Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008165.1 Hibiscus syriacus cultivar Beakdansim tig00110745_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: 2894944
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 11
Found at i:1687995 original size:17 final size:16
Alignment explanation
Indices: 1687975--1688020 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
1687965 TTTATTTATC
*
1687975 TATTTTATTTATTTTAA
1 TATTTTA-TTATATTAA
1687992 TATTATTATTATATTAA
1 TATT-TTATTATATTAA
1688009 TATTTTTATTAT
1 TA-TTTTATTAT
1688021 TCTTTTTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 21 0.81
18 5 0.19
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTTTATTATATTAA
Found at i:1688006 original size:23 final size:23
Alignment explanation
Indices: 1687957--1688006 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1687947 TACTCAATTT
*
1687957 TATTTATCTTTATTTATCTATTT
1 TATTTATCTTTATTTATCTATTA
1687980 TATTTAT-TTTAATATTAT-TATTA
1 TATTTATCTTT-AT-TTATCTATTA
1688003 TATT
1 TATT
1688007 AATATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.12
23 17 0.71
24 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (23 bp):
TATTTATCTTTATTTATCTATTA
Found at i:1689286 original size:15 final size:17
Alignment explanation
Indices: 1689266--1689297 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1689256 CATAATATAA
1689266 TAAATT-CAAG-TAGAT
1 TAAATTGCAAGATAGAT
1689281 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
1689298 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:1689357 original size:22 final size:24
Alignment explanation
Indices: 1689313--1689357 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1689303 TACATTGAAA
*
1689313 TTTGATAAATAAACATACTAATTT
1 TTTGAAAAATAAACATACTAATTT
1689337 TTTGAAAAATAAA-A-ACTAATT
1 TTTGAAAAATAAACATACTAATT
1689358 GAGCATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.51, C:0.07, G:0.04, T:0.38
Consensus pattern (24 bp):
TTTGAAAAATAAACATACTAATTT
Found at i:1691923 original size:36 final size:36
Alignment explanation
Indices: 1691883--1691985 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
1691873 ATGGTGATGG
* *
1691883 ACATTGATACATGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
*
1691919 ACATTGATACACGAATGTATCAAAGTTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
1691955 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTATCAAAGCTGATA
1691986 ATGGATAAAT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.28
Consensus pattern (36 bp):
ACATTGATACACGAATGTATCAAAGCTGATATGATA
Found at i:1699470 original size:36 final size:36
Alignment explanation
Indices: 1699430--1699636 Score: 344
Period size: 36 Copynumber: 5.8 Consensus size: 36
1699420 ATGGTGATGG
* *
1699430 ACATTGATACACGAATGTACCAAAGCAGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
*
1699466 ACATTGATACACGAATGTATCAAAG-TAAATATGATA
1 ACATTGATACACGAATGTATCAAAGCT-GATATGATA
*
1699502 ACATTGCTACACGAATGTATCAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
*
1699538 ACATTGATACACGAATGTATTAAAGCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
*
1699574 ACATTGATACACGAATGTATCAAATCTGATATGATA
1 ACATTGATACACGAATGTATCAAAGCTGATATGATA
1699610 ACATTGATACACGAATGTATCAAAGCT
1 ACATTGATACACGAATGTATCAAAGCT
1699637 AATAATGGAT
Statistics
Matches: 159, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
36 158 0.99
37 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.15, T:0.28
Consensus pattern (36 bp):
ACATTGATACACGAATGTATCAAAGCTGATATGATA
Found at i:1704106 original size:375 final size:376
Alignment explanation
Indices: 1703406--1704144 Score: 1372
Period size: 375 Copynumber: 2.0 Consensus size: 376
1703396 AGTCGAGTAG
*
1703406 GTGAATCTAGTTTAGGTTAGTTGCTTGGAAATTGAACTCTAAAGATGAGATTTTTGGACTTTTAA
1 GTGAATCTAGTTTAGGTTAGTTGCTTGGAAATTGAACTCTAAAGATAAGATTTTTGGACTTTTAA
*
1703471 CAACACTTAGACTATAACAGGTTCTTTTTTACAATCTTAAAAAATTGAATCCGTATACAATAGAG
66 CAACACTTAGACTATAACAGGTTCTTTTTGACAATCTTAAAAAATTGAATCCGTATACAATAGAG
* **
1703536 CTAAGATATTTCACTAAGGCAATTGGTTATAGAGGAAACTCAATTGCCCTGGCTTTATGAATATA
131 CTAAGATATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATATA
1703601 TTATGTTCAAACCATGACATTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCAATTGTC
196 TTATGTTCAAACCATGACATTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCAATTGTC
*
1703666 AAGTCGAAGACTTTGTGATGAGATGAACCCTTCAGTTAACCTGATAAAAGTGATTATAATATTGA
261 AAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGTTAACCTGATAAAAGTGATTATAATATTGA
*
1703731 GATGTCCCACTTGAGCAATTGGTTAAACGCCCCGGCTTTTAACCTGAAAAA
326 GATGTCCCACTAGAGCAATTGGTTAAACGCCCCGGCTTTTAACCTGAAAAA
1703782 GTGAATCTAGTTTAGGTTAGTTGCTTGGAAATTGAACTCTAAAGATAAGATTTTTGGACTTTTAA
1 GTGAATCTAGTTTAGGTTAGTTGCTTGGAAATTGAACTCTAAAGATAAGATTTTTGGACTTTTAA
1703847 CAACACTTAGACTATAACAGGTTCTTTTTGACAATCTTAAAAAATTGAATCCGTATACAATAGAG
66 CAACACTTAGACTATAACAGGTTCTTTTTGACAATCTTAAAAAATTGAATCCGTATACAATAGAG
* *
1703912 CTGAGCTATTCCACTAAGGCAATTGGTTATAGAGG-AACTCAAAAGCCCTGGCTTTATGAATATA
131 CTAAGATATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATATA
*
1703976 TTATGTTCAAACCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCAATTGTC
196 TTATGTTCAAACCATGACATTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCAATTGTC
1704041 AAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGTTAACCTGATAAAAGTGATTATAATATTGA
261 AAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGTTAACCTGATAAAAGTGATTATAATATTGA
*
1704106 GATGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTT
326 GATGTCCCACTAGAGCAATTGGTTAAACGCCCCGGCTTT
1704145 ATGGATAAAA
Statistics
Matches: 352, Mismatches: 11, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
375 192 0.55
376 160 0.45
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (376 bp):
GTGAATCTAGTTTAGGTTAGTTGCTTGGAAATTGAACTCTAAAGATAAGATTTTTGGACTTTTAA
CAACACTTAGACTATAACAGGTTCTTTTTGACAATCTTAAAAAATTGAATCCGTATACAATAGAG
CTAAGATATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGAATATA
TTATGTTCAAACCATGACATTGCTCGGACACTTGGCAATTCGATGTTTGCTCCACTGCAATTGTC
AAGTCGAAGACTTTGTGATGAAATGAACCCTTCAGTTAACCTGATAAAAGTGATTATAATATTGA
GATGTCCCACTAGAGCAATTGGTTAAACGCCCCGGCTTTTAACCTGAAAAA
Found at i:1706549 original size:36 final size:36
Alignment explanation
Indices: 1706497--1706645 Score: 153
Period size: 36 Copynumber: 4.1 Consensus size: 36
1706487 TAAAAATTAC
* *
1706497 ATATATTATATGGTTTTGAAAATGATTTTTTAAAATAT
1 ATATATTATAT-GTTTTGAAAATTA-TTTTGAAAATAT
*
1706535 ATATATTATA-GTTTTGGAAATTATTTTTGAAAATAT
1 ATATATTATATGTTTTGAAAATTA-TTTTGAAAATAT
* * *
1706571 ATA-A-TATATGTTTTTGAAAA-CATTTTAAAAACAAT
1 ATATATTATATG-TTTTGAAAATTATTTTGAAAA-TAT
*
1706606 ATATAATATATAGTTTTGAAAATTATTTTGAAAATAT
1 ATATATTATAT-GTTTTGAAAATTATTTTGAAAATAT
1706643 ATA
1 ATA
1706646 GTTTTGAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
34 12 0.13
35 8 0.09
36 35 0.37
37 19 0.20
38 20 0.21
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (36 bp):
ATATATTATATGTTTTGAAAATTATTTTGAAAATAT
Found at i:1706652 original size:16 final size:16
Alignment explanation
Indices: 1706610--1706655 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
1706600 AACAATATAT
1706610 AATATATAGTTTTG-A
1 AATATATAGTTTTGAA
1706625 AA-AT-TA-TTTTGAA
1 AATATATAGTTTTGAA
1706638 AATATATAGTTTTGAA
1 AATATATAGTTTTGAA
1706654 AA
1 AA
1706656 CATTTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.19
13 5 0.19
14 4 0.15
15 4 0.15
16 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (16 bp):
AATATATAGTTTTGAA
Found at i:1706668 original size:27 final size:28
Alignment explanation
Indices: 1706610--1706670 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
1706600 AACAATATAT
*
1706610 AATATATAGTTTTGAAAATTATTTTGAA
1 AATATATAGTTTTGAAAATCATTTTGAA
1706638 AATATATAGTTTTGAAAA-CATTTTGAA
1 AATATATAGTTTTGAAAATCATTTTGAA
1706665 AATATA
1 AATATA
1706671 ATATATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 14 0.44
28 18 0.56
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.43
Consensus pattern (28 bp):
AATATATAGTTTTGAAAATCATTTTGAA
Found at i:1706729 original size:3 final size:3
Alignment explanation
Indices: 1706707--1706772 Score: 57
Period size: 3 Copynumber: 21.7 Consensus size: 3
1706697 AATATTGTTT
* *
1706707 TTA TTA TTG TTA TT- TATA TTA TTTA TTA TTA TTA TTA TTA TTAA TTC
1 TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA TTA TTA TTA TT-A TTA
1706754 TTA TTTA TT- TTA TT- TTA TT
1 TTA -TTA TTA TTA TTA TTA TT
1706773 TCTTTTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
2 5 0.10
3 37 0.71
4 10 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:1706738 original size:19 final size:19
Alignment explanation
Indices: 1706710--1706768 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
1706700 ATTGTTTTTA
*
1706710 TTATTGTTATTTATATTAT
1 TTATTATTATTTATATTAT
1706729 TTATTATTA-TTATTATTAT
1 TTATTATTATTTA-TATTAT
* * *
1706748 TAATTCTTATTTATTTTAT
1 TTATTATTATTTATATTAT
1706767 TT
1 TT
1706769 TATTTCTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 3 0.09
19 27 0.82
20 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTATTATTATTTATATTAT
Found at i:1706748 original size:22 final size:22
Alignment explanation
Indices: 1706706--1706773 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
1706696 TAATATTGTT
*
1706706 TTTATTATTGTTATT-TATATTA
1 TTTATTATTATTATTAT-TATTA
1706728 TTTATTATTATTATTATTATTA
1 TTTATTATTATTATTATTATTA
* *
1706750 ATTCTTATTTATT-TTATT-TTA
1 TTTATTA-TTATTATTATTATTA
1706771 TTT
1 TTT
1706774 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.12
22 29 0.73
23 6 0.15
ACGTcount: A:0.26, C:0.01, G:0.01, T:0.71
Consensus pattern (22 bp):
TTTATTATTATTATTATTATTA
Found at i:1706768 original size:9 final size:10
Alignment explanation
Indices: 1706710--1706768 Score: 70
Period size: 9 Copynumber: 6.2 Consensus size: 10
1706700 ATTGTTTTTA
*
1706710 TTATTGTTAT
1 TTATTATTAT
1706720 TTA-TATTAT
1 TTATTATTAT
1706729 TTATTATTA-
1 TTATTATTAT
1706738 TTATTATTAT
1 TTATTATTAT
* *
1706748 TAATTCTTAT
1 TTATTATTAT
1706758 TTATT-TTAT
1 TTATTATTAT
1706767 TT
1 TT
1706769 TATTTCTTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
9 23 0.53
10 20 0.47
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTATTATTAT
Found at i:1706783 original size:14 final size:14
Alignment explanation
Indices: 1706719--1706782 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
1706709 ATTATTGTTA
*
1706719 TTTATATTATTTAT
1 TTTATTTTATTTAT
1706733 TATTATTATTA-TTA-
1 T-TTATT-TTATTTAT
*
1706747 TTAATTCTTATTTAT
1 TTTATT-TTATTTAT
*
1706762 TTTATTTTATTTCT
1 TTTATTTTATTTAT
1706776 TTT-TTTT
1 TTTATTTT
1706783 TCAGGTCTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 11 0.27
14 15 0.37
15 12 0.29
16 3 0.07
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:1707162 original size:16 final size:16
Alignment explanation
Indices: 1707136--1707194 Score: 91
Period size: 16 Copynumber: 3.7 Consensus size: 16
1707126 TCGGAGAACC
1707136 AACCACAACAACATCG
1 AACCACAACAACATCG
* *
1707152 AACCCCGACAACATCG
1 AACCACAACAACATCG
*
1707168 AACCATAACAACATCG
1 AACCACAACAACATCG
1707184 AACCACAACAA
1 AACCACAACAA
1707195 GCACAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.49, C:0.37, G:0.07, T:0.07
Consensus pattern (16 bp):
AACCACAACAACATCG
Found at i:1707941 original size:7 final size:8
Alignment explanation
Indices: 1707924--1708020 Score: 51
Period size: 8 Copynumber: 12.2 Consensus size: 8
1707914 ATTTAACCTT
1707924 TTTTATTA
1 TTTTATTA
1707932 TTTT-TTA
1 TTTTATTA
1707939 TTTTATT-
1 TTTTATTA
**
1707946 TCGT-TT-
1 TTTTATTA
1707952 TTTTATTA
1 TTTTATTA
* *
1707960 TTTTTTTC
1 TTTTATTA
*
1707968 TTTTACTCAA
1 TTTTA-T-TA
1707978 TTTTATTTA
1 TTTTA-TTA
*
1707987 TTTTAGTA
1 TTTTATTA
1707995 TTATTATTA
1 TT-TTATTA
* *
1708004 TATTAATA
1 TTTTATTA
1708012 TTTT-TTA
1 TTTTATTA
1708019 TT
1 TT
1708021 ATTCTTTTTT
Statistics
Matches: 66, Mismatches: 17, Indels: 13
0.69 0.18 0.14
Matches are distributed among these distances:
6 4 0.06
7 15 0.23
8 28 0.42
9 13 0.20
10 6 0.09
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTATTA
Found at i:1707971 original size:16 final size:15
Alignment explanation
Indices: 1707922--1707972 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1707912 AAATTTAACC
1707922 TTTTTTATTATTTTT
1 TTTTTTATTATTTTT
* **
1707937 TATTTTA-T-TTCGT
1 TTTTTTATTATTTTT
1707950 TTTTTTATTATTTTT
1 TTTTTTATTATTTTT
1707965 TTCTTTTA
1 TT-TTTTA
1707973 CTCAATTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 5
0.71 0.16 0.13
Matches are distributed among these distances:
13 9 0.33
14 2 0.07
15 11 0.41
16 5 0.19
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTATTATTTTT
Found at i:1707981 original size:28 final size:29
Alignment explanation
Indices: 1707922--1707990 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 29
1707912 AAATTTAACC
* **
1707922 TTTTTTATTA-TTTTTTATTTTATTTCGT
1 TTTTTTATTATTTTTTTATTTTATCTCAA
*
1707950 TTTTTTATTATTTTTTTCTTTTA-CTCAA
1 TTTTTTATTATTTTTTTATTTTATCTCAA
*
1707978 TTTTAT-TTATTTT
1 TTTTTTATTATTTT
1707991 AGTATTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 7 0.20
28 17 0.49
29 11 0.31
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTTTTATTATTTTTTTATTTTATCTCAA
Found at i:1710655 original size:58 final size:58
Alignment explanation
Indices: 1710565--1710681 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
1710555 TATTCAGGAG
1710565 AATTAATGAGTAAGAATGCTACTATTGAACCAACATAAAATTCCACGTACACTTTGGA
1 AATTAATGAGTAAGAATGCTACTATTGAACCAACATAAAATTCCACGTACACTTTGGA
1710623 AATTAATGAGTAAGAATGCTACTATTGAACCAACATAAAATTCCACGTACACTTTGGA
1 AATTAATGAGTAAGAATGCTACTATTGAACCAACATAAAATTCCACGTACACTTTGGA
1710681 A
1 A
1710682 CACATTATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (58 bp):
AATTAATGAGTAAGAATGCTACTATTGAACCAACATAAAATTCCACGTACACTTTGGA
Found at i:1715764 original size:28 final size:29
Alignment explanation
Indices: 1715711--1715770 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
1715701 CCCAAATTTT
*
1715711 ATTTAGTGATAAAAATATAAGTTTTAAAA
1 ATTTAGTGATAAAAATATAAATTTTAAAA
* *
1715740 ATTTAGTGATTAAATTA-AAATTTTAAAA
1 ATTTAGTGATAAAAATATAAATTTTAAAA
1715768 ATT
1 ATT
1715771 AAAGGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 13 0.46
29 15 0.54
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (29 bp):
ATTTAGTGATAAAAATATAAATTTTAAAA
Found at i:1717439 original size:36 final size:36
Alignment explanation
Indices: 1717396--1717534 Score: 242
Period size: 36 Copynumber: 3.9 Consensus size: 36
1717386 ATTTATCCAT
*
1717396 TATCAGCTTTGGTACATTCGTGTATCAATGTTATTA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATAA
1717432 TATCAGCTTTGGTACATTCGTGTATCAATGTTATAA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATAA
* *
1717468 TATCAGTTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATAA
*
1717504 TATTAGCTTTGGTACATTCGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1717535 CCAGCACCGT
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 98 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATAA
Found at i:1718267 original size:16 final size:17
Alignment explanation
Indices: 1718238--1718272 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
1718228 ATGAAAAGAT
*
1718238 ATGATTTAATAAAATTA
1 ATGATTTAAGAAAATTA
1718255 ATGA-TTAAGAAAATTA
1 ATGATTTAAGAAAATTA
1718271 AT
1 AT
1718273 TTATTTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (17 bp):
ATGATTTAAGAAAATTA
Found at i:1723343 original size:29 final size:29
Alignment explanation
Indices: 1723286--1723344 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
1723276 CCCAAATTTT
*
1723286 ATTTAGTGACTAAAATATAAGTTTTGAAA
1 ATTTAGTGACTAAAATATAAATTTTGAAA
1723315 ATTTAGTGACT-AAAT-TGAAATTTTGGAAA
1 ATTTAGTGACTAAAATAT-AAATTTT-GAAA
1723344 A
1 A
1723345 AATAAAGGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 1 0.04
28 10 0.37
29 16 0.59
ACGTcount: A:0.44, C:0.03, G:0.15, T:0.37
Consensus pattern (29 bp):
ATTTAGTGACTAAAATATAAATTTTGAAA
Found at i:1724470 original size:13 final size:13
Alignment explanation
Indices: 1724452--1724490 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1724442 AGTTCTTAAA
1724452 TGGAGAAAATTAT
1 TGGAGAAAATTAT
1724465 TGGAGAAAATTAT
1 TGGAGAAAATTAT
* *
1724478 TTGAGTAAATTAT
1 TGGAGAAAATTAT
1724491 CGAATACTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.36
Consensus pattern (13 bp):
TGGAGAAAATTAT
Found at i:1725393 original size:36 final size:36
Alignment explanation
Indices: 1725348--1725520 Score: 319
Period size: 36 Copynumber: 4.8 Consensus size: 36
1725338 TTATCCATTT
1725348 TCAGCTTTGGTACATTCGTGTATCAATGTTATCATA
1 TCAGCTTTGGTACATTCGTGTATCAATGTTATCATA
*
1725384 TCAGCTTTGGTACATTCATGTATCAATGTTATCATA
1 TCAGCTTTGGTACATTCGTGTATCAATGTTATCATA
*
1725420 TCATCTTTGGTACATTCGTGTATCAATGTTATCATA
1 TCAGCTTTGGTACATTCGTGTATCAATGTTATCATA
*
1725456 TCAGCTTTGGTACATTCGTGTATCAATGTTACCATA
1 TCAGCTTTGGTACATTCGTGTATCAATGTTATCATA
1725492 TCAGCTTTGGTACATTCGTGTATCAATGT
1 TCAGCTTTGGTACATTCGTGTATCAATGT
1725521 CCAGCACCGT
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 132 1.00
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (36 bp):
TCAGCTTTGGTACATTCGTGTATCAATGTTATCATA
Found at i:1738007 original size:74 final size:73
Alignment explanation
Indices: 1737883--1738079 Score: 193
Period size: 74 Copynumber: 2.7 Consensus size: 73
1737873 GCAACCGAGA
* * * * * *
1737883 TTGACTAAACCCATGAA-GGGAATCATCCAAATAATTAAGATTGGCCTAAACCACGAAGGAGAGT
1 TTGACTACACCCATGAAGGGGAGTCATCCAAAGAATCAAGATTGACTTAAACCACGAAGGAGAGT
1737947 CATCTCAC
66 CATCTCAC
* *** *
1737955 TTGACTCACACCCATGAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACTGTGAAGGGGAG
1 TTGACT-ACACCCATGAAGGGGAGTCATCCAAAGAATCAAGATTGACTTAAACCACGAAGGAGAG
* *
1738020 TCGTTTCAC
65 TCATCTCAC
* * * **
1738029 CTGGCTTTCA--TGTGAAGGGGAGTCATCCAAAGAATCAAGATTGACTTAAAC
1 TTGAC-TACACCCATGAAGGGGAGTCATCCAAAGAATCAAGATTGACTTAAAC
1738080 TATGAAGAGG
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
72 44 0.43
73 10 0.10
74 48 0.47
75 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (73 bp):
TTGACTACACCCATGAAGGGGAGTCATCCAAAGAATCAAGATTGACTTAAACCACGAAGGAGAGT
CATCTCAC
Found at i:1738061 original size:72 final size:72
Alignment explanation
Indices: 1737969--1738160 Score: 269
Period size: 72 Copynumber: 2.7 Consensus size: 72
1737959 CTCACACCCA
*
1737969 TGAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACTGTGAAGGGGAGTCGTTTCACCTGGC
1 TGAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACTGTGAAGGGGAGTCGTCTCACCTGGC
1738034 TTTCAT-G
66 TTT-ATCG
* * * * *
1738041 TGAAGGGGAGTCATCCAAAGAATCAAGATTGACTTAAACTATGAAGAGGAGTTGTCTCACTTGGC
1 TGAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACTGTGAAGGGGAGTCGTCTCACCTGGC
1738106 TTTATCG
66 TTTATCG
* * * * *
1738113 CGAAGGGGATTCATCCAAAGAATTAAGACCGACCTAAACTGTGAAGGG
1 TGAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACTGTGAAGGG
1738161 ATTCATCTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
71 2 0.02
72 103 0.98
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (72 bp):
TGAAGGGGAGTCATCCAAAGAATCAAGACTGACTTAAACTGTGAAGGGGAGTCGTCTCACCTGGC
TTTATCG
Found at i:1740475 original size:29 final size:27
Alignment explanation
Indices: 1740417--1740477 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
1740407 TGTTACATGA
*
1740417 ATTTTATTTTTTTTCTATTTTTGCATT
1 ATTTTATTTTTTATCTATTTTTGCATT
*
1740444 ATTTTATTTTCTTATGTATGTTTTG-AGTT
1 ATTTTATTTT-TTATCTAT-TTTTGCA-TT
1740473 ATTTT
1 ATTTT
1740478 CTTTATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 10 0.34
28 7 0.24
29 12 0.41
ACGTcount: A:0.16, C:0.05, G:0.08, T:0.70
Consensus pattern (27 bp):
ATTTTATTTTTTATCTATTTTTGCATT
Found at i:1749640 original size:10 final size:10
Alignment explanation
Indices: 1749625--1749653 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1749615 GCTTACCCCA
1749625 ACGACGGTGG
1 ACGACGGTGG
1749635 ACGACGGTGG
1 ACGACGGTGG
1749645 ACGACGGTG
1 ACGACGGTG
1749654 CATCGATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.48, T:0.10
Consensus pattern (10 bp):
ACGACGGTGG
Found at i:1751858 original size:19 final size:19
Alignment explanation
Indices: 1751790--1751859 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1751780 CAGAGAAAAG
*
1751790 ATCAGAGATCAGAATAGAA
1 ATCAGAGATCAGAACAGAA
* * *
1751809 ACCAGAGATCAAAACAGAT
1 ATCAGAGATCAGAACAGAA
* * *
1751828 ATCAAAGTTCAGAGCAGAA
1 ATCAGAGATCAGAACAGAA
*
1751847 ATCAGAGGTCAGA
1 ATCAGAGATCAGA
1751860 CTGTATTTCA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.49, C:0.16, G:0.21, T:0.14
Consensus pattern (19 bp):
ATCAGAGATCAGAACAGAA
Found at i:1772351 original size:40 final size:38
Alignment explanation
Indices: 1772283--1772364 Score: 87
Period size: 40 Copynumber: 2.1 Consensus size: 38
1772273 AGAAAAAGAG
* *
1772283 AAAAAAGGAAAAAGAGAAAGAATAAAAATA-ATAATTAA
1 AAAAAAAGAAAAAGAAAAAGAATAAAAATATAT-ATTAA
*
1772321 AAAAAAAGAAAGAAGAAAGAAGAA-AGAAAATCTATATTAA
1 AAAAAAAGAAA-AAGAAA-AAGAATA-AAAATATATATTAA
1772361 AAAA
1 AAAA
1772365 GGGGGTTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
38 10 0.27
39 6 0.16
40 19 0.51
41 2 0.05
ACGTcount: A:0.73, C:0.01, G:0.13, T:0.12
Consensus pattern (38 bp):
AAAAAAAGAAAAAGAAAAAGAATAAAAATATATATTAA
Found at i:1781009 original size:27 final size:27
Alignment explanation
Indices: 1780989--1781082 Score: 143
Period size: 27 Copynumber: 3.5 Consensus size: 27
1780979 ATATATAAAA
1780989 ACTATATACTATAGTTGATATTTATAT
1 ACTATATACTATAGTTGATATTTATAT
1781016 ACTATATACTATAGTTGATATTTATAT
1 ACTATATACTATAGTTGATATTTATAT
* * *
1781043 ACTATATAATATAGTTTATACTTATAT
1 ACTATATACTATAGTTGATATTTATAT
* *
1781070 AATTTATACTATA
1 ACTATATACTATA
1781083 TAAATTCAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (27 bp):
ACTATATACTATAGTTGATATTTATAT
Found at i:1781088 original size:15 final size:15
Alignment explanation
Indices: 1781051--1781085 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1781041 ATACTATATA
*
1781051 ATATAGTTTATACTT
1 ATATAATTTATACTT
1781066 ATATAATTTATAC-T
1 ATATAATTTATACTT
1781080 ATATAA
1 ATATAA
1781086 ATTCAAAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.49
Consensus pattern (15 bp):
ATATAATTTATACTT
Found at i:1781998 original size:27 final size:29
Alignment explanation
Indices: 1781966--1782021 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
1781956 AACATACTAA
1781966 TTATTTAATATCAAA-TATA-ATATGCAG
1 TTATTTAATATCAAACTATAGATATGCAG
* *
1781993 TTATTTGATATGAAACTATATGATATGCA
1 TTATTTAATATCAAACTATA-GATATGCA
1782022 ATGCAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.54
28 4 0.17
30 7 0.29
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (29 bp):
TTATTTAATATCAAACTATAGATATGCAG
Found at i:1782685 original size:14 final size:14
Alignment explanation
Indices: 1782653--1782685 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1782643 TTGAAGATTT
*
1782653 ATAACATAAGAATC
1 ATAATATAAGAATC
1782667 ATAATATAAGAATC
1 ATAATATAAGAATC
1782681 ATAAT
1 ATAAT
1782686 TAATATAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.58, C:0.09, G:0.06, T:0.27
Consensus pattern (14 bp):
ATAATATAAGAATC
Found at i:1782848 original size:16 final size:16
Alignment explanation
Indices: 1782823--1782861 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1782813 ATCAATGGTA
*
1782823 ATATAT-AAGTTAGGT
1 ATATATCAAGTTAAGT
1782838 ATATATCAAGTTAAGT
1 ATATATCAAGTTAAGT
*
1782854 AAATATCA
1 ATATATCA
1782862 GATCAAGTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (16 bp):
ATATATCAAGTTAAGT
Found at i:1791582 original size:22 final size:22
Alignment explanation
Indices: 1791532--1791603 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
1791522 GGCATGTGAA
* *
1791532 ATATGTCCCGAAAGAGCTATCTAT
1 ATATGTCCCGAAGGA-CCA-CTAT
1791556 -T-TGTCCCGAAGGACCACTAT
1 ATATGTCCCGAAGGACCACTAT
* *
1791576 ATATGTCCCGAAGCACCACTGT
1 ATATGTCCCGAAGGACCACTAT
1791598 ATATGT
1 ATATGT
1791604 ATCGAGGGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
20 4 0.10
21 3 0.07
22 34 0.81
23 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (22 bp):
ATATGTCCCGAAGGACCACTAT
Found at i:1791656 original size:30 final size:30
Alignment explanation
Indices: 1791620--1791676 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1791610 GGTCCTCTAT
* *
1791620 CCATATGTTCCGAATAACATAGGTAACTGC
1 CCATATGTCCCGAAGAACATAGGTAACTGC
*
1791650 CCATATGTCCCGAAGGACATAGGTAAC
1 CCATATGTCCCGAAGAACATAGGTAAC
1791677 CCTCGACTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (30 bp):
CCATATGTCCCGAAGAACATAGGTAACTGC
Found at i:1792969 original size:65 final size:65
Alignment explanation
Indices: 1792900--1793023 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
1792890 CACCCTATGA
* ** * *
1792900 GGTATCGGTACCCTTACTGTATTCTGTTATTTTTTTCGTTCAAGAGGGCATCGATACCTAACTGG
1 GGTATCGGTACCCTCACTACATTCTGTAATTCTTTTCGTTCAAGAGGGCATCGATACCTAACTGG
* ** * *
1792965 GGTATCGGTACCCTCATTACATTCTGTAATTCTTTTCGTTTGAGAGGGTATCGGTACCT
1 GGTATCGGTACCCTCACTACATTCTGTAATTCTTTTCGTTCAAGAGGGCATCGATACCT
1793024 GTTGAATGGG
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
65 49 1.00
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (65 bp):
GGTATCGGTACCCTCACTACATTCTGTAATTCTTTTCGTTCAAGAGGGCATCGATACCTAACTGG
Found at i:1799035 original size:7 final size:7
Alignment explanation
Indices: 1799023--1799064 Score: 84
Period size: 7 Copynumber: 6.0 Consensus size: 7
1799013 GGTTTTTCCC
1799023 TTCTTCT
1 TTCTTCT
1799030 TTCTTCT
1 TTCTTCT
1799037 TTCTTCT
1 TTCTTCT
1799044 TTCTTCT
1 TTCTTCT
1799051 TTCTTCT
1 TTCTTCT
1799058 TTCTTCT
1 TTCTTCT
1799065 CTCCCTTCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (7 bp):
TTCTTCT
Found at i:1800759 original size:69 final size:67
Alignment explanation
Indices: 1800638--1800894 Score: 214
Period size: 69 Copynumber: 3.8 Consensus size: 67
1800628 GATAGCCTTG
* * * * *
1800638 AAGGATTACGGTGACTCAG-ACGGGAGAAACTAATCATATTTATTTCAAGTGACTCGTACAAGAG
1 AAGGATTACGGTGACTC-GCACGAGAGCACCTAATCATATTTATTCCGAGTGACTCG-AC-AGAG
1800702 CCCCA
63 CCCCA
* * * *
1800707 AAGGATTACGGTGACTCGCACTAGAGCACCTAATCATATTTATTCTGGGTGACTCGCACGGGAGC
1 AAGGATTACGGTGACTCGCACGAGAGCACCTAATCATATTTATTCCGAGTGACTCG-AC-AGAGC
*
1800772 TCCA
64 CCCA
** * ** * * *
1800776 AACTATTAGGGTGACTTACACG-GAAGTACCTAATTATATTTATTCCGAGTGACAC-ACAGATGC
1 AAGGATTACGGTGACTCGCACGAG-AGCACCTAATCATATTTATTCCGAGTGACTCGACAGA-GC
*
1800839 CCCG
64 CCCA
* * * * *
1800843 AAGGATCAGGGTAACTCGCACGAGAGCATCTAATCATATTTATTCCGGGTGA
1 AAGGATTACGGTGACTCGCACGAGAGCACCTAATCATATTTATTCCGAGTGA
1800895 ACAATTCCTA
Statistics
Matches: 148, Mismatches: 36, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
66 2 0.01
67 46 0.31
68 3 0.02
69 97 0.66
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (67 bp):
AAGGATTACGGTGACTCGCACGAGAGCACCTAATCATATTTATTCCGAGTGACTCGACAGAGCCC
CA
Found at i:1802023 original size:69 final size:67
Alignment explanation
Indices: 1801902--1802158 Score: 221
Period size: 69 Copynumber: 3.8 Consensus size: 67
1801892 GATAGCCTTG
* * * * * * **
1801902 AAGGATTACGGTGAATCAGACGGGAGAAACTAATCATATTTATTTCAAGTGACTCGTACAAGAGC
1 AAGGATTACGGTGACTCACACGAGAGCACCTAATCATATTTATTCCGGGTGACTCG-AC-AGAGC
1801967 CCCA
64 CCCA
* * *
1801971 AAGGATTACGGTGACTCACACTAGAGCACCTAATCATATTTATTCTGGGTGACTCGCACGGGAGC
1 AAGGATTACGGTGACTCACACGAGAGCACCTAATCATATTTATTCCGGGTGACTCG-AC-AGAGC
*
1802036 TCCA
64 CCCA
** * * * * *
1802040 AACTATTAGGGTGACTTACACG-GAAGTACCTAATTATATTTATTCCGGGTGACAC-ACAGATGC
1 AAGGATTACGGTGACTCACACGAG-AGCACCTAATCATATTTATTCCGGGTGACTCGACAGA-GC
*
1802103 CCCG
64 CCCA
* * * * *
1802107 AAGGATCAGGGTAACTCGCACGAGAGCATCTAATCATATTTATTCCGGGTGA
1 AAGGATTACGGTGACTCACACGAGAGCACCTAATCATATTTATTCCGGGTGA
1802159 ACAATTCCTA
Statistics
Matches: 150, Mismatches: 35, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
66 2 0.01
67 47 0.31
68 2 0.01
69 99 0.66
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (67 bp):
AAGGATTACGGTGACTCACACGAGAGCACCTAATCATATTTATTCCGGGTGACTCGACAGAGCCC
CA
Found at i:1805747 original size:21 final size:21
Alignment explanation
Indices: 1805717--1805762 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
1805707 TAGAGTGTCA
*
1805717 GTATTGATACTATATGAATTG
1 GTATTGATACTAGATGAATTG
*
1805738 GTATTTATACTAGATGAATTG
1 GTATTGATACTAGATGAATTG
1805759 GTAT
1 GTAT
1805763 CCATATAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.43
Consensus pattern (21 bp):
GTATTGATACTAGATGAATTG
Found at i:1807543 original size:139 final size:139
Alignment explanation
Indices: 1807293--1807543 Score: 450
Period size: 139 Copynumber: 1.8 Consensus size: 139
1807283 TAAAGTATTA
*
1807293 TGTTTTCATACTTAGAATAAACGCTTTAAAAGTTCAAAATGATTTCAATAAAAAAATTGTTTTTC
1 TGTTTTCATACTTAGAATAAACGCTTTAAAAGTTCAAAATGATTTCAATAAAAAAATTGTTGTTC
*
1807358 ACTTTATTAATTCCATGTGACACTCGAATCTTCGTGATTTAAGTGTATAAAGTCAACTAATCCAT
66 ACTTTATTAATTCCATGTGACACTCGAATCTTCGGGATTTAAGTGTATAAAGTCAACTAATCCAT
1807423 GTTATTCTC
131 GTTATTCTC
*
1807432 TGTTTTCATACTTAGAATAAACGCTTTAAAAGTTCAAAATGATTTCAATAAAAAATTTGTTAGTT
1 TGTTTTCATACTTAGAATAAACGCTTTAAAAGTTCAAAATGATTTCAATAAAAAAATTGTT-GTT
*
1807497 -ACTTTATTAATTCCGTGTGACACTCGAATCTTCGGGATTTAAGTGTA
65 CACTTTATTAATTCCATGTGACACTCGAATCTTCGGGATTTAAGTGTA
1807544 CATAGTAATA
Statistics
Matches: 107, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
139 105 0.98
140 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.39
Consensus pattern (139 bp):
TGTTTTCATACTTAGAATAAACGCTTTAAAAGTTCAAAATGATTTCAATAAAAAAATTGTTGTTC
ACTTTATTAATTCCATGTGACACTCGAATCTTCGGGATTTAAGTGTATAAAGTCAACTAATCCAT
GTTATTCTC
Found at i:1808548 original size:28 final size:29
Alignment explanation
Indices: 1808495--1808562 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 29
1808485 AAACAAATTT
* *
1808495 TTATTTATAAATTAATATCTAGATTTAATA
1 TTATTTA-AAATTAACATCTAAATTTAATA
* * *
1808525 TT-TTTAAAATTAACATTTAAATTTTATT
1 TTATTTAAAATTAACATCTAAATTTAATA
1808553 TTATTTAAAA
1 TTATTTAAAA
1808563 CTAATATATG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 19 0.59
29 11 0.34
30 2 0.06
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (29 bp):
TTATTTAAAATTAACATCTAAATTTAATA
Found at i:1808962 original size:22 final size:22
Alignment explanation
Indices: 1808937--1808979 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1808927 TGCATTAATA
1808937 TTCTTATAATATCAAAAAAATG
1 TTCTTATAATATCAAAAAAATG
*
1808959 TTCTTATAATATCACAAAAAT
1 TTCTTATAATATCAAAAAAAT
1808980 TATGACATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
TTCTTATAATATCAAAAAAATG
Found at i:1809049 original size:29 final size:28
Alignment explanation
Indices: 1809008--1809068 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
1808998 TAATTACTTA
*
1809008 ATTTTTTATCAAAATCA-GTACCTAAATT
1 ATTTTTTATCAAAAT-AGGTACCTAAAGT
*
1809036 ATTTTTTAATCAAAATAGGTACTTAAAGT
1 ATTTTTT-ATCAAAATAGGTACCTAAAGT
1809065 ATTT
1 ATTT
1809069 AATCTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.44
Consensus pattern (28 bp):
ATTTTTTATCAAAATAGGTACCTAAAGT
Found at i:1809198 original size:30 final size:29
Alignment explanation
Indices: 1809149--1809236 Score: 83
Period size: 30 Copynumber: 3.0 Consensus size: 29
1809139 AGAAAAAATG
*
1809149 AATACTTTAAGTACCTATTTTAATCAAAAA
1 AATAATTTAAGTA-CTATTTTAATCAAAAA
* *
1809179 AATATTTTAGGTATCTATTTTGAA--AAAAA
1 AATAATTTAAGTA-CTATTTT-AATCAAAAA
*
1809208 AA-AATTTAAATACTTATTTTAATCAAAAA
1 AATAATTTAAGTAC-TATTTTAATCAAAAA
1809237 CATTTGAAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
27 3 0.06
28 13 0.27
29 12 0.25
30 18 0.38
31 2 0.04
ACGTcount: A:0.49, C:0.08, G:0.05, T:0.39
Consensus pattern (29 bp):
AATAATTTAAGTACTATTTTAATCAAAAA
Found at i:1811069 original size:3 final size:3
Alignment explanation
Indices: 1811061--1811094 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1811051 ATATTAGTTG
1811061 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1811095 GTTAATGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1812327 original size:26 final size:27
Alignment explanation
Indices: 1812268--1812327 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
1812258 TCCATAAATT
* * **
1812268 TTATTTAAAAAATAAAAAATATTGAGT
1 TTATTTTAAAAATAAAAAATATTAAAC
*
1812295 TTGTTTTAAAAAT-AAAAATATTAAAC
1 TTATTTTAAAAATAAAAAATATTAAAC
1812321 TTATTTT
1 TTATTTT
1812328 GATTTTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (27 bp):
TTATTTTAAAAATAAAAAATATTAAAC
Found at i:1812656 original size:44 final size:45
Alignment explanation
Indices: 1812593--1812685 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 45
1812583 GTGTAACTGT
*
1812593 ACAAATTCCTGTTAACTAACACGTCACT-CTTTGTTAGATTTTTA
1 ACAAATTCCTGTTAACTAACACGTCACTCCTTTGTTAGATTTGTA
1812637 ACAAATTCCTGTTAACTAACACGTCACTCCTTTGTTAGATTTGTA
1 ACAAATTCCTGTTAACTAACACGTCACTCCTTTGTTAGATTTGTA
1812682 ACAA
1 ACAA
1812686 CAGGTGGCTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
44 28 0.60
45 19 0.40
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.38
Consensus pattern (45 bp):
ACAAATTCCTGTTAACTAACACGTCACTCCTTTGTTAGATTTGTA
Found at i:1828244 original size:40 final size:42
Alignment explanation
Indices: 1828198--1828336 Score: 133
Period size: 42 Copynumber: 3.4 Consensus size: 42
1828188 TCATCATCAT
* **
1828198 CTCATATTTCATCTA-A-GTCAATGTCTTTCATCACCACCAA
1 CTCATATTCCATCTACACGTCAATCACTTTCATCACCACCAA
* *
1828238 CTCATATTCCATCTACACTTCAATCACTTTCATCACCA-TAA
1 CTCATATTCCATCTACACGTCAATCACTTTCATCACCACCAA
* * ** * *
1828279 TCTCATACTCCATCTCCAATTCAATCACTTTCATCATCACAAA
1 -CTCATATTCCATCTACACGTCAATCACTTTCATCACCACCAA
*
1828322 CTCATAATCC-TCTAC
1 CTCATATTCCATCTAC
1828337 TGCAATCACT
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
40 14 0.17
41 7 0.08
42 60 0.72
43 2 0.02
ACGTcount: A:0.31, C:0.34, G:0.01, T:0.34
Consensus pattern (42 bp):
CTCATATTCCATCTACACGTCAATCACTTTCATCACCACCAA
Found at i:1828272 original size:42 final size:42
Alignment explanation
Indices: 1828222--1828336 Score: 151
Period size: 42 Copynumber: 2.8 Consensus size: 42
1828212 AAGTCAATGT
* * *
1828222 CTTTCATCACCACCAACTCATATTCCATCTACACTTCAATCA
1 CTTTCATCACCACAAACTCATAATCCATCTACAATTCAATCA
* * * *
1828264 CTTTCATCACCATAATCTCATACTCCATCTCCAATTCAATCA
1 CTTTCATCACCACAAACTCATAATCCATCTACAATTCAATCA
*
1828306 CTTTCATCATCACAAACTCATAATCC-TCTAC
1 CTTTCATCACCACAAACTCATAATCCATCTAC
1828337 TGCAATCACT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
41 4 0.06
42 58 0.94
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.32
Consensus pattern (42 bp):
CTTTCATCACCACAAACTCATAATCCATCTACAATTCAATCA
Found at i:1828383 original size:81 final size:83
Alignment explanation
Indices: 1828222--1828384 Score: 197
Period size: 81 Copynumber: 2.0 Consensus size: 83
1828212 AAGTCAATGT
* * * * *
1828222 CTTTCATCACCACCAACTCATATTCCATCTACACTTCAATCACTTTCATCACCATAATCTCATAC
1 CTTTCATCACCACAAACTCATAATCCATCTA-ACTGCAATCACTTTCATCACAATAATCTCATAA
1828287 TCCATCTCCAATTCAATCA
65 TCCATCTCCAATTCAATCA
* * *
1828306 CTTTCATCATCACAAACTCATAATCC-TCT-ACTGCAATCAC-TTCAATCACAATTATCTTATAA
1 CTTTCATCACCACAAACTCATAATCCATCTAACTGCAATCACTTTC-ATCACAATAATCTCATAA
* *
1828368 TCCATCTTCACTTCAAT
65 TCCATCTCCAATTCAAT
1828385 TACCACCGTC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.04
81 39 0.57
83 3 0.04
84 23 0.34
ACGTcount: A:0.32, C:0.34, G:0.01, T:0.34
Consensus pattern (83 bp):
CTTTCATCACCACAAACTCATAATCCATCTAACTGCAATCACTTTCATCACAATAATCTCATAAT
CCATCTCCAATTCAATCA
Found at i:1828487 original size:33 final size:33
Alignment explanation
Indices: 1828343--1828487 Score: 173
Period size: 33 Copynumber: 4.4 Consensus size: 33
1828333 CTACTGCAAT
* ** * * *
1828343 CACTTCAATCACAATTATCTTATAATCCATCTT
1 CACTTCAATCACTACCATCTCATATTCCATCTC
* * *
1828376 CACTTCAATTACCACCGTCTCATATTCCATCTC
1 CACTTCAATCACTACCATCTCATATTCCATCTC
*
1828409 CACTTCAATCACTACCATCTCATATTACATCTC
1 CACTTCAATCACTACCATCTCATATTCCATCTC
* *
1828442 CACTTCAATCACTACCATCTCAAACTCCATCTC
1 CACTTCAATCACTACCATCTCATATTCCATCTC
*
1828475 CACTTCAGTCACT
1 CACTTCAATCACT
1828488 TCAATCCCCC
Statistics
Matches: 96, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 96 1.00
ACGTcount: A:0.29, C:0.37, G:0.01, T:0.33
Consensus pattern (33 bp):
CACTTCAATCACTACCATCTCATATTCCATCTC
Found at i:1829275 original size:15 final size:15
Alignment explanation
Indices: 1829255--1829283 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1829245 TATAAAGGTC
1829255 ATGTTGATGATATAT
1 ATGTTGATGATATAT
1829270 ATGTTGATGATATA
1 ATGTTGATGATATA
1829284 GTAATCACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (15 bp):
ATGTTGATGATATAT
Found at i:1832724 original size:12 final size:12
Alignment explanation
Indices: 1832707--1832747 Score: 82
Period size: 12 Copynumber: 3.4 Consensus size: 12
1832697 ATGTTTGGAT
1832707 GAGAGAGAAGGA
1 GAGAGAGAAGGA
1832719 GAGAGAGAAGGA
1 GAGAGAGAAGGA
1832731 GAGAGAGAAGGA
1 GAGAGAGAAGGA
1832743 GAGAG
1 GAGAG
1832748 GTAAAGGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
GAGAGAGAAGGA
Found at i:1834150 original size:136 final size:138
Alignment explanation
Indices: 1833847--1834509 Score: 722
Period size: 137 Copynumber: 4.8 Consensus size: 138
1833837 AAGTTAAACT
* * * * ** * *
1833847 TAAAATGTAGGCTCTAATTATTAGTCCTAATCGATTTTAATAAATTATGGAATCGAATAATTAAA
1 TAAAATGGAGGCTCTAA-TATTAATCCTAACCAATTTTAACCAATTATTGAATCGAATAACTAAA
** * ** *
1833912 ATGGAACCTCAACCATAAATACGAGGACCAAA-TAAAAATTCTCC-AAATTTTAGGGACTAAATT
65 ATGGAACCTCAGGCA-AAAT-CGAGGACCAAATTAGAAATTCTCCTAAATTAAAGGGACTAAAGT
1833975 AAAATTAAGCC
128 AAAATTAAGCC
* * ** * *
1833986 TAAAATGGAGGCTCTAATATTAATCTTAACTAA-TTTAAAAAATTATGGAATCGAATGACTAAAA
1 TAAAATGGAGGCTCTAATATTAATCCTAACCAATTTTAACCAATTATTGAATCGAATAACTAAAA
1834050 TGGAACCTCAGGCAAAATC-ATGGACCAAATTAGAAATTCTCCTAAATTAAAGGGA-TAAAGTAA
66 TGGAACCTCAGGCAAAATCGA-GGACCAAATTAGAAATTCTCCTAAATTAAAGGGACTAAAGTAA
1834113 AATTAAGCC
130 AATTAAGCC
*
1834122 TAAAATGGAGGCTTTAATATTAA-CCTTAACCAATTTTAACCAATTATTGAATCGAATAACTAAA
1 TAAAATGGAGGCTCTAATATTAATCC-TAACCAATTTTAACCAATTATTGAATCGAATAACTAAA
* ** * * * * *
1834186 ATGGGATTTC-GGCAAAACCAAGGACCAAATTAGAAATTCT-ATAAAATTAAAGGG-CTAATGTG
65 ATGGAACCTCAGGCAAAATCGAGGACCAAATTAGAAATTCTCCT-AAATTAAAGGGACTAAAGTA
***
1834248 AAATTAAATA
129 AAATTAAGCC
* * * *
1834258 TAAAATGGAGCCTCTAATATTAATCCTAACCAATTTTAACCCACTATTGAATCAAATAACTAAAA
1 TAAAATGGAGGCTCTAATATTAATCCTAACCAATTTTAACCAATTATTGAATCGAATAACTAAAA
* * * * *
1834323 TAGAACCTCTA-GCAAAAGCGAGGACCAAATTAGAAATTCTCCTCAATTAAA-GGATTAAAGTGA
66 TGGAACCTC-AGGCAAAATCGAGGACCAAATTAGAAATTCTCCTAAATTAAAGGGACTAAAGTAA
1834386 AATTAAGCC
130 AATTAAGCC
* *
1834395 TAAAATGGAGGCTCTAATATTAATCCTAACTAATTTTAACCAATTATTGAATCGATTAACTAAAA
1 TAAAATGGAGGCTCTAATATTAATCCTAACCAATTTTAACCAATTATTGAATCGAATAACTAAAA
** * * * *
1834460 TGGAACCTCAATCAAAAGT-GAAGACCATATTAGAAGTTATCCT-AATTAAA
66 TGGAACCTCAGGCAAAA-TCGAGGACCAAATTAGAAATTCTCCTAAATTAAA
1834510 AAGTTGAGGG
Statistics
Matches: 446, Mismatches: 63, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
134 1 0.00
135 11 0.02
136 181 0.41
137 225 0.50
138 12 0.03
139 16 0.04
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (138 bp):
TAAAATGGAGGCTCTAATATTAATCCTAACCAATTTTAACCAATTATTGAATCGAATAACTAAAA
TGGAACCTCAGGCAAAATCGAGGACCAAATTAGAAATTCTCCTAAATTAAAGGGACTAAAGTAAA
ATTAAGCC
Found at i:1835421 original size:21 final size:21
Alignment explanation
Indices: 1835392--1835444 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1835382 ATTCTGACTA
1835392 TCGCATTGCGATTTCCCTAAT
1 TCGCATTGCGATTTCCCTAAT
* *
1835413 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCTAAT
*
1835434 TCGCAATGCGA
1 TCGCATTGCGA
1835445 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCTAAT
Found at i:1835459 original size:20 final size:20
Alignment explanation
Indices: 1835434--1835580 Score: 172
Period size: 20 Copynumber: 7.3 Consensus size: 20
1835424 TTTTCCTAAT
1835434 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* ** *
1835454 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
1835475 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1835495 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1835515 TTGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1835535 TTGCAATCCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
1835555 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
1835575 TCGCAA
1 TCGCAA
1835581 CGAGATTCTG
Statistics
Matches: 109, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
19 1 0.01
20 93 0.85
21 15 0.14
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1835590 original size:20 final size:20
Alignment explanation
Indices: 1835544--1835590 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1835534 ATTGCAATCC
* *
1835544 GAATCTGTAAATCGCAATGC
1 GAATCTGTAAATCGCAACGA
1835564 GAATCTGTAAATCGCAACGA
1 GAATCTGTAAATCGCAACGA
*
1835584 GATTCTG
1 GAATCTG
1835591 ACTATCGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (20 bp):
GAATCTGTAAATCGCAACGA
Found at i:1835601 original size:60 final size:59
Alignment explanation
Indices: 1835434--1835601 Score: 173
Period size: 60 Copynumber: 2.8 Consensus size: 59
1835424 TTTTCCTAAT
* *
1835434 TCGCAATGCGAATACGTAAATCGCAACGCGAATT-TGGAAAATCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCG-ATTCT-G-AAATCGCAATCCGAATACGTAAA
* * *
1835495 TCGCAATGCGAATACGTAAATTGCAATGCGATTAC-GTAAATTGCAATCCGAAT-CTGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACGCGATT-CTG-AAATCGCAATCCGAATAC-GTAAA
* *
1835555 TCGCAATGCGAAT-CTGTAAATCGCAACGAGATTCTGACTATCGCAAT
1 TCGCAATGCGAATAC-GTAAATCGCAACGCGATTCTGA-AATCGCAAT
1835602 ACTGAATTTC
Statistics
Matches: 90, Mismatches: 11, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
59 4 0.04
60 58 0.64
61 28 0.31
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (59 bp):
TCGCAATGCGAATACGTAAATCGCAACGCGATTCTGAAATCGCAATCCGAATACGTAAA
Found at i:1836486 original size:24 final size:24
Alignment explanation
Indices: 1836436--1836488 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1836426 AGTTTCGAAA
*
1836436 TTGATCTTGGTCAATACCCGGACT
1 TTGATCTTGGTCAATACCCAGACT
* *
1836460 TTGATCTTGGTCAATACTCAGATT
1 TTGATCTTGGTCAATACCCAGACT
1836484 TTGAT
1 TTGAT
1836489 GATTTTCAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.40
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCAGACT
Found at i:1838918 original size:20 final size:20
Alignment explanation
Indices: 1838872--1838987 Score: 160
Period size: 20 Copynumber: 5.7 Consensus size: 20
1838862 GACATTCATT
1838872 TGACTATCGCAACGCGCGAATA
1 TGACTATCGCAACGCG-GAA-A
*
1838894 TGACTATCGCAACACGGAAA
1 TGACTATCGCAACGCGGAAA
* *
1838914 TGACTATCGCAATGCGGAAT
1 TGACTATCGCAACGCGGAAA
*
1838934 TGACTATCGCAACGTGGAAA
1 TGACTATCGCAACGCGGAAA
* *
1838954 TGACTATCACAACACGGAAA
1 TGACTATCGCAACGCGGAAA
1838974 TGACTATCGCAACG
1 TGACTATCGCAACG
1838988 AGAGAATCGC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
20 64 0.78
21 3 0.04
22 15 0.18
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:1838968 original size:60 final size:62
Alignment explanation
Indices: 1838871--1838985 Score: 198
Period size: 60 Copynumber: 1.9 Consensus size: 62
1838861 AGACATTCAT
*
1838871 TTGACTATCGCAACGCGCGAATATGACTATCGCAACACGGAAATGACTATCGCAATGCGGAA
1 TTGACTATCGCAACGCGCGAATATGACTATCACAACACGGAAATGACTATCGCAATGCGGAA
*
1838933 TTGACTATCGCAACGTG-GAA-ATGACTATCACAACACGGAAATGACTATCGCAA
1 TTGACTATCGCAACGCGCGAATATGACTATCACAACACGGAAATGACTATCGCAA
1838986 CGAGAGAATC
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
60 32 0.63
61 3 0.06
62 16 0.31
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (62 bp):
TTGACTATCGCAACGCGCGAATATGACTATCACAACACGGAAATGACTATCGCAATGCGGAA
Found at i:1839090 original size:34 final size:34
Alignment explanation
Indices: 1839050--1839146 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 34
1839040 TTCGCGCGAT
1839050 TCGTTGCGATTTTCATTTTCGCATTGCGATTCAC
1 TCGTTGCGATTTTCATTTTCGCATTGCGATTCAC
*
1839084 TCGTTGCGATTTTCA-TTTCGCATTGCGATTCTC
1 TCGTTGCGATTTTCATTTTCGCATTGCGATTCAC
** * *
1839117 TCGTTGCGATAGTCATTTCCGCGTTGCGAT
1 TCGTTGCGATTTTCATTTTCGCATTGCGAT
1839147 AGTCTGTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.53
34 27 0.47
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (34 bp):
TCGTTGCGATTTTCATTTTCGCATTGCGATTCAC
Found at i:1839267 original size:14 final size:14
Alignment explanation
Indices: 1839248--1839281 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1839238 CATCAATTAA
1839248 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1839262 ACAAATCATCTTTT
1 ACAAATCAACATTT
1839276 ACAAAT
1 ACAAAT
1839282 TAATTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1840673 original size:42 final size:42
Alignment explanation
Indices: 1840594--1840686 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
1840584 CCTCTTCAAC
* * *
1840594 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1840636 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1840678 GATGACAGG
1 GATGACAGG
1840687 TGAGTCGAGC
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1841187 original size:20 final size:20
Alignment explanation
Indices: 1841164--1841212 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1841154 GAAACTTAAA
1841164 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
1841184 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1841204 ATCGCAACG
1 ATCGCAACG
1841213 AGAGAATCGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1841304 original size:54 final size:54
Alignment explanation
Indices: 1841236--1841338 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
1841226 ACGATTTTCA
* * *
1841236 TTTCGCATTGCGATTCTTTCGTTGTGATAGTCAAATTCGCATTGCGATAGTCAT
1 TTTCGCATTACGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
**
1841290 TTTCGCATTACGATTCTCTCGTTGCGATAGTCATTTTCGCATTGCGATA
1 TTTCGCATTACGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATA
1841339 ATAAACTATT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.41
Consensus pattern (54 bp):
TTTCGCATTACGATTCTCTCGTTGCGATAGTCAAATTCGCATTGCGATAGTCAT
Found at i:1841336 original size:20 final size:20
Alignment explanation
Indices: 1841261--1841338 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
1841251 CTTTCGTTGT
**
1841261 GATAGTCAAATTCGCATTGC
1 GATAGTCATTTTCGCATTGC
*
1841281 GATAGTCATTTTCGCATTAC
1 GATAGTCATTTTCGCATTGC
*
1841301 GAT--TC--TCTCG--TTGC
1 GATAGTCATTTTCGCATTGC
1841315 GATAGTCATTTTCGCATTGC
1 GATAGTCATTTTCGCATTGC
1841335 GATA
1 GATA
1841339 ATAAACTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 12
0.72 0.09 0.19
Matches are distributed among these distances:
14 6 0.13
16 6 0.13
18 6 0.13
20 28 0.61
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (20 bp):
GATAGTCATTTTCGCATTGC
Found at i:1843239 original size:20 final size:20
Alignment explanation
Indices: 1843216--1843255 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1843206 CTGAAACTTT
1843216 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
*
1843236 AAATTGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
1843256 CTATTGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.12
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:1843261 original size:20 final size:20
Alignment explanation
Indices: 1843221--1843285 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
1843211 ACTTTAAATC
**
1843221 GCAACACGAAAATGAAAATT
1 GCAACACGAAAATGACTATT
1843241 GCAACACGAAAATGACTATT
1 GCAACACGAAAATGACTATT
* ** *
1843261 GCAACGCGAATTTGACTATC
1 GCAACACGAAAATGACTATT
1843281 GCAAC
1 GCAAC
1843286 GCAAGAATCG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.18
Consensus pattern (20 bp):
GCAACACGAAAATGACTATT
Found at i:1843356 original size:20 final size:20
Alignment explanation
Indices: 1843331--1843377 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1843321 GATTCTCTCG
1843331 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
1843351 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
1843371 TTGCGAT
1 TTGCGAT
1843378 TCACTCATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1843769 original size:22 final size:22
Alignment explanation
Indices: 1843708--1843769 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
1843698 TGACCGTGAA
* *
1843708 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
1843730 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
1843748 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
1843770 AGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:1843993 original size:20 final size:20
Alignment explanation
Indices: 1843966--1844079 Score: 147
Period size: 20 Copynumber: 5.7 Consensus size: 20
1843956 CGATAGTCAG
1843966 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1843986 ATTTGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
*
1844006 ATTCGTATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * * **
1844026 AATCACATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
*
1844047 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
1844067 ATTCGCATTGCGA
1 ATTCGCATTGCGA
1844080 ATTAGGAAAA
Statistics
Matches: 77, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
20 63 0.82
21 14 0.18
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:1844100 original size:21 final size:21
Alignment explanation
Indices: 1844076--1844121 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1844066 TATTCGCATT
1844076 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
1844097 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
1844118 GCGA
1 GCGA
1844122 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:1850083 original size:81 final size:81
Alignment explanation
Indices: 1850010--1850495 Score: 724
Period size: 81 Copynumber: 6.0 Consensus size: 81
1850000 CACAGCTAAT
*
1850010 CCATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTTTGC
1 CCATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
1850075 CAATTGCACAGTTAGG
66 CAATTGCACAGTTAGG
* * * * *
1850091 TCATTATTCTTTTACTCAACAGTAATTAACCGTTCATCTAACTGACATAATTGAAACCTTTCTTC
1 CCATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
*
1850156 CAATTGCATAGTTAGG
66 CAATTGCACAGTTAGG
* * * *
1850172 CCATTATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTGGCATAATTTACACATTTCTGC
1 CCATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
1850237 CAATTGCACAGTTAGG
66 CAATTGCACAGTTAGG
* * * *
1850253 CCATTTTTCTTTTAC-CGAACTGTATTTAACCGTTCATCTAACTGGCATAATTGAAACCTTTCTA
1 CCATTATTCTTTTACTC-AACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTG
* *
1850317 CCAATTACATAGTTAGG
65 CCAATTGCACAGTTAGG
* * *
1850334 TCATTATTCTTTTACTCAAC-GACATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTA
1 CCATTATTCTTTTACTCAACAG-TATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTG
*
1850398 CCAATTGCATAGTTAGG
65 CCAATTGCACAGTTAGG
* *
1850415 CCATTATTATTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
1 CCATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
*
1850480 CAATTGCACAATTAGG
66 CAATTGCACAGTTAGG
1850496 TCTCAAAGGC
Statistics
Matches: 364, Mismatches: 37, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.01
81 360 0.99
82 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (81 bp):
CCATTATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGC
CAATTGCACAGTTAGG
Found at i:1850538 original size:68 final size:68
Alignment explanation
Indices: 1850447--1850632 Score: 293
Period size: 68 Copynumber: 2.7 Consensus size: 68
1850437 TATTTAACCG
* * * *
1850447 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAATTAGGTC-TCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGG-CATCAAAGGCACTTA
*
1850511 TCCT
65 GCCT
*
1850515 TTCATCTAACTGGCATAAATGACACATTTCTGTCATTTGCACAGTTAGGCATCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCATCAAAGGCACTTAG
1850580 CCT
66 CCT
*
1850583 TTCATCTAACTGGCATAAGTGACACCTTTCTGTCATTTGCACAGTTAGGC
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGC
1850633 CTATAATCGT
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
67 1 0.01
68 108 0.99
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCATCAAAGGCACTTAG
CCT
Found at i:1850973 original size:55 final size:55
Alignment explanation
Indices: 1850853--1851003 Score: 196
Period size: 55 Copynumber: 2.7 Consensus size: 55
1850843 TACCTTACGA
* * * * ** *
1850853 AAATTCATACACTTCGTATGAATTTCTCA-GTTCGCACCCATGGTGCCCATACTG
1 AAATTCATACACTTAGTATGAATTTCTCATTTTTGCACACAAAGTGCCCATACAG
*
1850907 AAATTTATACACTTAGTATGAATTTCTCATTTTTGCACACAAAGTGCCCATACAG
1 AAATTCATACACTTAGTATGAATTTCTCATTTTTGCACACAAAGTGCCCATACAG
*
1850962 AAATTCATACACTTAGTATGAATTTCTTAAATTTTTGCACAC
1 AAATTCATACACTTAGTATGAATTTC-T-CATTTTTGCACAC
1851004 CTAGTGCCAT
Statistics
Matches: 84, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
54 27 0.32
55 44 0.52
56 1 0.01
57 12 0.14
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (55 bp):
AAATTCATACACTTAGTATGAATTTCTCATTTTTGCACACAAAGTGCCCATACAG
Found at i:1851507 original size:95 final size:95
Alignment explanation
Indices: 1851333--1851558 Score: 265
Period size: 95 Copynumber: 2.4 Consensus size: 95
1851323 TATGGCTTTA
* * * * * * * *
1851333 TAGTATCGATACTATCACCCTAGTACCGATACTTCTATACTATGATATCGATACCGCCTTCTGGT
1 TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGATATCGATACCCCCTTCTGGT
** *
1851398 ATCAATACTGATTTTAGGTTCGATGTTGCC
66 ATCAATACCAATTTTAGATTCGATGTTGCC
1851428 TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGATATCGATACCCCCTTAC-GG
1 TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGATATCGATACCCCCTT-CTGG
* * * *
1851492 TATCAATACCAATTTTTGATTTGTTGTTGCT
65 TATCAATACCAATTTTAGATTCGATGTTGCC
* * * *
1851523 TGGTATTGATACCCTTATCATGGTATCGATACTACC
1 TAGTATCGATACTCTTACCATGGTATCGATACTACC
1851559 TCTTCGTATT
Statistics
Matches: 111, Mismatches: 19, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 110 0.99
96 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (95 bp):
TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGATATCGATACCCCCTTCTGGT
ATCAATACCAATTTTAGATTCGATGTTGCC
Found at i:1855349 original size:65 final size:64
Alignment explanation
Indices: 1855237--1855372 Score: 202
Period size: 65 Copynumber: 2.1 Consensus size: 64
1855227 ACACTAATTA
* * *
1855237 CATTCGATGTTTCAAAGAGCCAGGAGTGCATCGATGCATGGTCTGTGCATCGGTACTCAAAATG
1 CATTCGATGTTTCAAACAGCCAAGAGTGCATCGATGCATGGTCTGTGCATCGGTACACAAAATG
**
1855301 CATTCGATGTTTCAAAACATTCAAGAGTGCATCGATGCATGG-CTTGTGCATCGGTACACAAAAT
1 CATTCGATGTTTC-AAACAGCCAAGAGTGCATCGATGCATGGTC-TGTGCATCGGTACACAAAAT
1855365 G
64 G
1855366 CATTCGA
1 CATTCGA
1855373 AATGGATGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
64 14 0.22
65 51 0.78
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (64 bp):
CATTCGATGTTTCAAACAGCCAAGAGTGCATCGATGCATGGTCTGTGCATCGGTACACAAAATG
Found at i:1856081 original size:19 final size:19
Alignment explanation
Indices: 1856057--1856105 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1856047 TTAAACGTCC
*
1856057 AACATCCATAACAAATTCA
1 AACATCCAAAACAAATTCA
*
1856076 AACATCCAAAACAAATTTA
1 AACATCCAAAACAAATTCA
1856095 AACATCCAAAA
1 AACATCCAAAA
1856106 ACATCAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.24, G:0.00, T:0.18
Consensus pattern (19 bp):
AACATCCAAAACAAATTCA
Found at i:1858126 original size:21 final size:21
Alignment explanation
Indices: 1858043--1858186 Score: 89
Period size: 23 Copynumber: 6.7 Consensus size: 21
1858033 AAACCCGATG
**
1858043 GGTGTATCGATGCA-A-AGAA
1 GGTGTATCGATGCACATTCAA
1858062 GAGTGTATCGATGCACATTCAA
1 G-GTGTATCGATGCACATTCAA
* * * *
1858084 GGAATGCATCGGTGCACCTTCAT
1 GG--TGTATCGATGCACATTCAA
*
1858107 GGTGTATCGATTCACATTCAA
1 GGTGTATCGATGCACATTCAA
* *
1858128 GGGATGCATCGATGCACTTTCAA
1 -GG-TGTATCGATGCACATTCAA
* *
1858151 GGGATGCATCGATGCAC-TGTCTA
1 -GG-TGTATCGATGCACAT-TCAA
1858174 -GTGTATCGATGCA
1 GGTGTATCGATGCA
1858187 TAGGGCACAA
Statistics
Matches: 101, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.01
20 24 0.24
21 17 0.17
22 6 0.06
23 53 0.52
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (21 bp):
GGTGTATCGATGCACATTCAA
Found at i:1858127 original size:44 final size:44
Alignment explanation
Indices: 1858064--1858167 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 44
1858054 GCAAAGAAGA
*
1858064 GTGTATCGATGCACATTCAAGGAATGCATCGGTGCACCTTCATG
1 GTGTATCGATGCACATTCAAGGAATGCATCGATGCACCTTCATG
* * * *
1858108 GTGTATCGATTCACATTCAAGGGATGCATCGATGCACTTTCAAGG
1 GTGTATCGATGCACATTCAAGGAATGCATCGATGCACCTTC-ATG
*
1858153 GATGCATCGATGCAC
1 G-TGTATCGATGCAC
1858168 TGTCTAGTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 37 0.73
45 3 0.06
46 11 0.22
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (44 bp):
GTGTATCGATGCACATTCAAGGAATGCATCGATGCACCTTCATG
Found at i:1858168 original size:23 final size:23
Alignment explanation
Indices: 1858068--1858167 Score: 123
Period size: 23 Copynumber: 4.4 Consensus size: 23
1858058 AGAAGAGTGT
*
1858068 ATCGATGCACATTCAAGGAATGC
1 ATCGATGCACATTCAAGGGATGC
* * * *
1858091 ATCGGTGCACCTTC-ATGG-TGT
1 ATCGATGCACATTCAAGGGATGC
*
1858112 ATCGATTCACATTCAAGGGATGC
1 ATCGATGCACATTCAAGGGATGC
*
1858135 ATCGATGCACTTTCAAGGGATGC
1 ATCGATGCACATTCAAGGGATGC
1858158 ATCGATGCAC
1 ATCGATGCAC
1858168 TGTCTAGTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
21 13 0.21
22 5 0.08
23 45 0.71
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (23 bp):
ATCGATGCACATTCAAGGGATGC
Found at i:1862395 original size:2 final size:2
Alignment explanation
Indices: 1862388--1862430 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1862378 TTTTGAACAT
1862388 TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
1862430 T
1 T
1862431 CATCCCTTCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1862979 original size:244 final size:243
Alignment explanation
Indices: 1862517--1863049 Score: 771
Period size: 244 Copynumber: 2.2 Consensus size: 243
1862507 GCTTTTCACT
* * * * * ** *
1862517 TAACTTGCATATTTGACA-CTTTCCTGTCAAATGCACAGTTAATCCATTATGCTTTTACTCAACA
1 TAACTGGCATAATTGACACCTTT-CTGCCAATTACACAGTTAGGCCTTTATGCTTTTACTCAACA
* * * * *
1862581 GTATTTAACTGTTCATCTAACTGGCATAATTGACACATTTCTTCTAGTTGCACAGTTAGGCCAAT
65 GTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAAGCCAAT
* * *
1862646 ATTCTTTTACTCAACGGTATTTAACCGTTAATCTAACTAGCATAATTGACACCTTTTTGCCAATT
130 ATTCTTTTACTCAACGGTATTTAACCGTTAATCTAACTAGCATAATTGACACATTTCTGACAATT
* *
1862711 GCACAATTAGGCCATTATTCTTTTACTCAACGGTGTTTAACCGTTCATC
195 GCACAATTAGACCATTATTCTTTTACTCAACGGTATTTAACCGTTCATC
* * *
1862760 TAACTGGCATAATTGACACCTTTTTTGCCAATTACACAGTTAGGCCTTTATTCTTTTACTCAACG
1 TAACTGGCATAATTGACACC-TTTCTGCCAATTACACAGTTAGGCCTTTATGCTTTTACTCAACA
* * *
1862825 GTATTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCCCAGTTAAGCCATT
65 GTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAAGCCAAT
* *
1862890 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGACAATT
130 ATTCTTTTACTCAACGGTATTTAACCGTTAATCTAACTAGCATAATTGACACATTTCTGACAATT
* * *
1862955 GCACAGTTAGACTATTATTCTTTTACTCAACGGTATTTAATCGTTCATC
195 GCACAATTAGACCATTATTCTTTTACTCAACGGTATTTAACCGTTCATC
*
1863004 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCT
1 TAACTGGCATAATTGACACCTTTCTGCCAATTACACAGTTAGGCCT
1863050 CAAAGGCAAT
Statistics
Matches: 257, Mismatches: 31, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
243 40 0.16
244 214 0.83
245 3 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (243 bp):
TAACTGGCATAATTGACACCTTTCTGCCAATTACACAGTTAGGCCTTTATGCTTTTACTCAACAG
TATTTAACCGTTCATCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAAGCCAATA
TTCTTTTACTCAACGGTATTTAACCGTTAATCTAACTAGCATAATTGACACATTTCTGACAATTG
CACAATTAGACCATTATTCTTTTACTCAACGGTATTTAACCGTTCATC
Found at i:1863045 original size:81 final size:81
Alignment explanation
Indices: 1862517--1863045 Score: 749
Period size: 81 Copynumber: 6.5 Consensus size: 81
1862507 GCTTTTCACT
* * * * *
1862517 TAACTTGCATATTTGACA-CTTTCCTGTCAAATGCACAGTTA-ATCCATTATGCTTTTACTCAAC
1 TAACTGGCATAATTGACACCTTT-CTGCCAATTGCACAGTTAGA-CCATTATTCTTTTACTCAAC
* *
1862580 AGTATTTAACTGTTCATC
64 GGTATTTAACCGTTCATC
* * * * * *
1862598 TAACTGGCATAATTGACACATTTCTTCTAGTTGCACAGTTAGGCCAATATTCTTTTACTCAACGG
1 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAACGG
*
1862663 TATTTAACCGTTAATC
66 TATTTAACCGTTCATC
* * * *
1862679 TAACTAGCATAATTGACACCTTTTTGCCAATTGCACAATTAGGCCATTATTCTTTTACTCAACGG
1 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAACGG
*
1862744 TGTTTAACCGTTCATC
66 TATTTAACCGTTCATC
* * * *
1862760 TAACTGGCATAATTGACACCTTTTTTGCCAATTACACAGTTAGGCCTTTATTCTTTTACTCAACG
1 TAACTGGCATAATTGACACC-TTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAACG
1862825 GTATTTAACCGTTCATC
65 GTATTTAACCGTTCATC
*
1862842 TAACTGGCATAATTGACACCTTTCTGCCAATTGCCCAGTTA-AGCCATTATTCTTTTACTCAACG
1 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGA-CCATTATTCTTTTACTCAACG
1862906 GTATTTAACCGTTCATC
65 GTATTTAACCGTTCATC
* * *
1862923 TAACTGGCATAATTGACACATTTCTGACAATTGCACAGTTAGACTATTATTCTTTTACTCAACGG
1 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAACGG
*
1862988 TATTTAATCGTTCATC
66 TATTTAACCGTTCATC
1863004 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAG
1 TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAG
1863046 GCCTCAAAGG
Statistics
Matches: 402, Mismatches: 41, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
81 321 0.80
82 81 0.20
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (81 bp):
TAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAACGG
TATTTAACCGTTCATC
Found at i:1863170 original size:68 final size:68
Alignment explanation
Indices: 1862998--1863185 Score: 277
Period size: 68 Copynumber: 2.8 Consensus size: 68
1862988 TATTTAATCG
* * * *
1862998 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGCCTCAAAGGCAATTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGACAATTAG
1863063 CCT
66 CCT
* * *
1863066 TTCATCTAACTGGTATAAATGACACATTTCTGTCATTTGCACAGTTAGGCCTCAAAGACACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGACAATTAG
1863131 CCT
66 CCT
* * **
1863134 TTCATCTAACTAGCATAAATGACACCTTTCTATCATTTGCACAACTAGGCCT
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCT
1863186 ATAATCGTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 107 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATTTGCACAGTTAGGCCTCAAAGACAATTAG
CCT
Found at i:1863484 original size:54 final size:55
Alignment explanation
Indices: 1863404--1863539 Score: 193
Period size: 55 Copynumber: 2.5 Consensus size: 55
1863394 TACCTTATGA
* * ** *
1863404 AAATTCATACACTTAGTATGATTTTCTCA-GTTCGCACCCATGGTGCCCATACTG
1 AAATTCATACACTTAGTATGAATTTCTCATGTTCGCACACAAAGTGCCCATACAG
* * *
1863458 AAATTCATACACTTAGTATGAATTTCTCATTTTTGGACACAAAGTGCCCATACAG
1 AAATTCATACACTTAGTATGAATTTCTCATGTTCGCACACAAAGTGCCCATACAG
1863513 AAATTCATACACTTAGTATGAATTTCT
1 AAATTCATACACTTAGTATGAATTTCT
1863540 TAAATTTTTG
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
54 28 0.38
55 45 0.62
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (55 bp):
AAATTCATACACTTAGTATGAATTTCTCATGTTCGCACACAAAGTGCCCATACAG
Found at i:1864008 original size:95 final size:95
Alignment explanation
Indices: 1863882--1864102 Score: 266
Period size: 95 Copynumber: 2.3 Consensus size: 95
1863872 TTTGGCTTTA
* * * * * * *
1863882 TAGTATCGATACTAC-CACCCTAGTATTGATACTTCTATACTATGGTATCGATACCCCCTT-CTG
1 TAGTATCGATACT-CTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTAC-G
*
1863945 GTATCGATACTGATTTTAGGTTCGATGTTGCC
64 GTATCGATACTGATTTTAGATTCGATGTTGCC
*
1863977 TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCTCCTTACGGT
1 TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTACGGT
* * * *
1864042 ATTGATACTGGTTTTTGATTCGATGTTGCT
66 ATCGATACTGATTTTAGATTCGATGTTGCC
* * *
1864072 TGGTATCGATACCCTTATCATGGTATCGATA
1 TAGTATCGATACTCTTACCATGGTATCGATA
1864103 ATACTTCTTC
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
94 1 0.01
95 106 0.98
96 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (95 bp):
TAGTATCGATACTCTTACCATGGTATCGATACTACCATACTATGGTACCGATACCCCCTTACGGT
ATCGATACTGATTTTAGATTCGATGTTGCC
Found at i:1867422 original size:86 final size:84
Alignment explanation
Indices: 1867332--1867512 Score: 231
Period size: 86 Copynumber: 2.1 Consensus size: 84
1867322 TAATAGCCAG
* * * *
1867332 ATATATAGTGGT-ATTTTTGTAAAAATATCGCTAAAAATGCGTACTTTAGTGACGTTTATTTTTA
1 ATATATAGTGGTCATTTTTGTAAAAACACCGCTAAAAACGCGTACTTTAGTGACGTTTA--TGT-
1867396 AAAAAAACGCCACGATAGACAA
63 AAAAAAACGCCACGATAGACAA
* * *
1867418 ATATATAGT-GTCATTTTTGTAAAAACACCGCTATAAACGCTTACTTTAGTGGCGTTTATGTAAA
1 ATATATAGTGGTCATTTTTGTAAAAACACCGCTAAAAACGCGTACTTTAGTGACGTTTATGTAAA
* * *
1867482 AAAACGCCGCGATAGCCAG
66 AAAACGCCACGATAGACAA
1867501 ATATATAGTGGT
1 ATATATAGTGGT
1867513 GTACACAAAC
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
83 28 0.34
84 4 0.05
85 2 0.02
86 49 0.59
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (84 bp):
ATATATAGTGGTCATTTTTGTAAAAACACCGCTAAAAACGCGTACTTTAGTGACGTTTATGTAAA
AAAACGCCACGATAGACAA
Found at i:1867627 original size:41 final size:42
Alignment explanation
Indices: 1867570--1867673 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
1867560 GAACACTGCG
* *
1867570 ATAGACTTGTACAATAGTGGCATTT-TTCATACACACGCCACA
1 ATAGACGTGTACAATAGTGGCATTTGTT-ATACAAACGCCACA
* *
1867612 ATAGACGTGTA-AATAGTGGCGTTTGTTATACAAACGCCGCA
1 ATAGACGTGTACAATAGTGGCATTTGTTATACAAACGCCACA
* *
1867653 ATA-AGCATGTACATTAGTGGC
1 ATAGA-CGTGTACAATAGTGGC
1867674 GGTTTTTGTG
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
40 1 0.02
41 32 0.60
42 20 0.38
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (42 bp):
ATAGACGTGTACAATAGTGGCATTTGTTATACAAACGCCACA
Found at i:1870383 original size:173 final size:175
Alignment explanation
Indices: 1870094--1870442 Score: 684
Period size: 173 Copynumber: 2.0 Consensus size: 175
1870084 TTGCATATTC
1870094 ATCCACATTTGATTGTGATTGTCCTCTGATTACATCATGATAGCATATTCTTCGCCTCTTTGGTT
1 ATCCACATTTGATTGTGATTGTCCTCTGATTACATCATGATAGCATATTCTTCGCCTCTTTGGTT
1870159 CTATCTTCAATTCCAAGTTACAATACTTCACTGTTTCACTTTTTTTTAGTCAAAATTACCTTGT-
66 CTATCTTCAATTCCAAGTTACAATACTTCACTGTTTCACTTTTTTTTAGTCAAAATTACCTTGTA
1870223 AAGC-TTTGTTTCCGAGAAGCATGATTCATCTGGCTGTGGTGTAG
131 AAGCTTTTGTTTCCGAGAAGCATGATTCATCTGGCTGTGGTGTAG
1870267 ATCCACATTTGATTGTGATTGTCCTCTGATTACATCATGATAGCATATTCTTCGCCTCTTTGGTT
1 ATCCACATTTGATTGTGATTGTCCTCTGATTACATCATGATAGCATATTCTTCGCCTCTTTGGTT
1870332 CTATCTTCAATTCCAAGTTACAATACTTCACTGTTTCACTTTTTTTTAGTCAAAATTACCTTGTA
66 CTATCTTCAATTCCAAGTTACAATACTTCACTGTTTCACTTTTTTTTAGTCAAAATTACCTTGTA
1870397 AAGCTTTTGTTTCCGAGAAGCATGATTCATCTGGCTGTGGTGTAG
131 AAGCTTTTGTTTCCGAGAAGCATGATTCATCTGGCTGTGGTGTAG
1870442 A
1 A
1870443 GAAGAAAGCT
Statistics
Matches: 174, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
173 129 0.74
174 4 0.02
175 41 0.24
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (175 bp):
ATCCACATTTGATTGTGATTGTCCTCTGATTACATCATGATAGCATATTCTTCGCCTCTTTGGTT
CTATCTTCAATTCCAAGTTACAATACTTCACTGTTTCACTTTTTTTTAGTCAAAATTACCTTGTA
AAGCTTTTGTTTCCGAGAAGCATGATTCATCTGGCTGTGGTGTAG
Found at i:1870672 original size:20 final size:20
Alignment explanation
Indices: 1870634--1870705 Score: 135
Period size: 20 Copynumber: 3.5 Consensus size: 20
1870624 ATTTATTATA
1870634 ATGGATTTCAAGTTTGTTGTT
1 ATGGATTTCAAG-TTGTTGTT
1870655 ATGGATTTCAAGTTGTTGTT
1 ATGGATTTCAAGTTGTTGTT
1870675 ATGGATTTCAAGTTGTTGTT
1 ATGGATTTCAAGTTGTTGTT
1870695 ATGGATTTCAA
1 ATGGATTTCAA
1870706 AATGTAAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
20 39 0.76
21 12 0.24
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.49
Consensus pattern (20 bp):
ATGGATTTCAAGTTGTTGTT
Found at i:1871053 original size:42 final size:42
Alignment explanation
Indices: 1871007--1871088 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
1870997 GTGTTTGTGG
*
1871007 AAAAAACG-CAACTAAAGATCATAACCTTTACCGGCGTTTGTA
1 AAAAAACGTC-ACTAAAGATCATAACCTTTAACGGCGTTTGTA
* **
1871049 AAAAAATGTCGTTAAAGATCATAACCTTTAACGGCGTTTG
1 AAAAAACGTCACTAAAGATCATAACCTTTAACGGCGTTTG
1871089 ACGTTCACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (42 bp):
AAAAAACGTCACTAAAGATCATAACCTTTAACGGCGTTTGTA
Found at i:1880239 original size:25 final size:26
Alignment explanation
Indices: 1880180--1880239 Score: 70
Period size: 25 Copynumber: 2.3 Consensus size: 26
1880170 AATTTTATAC
*
1880180 TTCACTTATATACAACACTTTTAAAAG
1 TTCACTT-TTTACAACACTTTTAAAAG
**
1880207 TT-TGTTTTTACAACACTTTTAAAA-
1 TTCACTTTTTACAACACTTTTAAAAG
1880231 TTCACTTTT
1 TTCACTTTT
1880240 CAAAAGCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
24 2 0.07
25 21 0.78
26 2 0.07
27 2 0.07
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (26 bp):
TTCACTTTTTACAACACTTTTAAAAG
Found at i:1884628 original size:21 final size:21
Alignment explanation
Indices: 1884602--1884647 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
1884592 GACTCCATTG
1884602 GACGGTCATCAGAGGCAAACC
1 GACGGTCATCAGAGGCAAACC
*
1884623 GACGGTCATCAGATGCAAACC
1 GACGGTCATCAGAGGCAAACC
1884644 GACG
1 GACG
1884648 ATCTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.28, G:0.28, T:0.11
Consensus pattern (21 bp):
GACGGTCATCAGAGGCAAACC
Found at i:1885794 original size:64 final size:63
Alignment explanation
Indices: 1885682--1885873 Score: 209
Period size: 64 Copynumber: 3.1 Consensus size: 63
1885672 AATTCATTTT
1885682 TGTTCTGATCA-TCCATATTGGACTCATAGATCCTAGGGT-TATACGGTACATCCTTATGGATGC
1 TGTTCTGAT-ATTCCATATTGGACTCATAGATCCTAGGGTCTAT--GGTACATCCTTATGGATGC
1885745 C
63 C
** *
1885746 TGTTCTGATATTCCATATTGGACTTTTAGATCCTAGTGGTCTATGGTACATCCTTATGGATGCA
1 TGTTCTGATATTCCATATTGGACTCATAGATCCTAG-GGTCTATGGTACATCCTTATGGATGCC
* * * * *
1885810 TG---T-ATCTTCAATAGTGGACTCCTAGATCCTAGGGGTCTAGGGTA-AGTCCTTATGGATGCC
1 TGTTCTGATATTCCATATTGGACTCATAGATCCTA-GGGTCTATGGTACA-TCCTTATGGATGCC
1885870 TGTT
1 TGTT
1885874 TTGGGCTATT
Statistics
Matches: 111, Mismatches: 10, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
59 1 0.01
60 48 0.43
61 2 0.02
63 1 0.01
64 53 0.48
65 3 0.03
66 3 0.03
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (63 bp):
TGTTCTGATATTCCATATTGGACTCATAGATCCTAGGGTCTATGGTACATCCTTATGGATGCC
Found at i:1885847 original size:60 final size:62
Alignment explanation
Indices: 1885700--1885873 Score: 183
Period size: 60 Copynumber: 2.8 Consensus size: 62
1885690 TCATCCATAT
* * * * *
1885700 TGGACTCATAGATCCTAGGGTTATACGGTACATCCTTATGGATGCCTGTTCTGATATTCCATAT
1 TGGACTCATAGATCCTAGGGGTCTACGGTACATCCTTATGGATGCATG-T-TGATATTCAATAG
** * * *
1885764 TGGACTTTTAGATCCTAGTGGTCTATGGTACATCCTTATGGATGCATG-T-ATCTTCAATAG
1 TGGACTCATAGATCCTAGGGGTCTACGGTACATCCTTATGGATGCATGTTGATATTCAATAG
* * *
1885824 TGGACTCCTAGATCCTAGGGGTCTAGGGTA-AGTCCTTATGGATGCCTGTT
1 TGGACTCATAGATCCTAGGGGTCTACGGTACA-TCCTTATGGATGCATGTT
1885874 TTGGGCTATT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
59 1 0.01
60 49 0.53
61 2 0.02
64 41 0.44
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (62 bp):
TGGACTCATAGATCCTAGGGGTCTACGGTACATCCTTATGGATGCATGTTGATATTCAATAG
Found at i:1886873 original size:87 final size:87
Alignment explanation
Indices: 1886727--1886976 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
1886717 TATGTTATAT
*
1886727 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1886792 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
*
1886814 TATTTAACGGGAAATATTATCAAGTACAATAACGTATTAGGTAACGCTTATATAATGTAATAGAT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1886879 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* * *
1886901 TATTTAACGGGAAATATTATCAAATACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
1886966 AGCGCTTATAT
66 AGCGCTTATAT
1886977 TGACCTATTT
Statistics
Matches: 157, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 157 1.00
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (87 bp):
TATTTAACGGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATAGAT
AGCGCTTATATAATAAAATAGG
Found at i:1890692 original size:120 final size:120
Alignment explanation
Indices: 1890479--1890721 Score: 441
Period size: 120 Copynumber: 2.0 Consensus size: 120
1890469 GTTTTCTTCC
*
1890479 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
1890544 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
*
1890599 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
* * *
1890664 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
1890719 ATT
1 ATT
1890722 ATGGGTTCCG
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGACATAGGTTGTAGACCTATTCGCT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
Found at i:1890861 original size:303 final size:303
Alignment explanation
Indices: 1890314--1890908 Score: 1109
Period size: 303 Copynumber: 2.0 Consensus size: 303
1890304 TTAAAATTAG
* *
1890314 CGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACTGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
* *
1890379 ATACCGGTTATATTATAAAATTATCTATTACATTATAATTTTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
1890444 CACTTTTTGACAAGGTATCGACACAGTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACAGTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
1890509 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
1890574 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
1890617 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1890682 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
*
1890747 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACAGTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
* * *
1890812 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
1890877 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
1890909 GTTCCGATGT
Statistics
Matches: 283, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
303 283 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACAGTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:1890912 original size:183 final size:183
Alignment explanation
Indices: 1890599--1891187 Score: 1029
Period size: 183 Copynumber: 3.2 Consensus size: 183
1890589 GTACATTATA
*
1890599 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1890664 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
1890729 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
1890782 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
*
1890847 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
* *
1890912 CCGATGTGTAAATGTCGACACTATTTGACAAGGTATCGACACATTTTTCTTTC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
* *
1890965 ATTCTGGACATAAAGTACCGACACAATATAAAAAAGTGTCGATATAGGTTGTATACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
1891030 CATAAAACCGGTATATTTATACCGATTATATTTCAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
* * *
1891095 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
1891149 CTTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1891188 GAAAACTTTG
Statistics
Matches: 387, Mismatches: 16, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
183 310 0.80
184 73 0.19
186 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:1892407 original size:3 final size:3
Alignment explanation
Indices: 1892399--1892425 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1892389 ACTTGTTTGG
1892399 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
1892426 GTCAGCTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:1894339 original size:198 final size:200
Alignment explanation
Indices: 1893888--1894627 Score: 1005
Period size: 198 Copynumber: 3.8 Consensus size: 200
1893878 AACATTAAAC
* * * * *
1893888 AGTGTTGATACA-TATTATATACCAATTCTCCCATAAAACCGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* * * *
1893952 AAAAATTACCTAATATATTATACTTTTGGGTTTCGATGTTTATGGGGTCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
1894017 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
130 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
1894082 TACAAA
195 TACAAA
* *
1894088 A-TGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
1894152 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACAC-TTTTATATATA
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
1894216 GATCGACAC-TTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
1894280 ACAAA
196 ACAAA
1894285 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
* *
1894350 AAAATTACCTATTGCATTATACTTATGGGTTTCGATGTTTATCGGATCGACAC---TT-TAT-T-
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* ** * * * ** *
1894409 G-TTG-CAC--CCTGTTTG---CC--ATT--CATTC--T-GGACCAAAAATATCGA-C-ACA-AA
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAA-AT--ATCGACACAA
*
1894457 C-TACAAA
193 ACTACAAA
* *
1894464 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1894529 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
1894594 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
1894628 ATTGTAAATT
Statistics
Matches: 481, Mismatches: 37, Indels: 48
0.85 0.07 0.08
Matches are distributed among these distances:
179 120 0.25
180 8 0.02
181 6 0.01
182 3 0.01
183 9 0.02
184 1 0.00
185 3 0.01
186 2 0.00
187 5 0.01
189 5 0.01
190 4 0.01
191 3 0.01
192 4 0.01
193 1 0.00
194 3 0.01
195 3 0.01
196 5 0.01
197 60 0.12
198 131 0.27
199 100 0.21
200 5 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:1894427 original size:179 final size:179
Alignment explanation
Indices: 1894216--1894584 Score: 695
Period size: 179 Copynumber: 2.1 Consensus size: 179
1894206 TTTATATATA
1894216 GATCGACAC-TTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
1 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
1894280 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAG
66 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
*
1894345 ATTGAAAAATTACCTATTGCATTATACTTATGGGTTTCGATGTTTATCG
131 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCG
1894394 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
1 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
*
1894459 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACTGGTATACTTGTACCGATTAG
66 ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
*
1894524 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
131 ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCG
1894573 GATCGACACTTT
1 GATCGACACTTT
1894585 TTATATATGG
Statistics
Matches: 186, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
178 9 0.05
179 177 0.95
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (179 bp):
GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAAAGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGATTAG
ATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCG
Found at i:1894881 original size:19 final size:19
Alignment explanation
Indices: 1894857--1894905 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1894847 ATATATTCAC
1894857 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
1894876 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1894895 ATACAAAATTA
1 ATACAAAATTA
1894906 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1896111 original size:33 final size:32
Alignment explanation
Indices: 1896074--1896138 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1896064 CATCTTAATA
*
1896074 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTT-ACCACT
* *
1896107 TCACCCCTCAACACCTCTACTTCTTTACCACT
1 TCACCCCTCAACACCCCAACTTCTTTACCACT
1896139 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 6 0.21
33 23 0.79
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (32 bp):
TCACCCCTCAACACCCCAACTTCTTTACCACT
Found at i:1896196 original size:21 final size:21
Alignment explanation
Indices: 1896171--1896235 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
1896161 CCCCTTATGC
* *
1896171 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1896192 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
1896213 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
1896234 CT
1 CT
1896236 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:1898670 original size:20 final size:19
Alignment explanation
Indices: 1898624--1898684 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 19
1898614 TCCGGTAACG
1898624 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
1898643 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
*
1898664 TTTTACCTGG-TATATCATT
1 TTTTACC-GGTTTTATCATT
1898683 TT
1 TT
1898685 GGATCGATAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.20, C:0.15, G:0.11, T:0.54
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:1898831 original size:179 final size:178
Alignment explanation
Indices: 1898417--1898879 Score: 625
Period size: 179 Copynumber: 2.6 Consensus size: 178
1898407 CGTACTTACG
* * *
1898417 AAAGTATCGACACTTTAATATATCCGGTATCGTTTTACCGG---TAT-AATTATACCGATTTTAT
1 AAAGTATCGACACTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTATACCGGTTTTAT
* * * * *
1898478 CATATTTTTACCTGTTATATCATTGTGGATCGATATATTTTTTTAAATTATCGATACATTATAGG
66 CATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGG
*
1898543 CGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
131 AGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
1898591 AAAGTATCGACACTTTCAATATATCCGGTAACGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTT-AATATATCCGGTAACGTTTTACCGGTTTTATCA-TTT-ATACCGGTTT
*
1898656 TATCATATTTTTACCTGGTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACAC-TTAT
63 TATCATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACATTAT
** * *
1898720 AGGATTTAAAATTGC-T-TCTTTTAAATTCACGAAGTGTCGATCCTTATATT
128 AGGAGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
* * * *
1898770 AAAGTACCGACACTTTAAATGTATCCGGTAGCGCTTTACCGGTTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTT-AATATATCCGGTAACGTTTTACCGGTTTTATCATTT--ATACCGGTTT
* * *
1898835 TGTCATAGTTTTACCTGTTATATCATTTTGGATCGACACATTTTT
63 TATCATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTT
1898880 AATTTGGATC
Statistics
Matches: 256, Mismatches: 24, Indels: 13
0.87 0.08 0.04
Matches are distributed among these distances:
174 16 0.06
175 24 0.09
178 37 0.14
179 99 0.39
180 17 0.07
181 63 0.25
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (178 bp):
AAAGTATCGACACTTTAATATATCCGGTAACGTTTTACCGGTTTTATCATTTATACCGGTTTTAT
CATATTTTTACCTGTTATATCATTTTGGATCGATACATTTTTTAAAAGTATCGACACATTATAGG
AGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATAT
Found at i:1900271 original size:98 final size:96
Alignment explanation
Indices: 1900114--1900438 Score: 431
Period size: 88 Copynumber: 3.5 Consensus size: 96
1900104 GTTGAAAGAG
*
1900114 TGAAAACACATTCGCCTTCATCGCAG-AAACCCATTCGCCTTCAACCTCCTCGTCTGAAAATCCT
1 TGAAAACCCATTCGCCTTCATCGCAGAAAACCCATTCGCCTTCAACCTCCTCGTCTGAAAATCCT
1900178 TCGCACTTTAGGGAGATTTCAAGAGATTTCGTC
66 TCGCACTTTA--GAGATTTCAAGAGATTTCGTC
* * * *
1900211 TGAAAACCCATTCGCCTTCATCGCAGAAAACCCATTCACATTCATCCTCATCGTCTGAAAATCCT
1 TGAAAACCCATTCGCCTTCATCGCAGAAAACCCATTCGCCTTCAACCTCCTCGTCTGAAAATCCT
1900276 TCGCACTTT--AG------AGAGATTTCGTC
66 TCGCACTTTAGAGATTTCAAGAGATTTCGTC
* * *
1900299 TGAAAACCCATTCGCCTTCATCACAGAAAACTCATTCGCCTTCAACCTCCTCGTCTAAAAATCCT
1 TGAAAACCCATTCGCCTTCATCGCAGAAAACCCATTCGCCTTCAACCTCCTCGTCTGAAAATCCT
1900364 T--CACTTTAAAGAGATTTCGAA-AGATTTCGTC
66 TCGCACTTT--AGAGATTTC-AAGAGATTTCGTC
* *
1900395 TGAAAACCCATTCGCCTTCATCGCAGAAAATCCATTAGCCTTCA
1 TGAAAACCCATTCGCCTTCATCGCAGAAAACCCATTCGCCTTCA
1900439 TCGCTGAAAA
Statistics
Matches: 200, Mismatches: 16, Indels: 25
0.83 0.07 0.10
Matches are distributed among these distances:
86 6 0.03
88 71 0.35
90 2 0.01
94 2 0.01
96 50 0.25
97 26 0.13
98 43 0.22
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (96 bp):
TGAAAACCCATTCGCCTTCATCGCAGAAAACCCATTCGCCTTCAACCTCCTCGTCTGAAAATCCT
TCGCACTTTAGAGATTTCAAGAGATTTCGTC
Found at i:1900423 original size:24 final size:24
Alignment explanation
Indices: 1900396--1900462 Score: 107
Period size: 24 Copynumber: 2.8 Consensus size: 24
1900386 GATTTCGTCT
1900396 GAAAACCCATTCGCCTTCATCGCA
1 GAAAACCCATTCGCCTTCATCGCA
* * *
1900420 GAAAATCCATTAGCCTTCATCGCT
1 GAAAACCCATTCGCCTTCATCGCA
1900444 GAAAACCCATTCGCCTTCA
1 GAAAACCCATTCGCCTTCA
1900463 ACCTCCCCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.30, C:0.34, G:0.12, T:0.24
Consensus pattern (24 bp):
GAAAACCCATTCGCCTTCATCGCA
Found at i:1901015 original size:15 final size:15
Alignment explanation
Indices: 1900995--1901024 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1900985 AATGTGAGTA
1900995 CTGCATGTATATGTT
1 CTGCATGTATATGTT
1901010 CTGCATGTATATGTT
1 CTGCATGTATATGTT
1901025 GTGTATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.47
Consensus pattern (15 bp):
CTGCATGTATATGTT
Found at i:1901697 original size:45 final size:45
Alignment explanation
Indices: 1901645--1901818 Score: 186
Period size: 45 Copynumber: 3.7 Consensus size: 45
1901635 GGTCTGAACA
* * * *
1901645 TAATGAACCTGAAATTGATGAAGCAGAACCAGTTCAACCAGAAAT
1 TAATGAACCTGAAATTAATGAACCAGAACCAGTTGAGCCAGAAAT
* * *
1901690 TACTGAACCATCTGAGCCAGAAATTAATGAACCAGAACAAGCTGAGCCAGAAAT
1 TAATGAA-C--CT------GAAATTAATGAACCAGAACCAGTTGAGCCAGAAAT
*
1901744 TAATGAACCTGAAATTAATGAACCAGAATCAGTTGAGCCAGAAAT
1 TAATGAACCTGAAATTAATGAACCAGAACCAGTTGAGCCAGAAAT
*
1901789 TAATGAACCTGAAATTGATGAACCAGAACC
1 TAATGAACCTGAAATTAATGAACCAGAACC
1901819 TGCTGAGGTG
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
45 66 0.62
46 1 0.01
48 2 0.02
51 2 0.02
53 1 0.01
54 35 0.33
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (45 bp):
TAATGAACCTGAAATTAATGAACCAGAACCAGTTGAGCCAGAAAT
Found at i:1901697 original size:54 final size:53
Alignment explanation
Indices: 1901638--1901751 Score: 120
Period size: 54 Copynumber: 2.1 Consensus size: 53
1901628 CAAAACTGGT
* * * * *
1901638 CTGAACATAATGAACCTGAAATTGATGAAGCAGAACCAGTTCAACCAGAAATTA
1 CTGAACAT-ATGAACCAGAAATTAATGAACCAGAACAAGCTCAACCAGAAATTA
* * * *
1901692 CTGAACCATCTGAGCCAGAAATTAATGAACCAGAACAAGCTGAGCCAGAAATTA
1 CTGAA-CATATGAACCAGAAATTAATGAACCAGAACAAGCTCAACCAGAAATTA
*
1901746 ATGAAC
1 CTGAAC
1901752 CTGAAATTAA
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
53 1 0.02
54 45 0.92
55 3 0.06
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (53 bp):
CTGAACATATGAACCAGAAATTAATGAACCAGAACAAGCTCAACCAGAAATTA
Found at i:1901726 original size:15 final size:15
Alignment explanation
Indices: 1901706--1901816 Score: 102
Period size: 15 Copynumber: 7.4 Consensus size: 15
1901696 ACCATCTGAG
1901706 CCAGAAATTAATGAA
1 CCAGAAATTAATGAA
* *
1901721 CCAGAACA--AGCTGAG
1 CCAGAA-ATTA-ATGAA
1901736 CCAGAAATTAATGAA
1 CCAGAAATTAATGAA
*
1901751 CCTGAAATTAATGAA
1 CCAGAAATTAATGAA
* * *
1901766 CCAG-AATCAGTTGAG
1 CCAGAAATTA-ATGAA
1901781 CCAGAAATTAATGAA
1 CCAGAAATTAATGAA
* *
1901796 CCTGAAATTGATGAA
1 CCAGAAATTAATGAA
1901811 CCAGAA
1 CCAGAA
1901817 CCTGCTGAGG
Statistics
Matches: 75, Mismatches: 15, Indels: 12
0.74 0.15 0.12
Matches are distributed among these distances:
14 6 0.08
15 63 0.84
16 6 0.08
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (15 bp):
CCAGAAATTAATGAA
Done.