Indices: 2692023--2692063 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2692013 TTTGATCATG
*
2692023 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
2692043 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
2692063 A
1 A
2692064 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Found at i:2698475 original size:20 final size:20
Alignment explanation
Indices: 2698435--2698475 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2698425 TTTGATCATG
*
2698435 ATATTTCAATATGCATGTAT
1 ATATTTCAATATGCATATAT
2698455 ATATTTC-ATATGACATATAT
1 ATATTTCAATATG-CATATAT
2698475 A
1 A
2698476 ACCAAGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (20 bp):
ATATTTCAATATGCATATAT
Done.