Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 21 of 276
Found at i:6542180 original size:19 final size:19
Alignment explanation
Indices: 6542142--6542180 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6542132 AAAAGATAAC
6542142 AAAATAGTAAAAAAACAAG
1 AAAATAGTAAAAAAACAAG
6542161 AAAATAGTAACAAAAA-AAG
1 AAAATAGTAA-AAAAACAAG
6542180 A
1 A
6542181 GAGTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAATAGTAAAAAAACAAG
Found at i:6542536 original size:16 final size:18
Alignment explanation
Indices: 6542515--6542550 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 18
6542505 GTACACAGTA
6542515 AAAAAAAC-AAAC-AAAC
1 AAAAAAACAAAACAAAAC
6542531 -AAAAAACAAAACAAAAC
1 AAAAAAACAAAACAAAAC
6542548 AAA
1 AAA
6542551 GGGAGCATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 4
0.81 0.00 0.19
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 4 0.24
18 2 0.12
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAACAAAACAAAAC
Found at i:6543845 original size:10 final size:9
Alignment explanation
Indices: 6543827--6543856 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
6543817 ATATTTTTGC
6543827 AAAAAAATA
1 AAAAAAATA
6543836 AAAAACAATA
1 AAAAA-AATA
6543846 AAAAAAATA
1 AAAAAAATA
6543855 AA
1 AA
6543857 GCCCTATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:6548270 original size:25 final size:25
Alignment explanation
Indices: 6548223--6548271 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
6548213 TTCCTTATAA
* **
6548223 ACTTTAAATTAGGAATTCTATTAGT
1 ACTTTAAAATAGGAATTAGATTAGT
6548248 ACTTTAAAATAGGAATTAGATTAG
1 ACTTTAAAATAGGAATTAGATTAG
6548272 GATTTTCCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.41, C:0.06, G:0.14, T:0.39
Consensus pattern (25 bp):
ACTTTAAAATAGGAATTAGATTAGT
Found at i:6583911 original size:40 final size:40
Alignment explanation
Indices: 6583818--6583994 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
6583808 AAGCCAAGTA
* * *
6583818 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
6583856 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* **
6583896 CCTTCGGGACTTAGCCCGGATGTAAAAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
6583936 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
*
6583977 CCTTCAGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
6583995 ATTATCATCC
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 12 0.10
39 17 0.14
40 63 0.53
41 22 0.19
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:6585802 original size:30 final size:30
Alignment explanation
Indices: 6585768--6585828 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
6585758 TTCTCTATGT
6585768 AAGGGTAGATTGAGATTAAACCAATAAATG
1 AAGGGTAGATTGAGATTAAACCAATAAATG
*
6585798 AAGGGTAGATTGGGATTAAACCAATAAATG
1 AAGGGTAGATTGAGATTAAACCAATAAATG
6585828 A
1 A
6585829 TCTCATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.46, C:0.07, G:0.25, T:0.23
Consensus pattern (30 bp):
AAGGGTAGATTGAGATTAAACCAATAAATG
Found at i:6589017 original size:28 final size:26
Alignment explanation
Indices: 6588966--6589052 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 26
6588956 CATTAGCGCC
*
6588966 TTCCTTT-ATA-ATGCGCCACGAAGGT
1 TTCCTTTCATAGAT-CGCCACAAAGGT
6588991 ATTCCTTTCCATAGATCGCCACAAAGGCT
1 -TTCCTTT-CATAGATCGCCACAAAGG-T
* * *
6589020 TTCATTTCATAGATTGCCACAAAGGC
1 TTCCTTTCATAGATCGCCACAAAGGT
6589046 TTCCTTT
1 TTCCTTT
6589053 TTATGGTGTG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
26 13 0.25
27 17 0.33
28 19 0.37
29 3 0.06
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.33
Consensus pattern (26 bp):
TTCCTTTCATAGATCGCCACAAAGGT
Found at i:6591694 original size:21 final size:20
Alignment explanation
Indices: 6591666--6591705 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
6591656 TCTATGTGTT
6591666 TGAGGTTTGATGATAGATTA
1 TGAGGTTTGATGATAGATTA
6591686 TGAGAGTTTGATGATAGATT
1 TGAG-GTTTGATGATAGATT
6591706 TTCATGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (20 bp):
TGAGGTTTGATGATAGATTA
Found at i:6592449 original size:47 final size:47
Alignment explanation
Indices: 6592337--6592467 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
6592327 GTGTGAATGA
* * *
6592337 TACCTTGATTTGGCTACAGGCCATGGTATAGGTATTTCAGAAAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAA-GAGT
* *
6592385 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGATA-AGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCC-AGAAAGAGT
*
6592432 TACCTTGATTTGGCTACGGGCCATGGTATTGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
6592468 TATCAATTGT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 38 0.50
48 35 0.46
49 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGAAAGAGT
Found at i:6592485 original size:47 final size:47
Alignment explanation
Indices: 6592334--6592486 Score: 147
Period size: 47 Copynumber: 3.2 Consensus size: 47
6592324 CGGGTGTGAA
* *
6592334 TGATACCTTGATTTGGCTACAGGCCATGGTATAGGTA-TTTCAGAAAG
1 TGATACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTCA-ATAG
* *
6592381 -GAGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTAC-TCCGGGATAAG
1 TGA--TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTC--AAT-AG
* *
6592431 T--TACCTTGATTTGGCTACGGGCCATGGTATTGGTACTTATCAATTG
1 TGATACCTTGATTTGGCTACGGGCCATGGTATAGGTACTT-TCAATAG
6592477 TGAT-CCTTGA
1 TGATACCTTGA
6592487 GTATCCAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 22
0.74 0.07 0.19
Matches are distributed among these distances:
46 4 0.05
47 42 0.48
48 37 0.43
49 2 0.02
50 2 0.02
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (47 bp):
TGATACCTTGATTTGGCTACGGGCCATGGTATAGGTACTTTCAATAG
Found at i:6594744 original size:68 final size:68
Alignment explanation
Indices: 6594635--6594902 Score: 536
Period size: 68 Copynumber: 3.9 Consensus size: 68
6594625 AATACACTTG
6594635 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
1 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
6594700 GGC
66 GGC
6594703 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
1 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
6594768 GGC
66 GGC
6594771 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
1 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
6594836 GGC
66 GGC
6594839 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGA
1 AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGA
6594903 AGCCCTCTCT
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 200 1.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (68 bp):
AAGTGTATAAACTATAATCCATAAATTCATATTCAGGAGTGCTCATTAGAGCATATAATCAGGAG
GGC
Found at i:6596304 original size:35 final size:35
Alignment explanation
Indices: 6596258--6596324 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
6596248 AACTTATCTA
*
6596258 TTAACTCCTCTTAATGGTCTTTTGCCATATAACTG
1 TTAACTCCTCTTAATGATCTTTTGCCATATAACTG
*
6596293 TTAACTCCTCTTAATGATCTTTTTCCATATAA
1 TTAACTCCTCTTAATGATCTTTTGCCATATAA
6596325 GGACCTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.25, C:0.22, G:0.07, T:0.45
Consensus pattern (35 bp):
TTAACTCCTCTTAATGATCTTTTGCCATATAACTG
Found at i:6600509 original size:48 final size:48
Alignment explanation
Indices: 6600437--6600529 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
6600427 ACGATGCCTC
* *
6600437 ATGCCGATGTCATGTCCCAAACATGGTCTTATACTGGCTCACATAATG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATG
*
6600485 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
6600530 CACTGGCTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAATG
Found at i:6600533 original size:14 final size:14
Alignment explanation
Indices: 6600514--6600543 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
6600504 GACATGGTCT
6600514 TACACTGGCTCACA
1 TACACTGGCTCACA
6600528 TACACTGGCTCACA
1 TACACTGGCTCACA
6600542 TA
1 TA
6600544 ATAATACCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.23
Consensus pattern (14 bp):
TACACTGGCTCACA
Found at i:6600543 original size:62 final size:62
Alignment explanation
Indices: 6600469--6600591 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
6600459 ATGGTCTTAT
* * * *
6600469 ACTGGCTCACATAATGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAC
1 ACTGGCTCACATAATAATACCGATACCATGTCCCAGACATGGTCTTACACTAGCTCACATAC
* *
6600531 ACTGGCTCACATAATAATACCGATACCATTTCCCAGGCATGGTCTTACACTAGCTCACATA
1 ACTGGCTCACATAATAATACCGATACCATGTCCCAGACATGGTCTTACACTAGCTCACATA
6600592 ACAATGTCGA
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.25
Consensus pattern (62 bp):
ACTGGCTCACATAATAATACCGATACCATGTCCCAGACATGGTCTTACACTAGCTCACATAC
Found at i:6600613 original size:48 final size:48
Alignment explanation
Indices: 6600528--6600673 Score: 202
Period size: 48 Copynumber: 3.0 Consensus size: 48
6600518 CTGGCTCACA
* * * * *
6600528 TACACTGGCTCACATAATAATACCGATACCATTTCCCAGGCATGGTCT
1 TACACTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCT
* * *
6600576 TACACTAGCTCACATAACAATGTCGATGCCATGTCCCAGACGTGGTCT
1 TACACTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCT
* *
6600624 TACACTGGCTCACGTAACAATGCCGATGCTATGTCCCAGACATGGTCT
1 TACACTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCT
6600672 TA
1 TA
6600674 TATGGGATCG
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (48 bp):
TACACTGGCTCACATAACAATGCCGATGCCATGTCCCAGACATGGTCT
Found at i:6604833 original size:30 final size:29
Alignment explanation
Indices: 6604793--6604853 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
6604783 AAATGGAAGT
6604793 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTT-AACTAGC
*
6604823 TTTGGTACTAAGTGTGCGATTTAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAACTAGC
6604852 TT
1 TT
6604854 CGGCTACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 9 0.30
30 21 0.70
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (29 bp):
TTTGGCACTAAGTGTGCGATTTAACTAGC
Found at i:6608118 original size:24 final size:25
Alignment explanation
Indices: 6608087--6608139 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
6608077 TCTGGGTTGT
*
6608087 ATAA-CAGGAAGCTCATAAGAGCC-
1 ATAATCAGGAAGCCCATAAGAGCCA
*
6608110 ATAATCAGGAAGCCCATACGAGCCA
1 ATAATCAGGAAGCCCATAAGAGCCA
6608135 ATAAT
1 ATAAT
6608140 GGGTAGCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 4 0.15
24 17 0.65
25 5 0.19
ACGTcount: A:0.43, C:0.23, G:0.19, T:0.15
Consensus pattern (25 bp):
ATAATCAGGAAGCCCATAAGAGCCA
Found at i:6608181 original size:24 final size:24
Alignment explanation
Indices: 6608129--6608183 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
6608119 AAGCCCATAC
* * *
6608129 GAGCCAATAATGGGTAGCTTTGAA
1 GAGCCATTAATGGGAAGCTCTGAA
*
6608153 GAGCCATTAATGGGAAGCTCTGGA
1 GAGCCATTAATGGGAAGCTCTGAA
*
6608177 TAGCCAT
1 GAGCCAT
6608184 GTATAGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (24 bp):
GAGCCATTAATGGGAAGCTCTGAA
Found at i:6611375 original size:16 final size:17
Alignment explanation
Indices: 6611348--6611380 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
6611338 AACCTAAGGA
6611348 TAAAGTAAAAATAAAAT
1 TAAAGTAAAAATAAAAT
6611365 TAAAG-AAAAATAAAAT
1 TAAAGTAAAAATAAAAT
6611381 AAAAAGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
TAAAGTAAAAATAAAAT
Found at i:6618188 original size:33 final size:33
Alignment explanation
Indices: 6618141--6618203 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
6618131 TAACAATGGG
* *
6618141 ACACTCTTTTGAGCTATGGTGTGTCTGCAACAT
1 ACACTCTTTCGAGCTATGGTGTGTCCGCAACAT
6618174 ACACTCTTTCGAGCTATGGTGTGTCCGCAA
1 ACACTCTTTCGAGCTATGGTGTGTCCGCAA
6618204 TATATACAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.33
Consensus pattern (33 bp):
ACACTCTTTCGAGCTATGGTGTGTCCGCAACAT
Found at i:6625251 original size:18 final size:18
Alignment explanation
Indices: 6625189--6625256 Score: 54
Period size: 18 Copynumber: 3.8 Consensus size: 18
6625179 CTCAATCGCT
6625189 TTTTTCTTTCTTTC-ACTC
1 TTTTTC-TTCTTTCAACTC
*
6625207 TCTTTTCCTT-TTTCAAAT-
1 T-TTTT-CTTCTTTCAACTC
*
6625225 TCTTT-TTCTTTCAACTC
1 TTTTTCTTCTTTCAACTC
*
6625242 TTTTTCTTCTCTCAA
1 TTTTTCTTCTTTCAA
6625257 TTTCGTTGAA
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
15 2 0.05
16 7 0.18
17 7 0.18
18 14 0.36
19 8 0.21
20 1 0.03
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTCTTCTTTCAACTC
Found at i:6627804 original size:10 final size:10
Alignment explanation
Indices: 6627785--6627834 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
6627775 TTAAATTCTA
6627785 AAAGATAAAT
1 AAAGATAAAT
6627795 ACAA-ATAAAT
1 A-AAGATAAAT
6627805 AAAGATAAAT
1 AAAGATAAAT
*
6627815 AAAGATCAAT
1 AAAGATAAAT
*
6627825 AAAAATAAAT
1 AAAGATAAAT
6627835 CCTAAAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:6629231 original size:47 final size:45
Alignment explanation
Indices: 6629162--6629257 Score: 122
Period size: 47 Copynumber: 2.1 Consensus size: 45
6629152 TATCTTAATC
* *
6629162 TAAGACACATTAAAAAGCTGTACTTATTATAACAT-ATTAATTAAACT
1 TAAGACACATTAAAAAGATGTAC-TAAT-TAACATCATTAA-TAAACT
*
6629209 TAAGACACATTAAAATGATGTACTAATTAACATGCATTAATAAACT
1 TAAGACACATTAAAAAGATGTACTAATTAACAT-CATTAATAAACT
6629255 TAA
1 TAA
6629258 AACATATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
45 6 0.14
46 12 0.27
47 26 0.59
ACGTcount: A:0.48, C:0.12, G:0.07, T:0.32
Consensus pattern (45 bp):
TAAGACACATTAAAAAGATGTACTAATTAACATCATTAATAAACT
Found at i:6633227 original size:232 final size:231
Alignment explanation
Indices: 6632807--6633271 Score: 876
Period size: 232 Copynumber: 2.0 Consensus size: 231
6632797 CGGTTAATTA
6632807 GAAAAAAATTAAAAAATTTATTGAATAAATTGGGTAAAAAAGAGGTATCGAGACCTCGATCTTGT
1 GAAAAAAATTAAAAAATTTATTGAATAAATTGGGTAAAAAAGAGGTATCGAGACCTCGATCTTGT
6632872 AAAACTGAGTCAAAAATATTTTTATAAATATTTATAAAATGTTGGTATTGTGGTATTAAAATTTC
66 AAAACTGAGTCAAAAATATTTTTATAAATATTTATAAAATGTTGGTATTGTGGTATTAAAATTTC
*
6632937 GTTAGAAAATTTTAACGTTTCCGTAGTCAATTAAATAAAAAGGATTAAATTGAAAAAGGTGTAAA
131 GTTAGAAAATTTTAACGTTTCCGTAGTCAATTAAATAAAAAGGATTAAATTAAAAAAGGTGTAAA
6633002 AGTTGCTAGAATGATTAAATAGCTTAAGTGTCTAAT
196 AGTTGCTAGAATGATTAAATAGCTTAAGTGTCTAAT
*
6633038 GAAAAAAATTTAACAAATTTATTGAATAAATTGGGTAAAAAAGAGGTATCGAGACCTCGATCTTG
1 GAAAAAAA-TTAAAAAATTTATTGAATAAATTGGGTAAAAAAGAGGTATCGAGACCTCGATCTTG
* *
6633103 TAAAACTGAGTTAAAAATATTTTTATAAATATTTATGAAATGTTGGTATTGTGGTATTAAAATTT
65 TAAAACTGAGTCAAAAATATTTTTATAAATATTTATAAAATGTTGGTATTGTGGTATTAAAATTT
6633168 CGTTAGAAAATTTTAACGTTTCCGTAGTCAATTAAATAAAAAGGATTAAATTAAAAAAGGTGTAA
130 CGTTAGAAAATTTTAACGTTTCCGTAGTCAATTAAATAAAAAGGATTAAATTAAAAAAGGTGTAA
*
6633233 AAGTTGCTAGAATGATTAAGTAGCTTAAGTGTCTAAT
195 AAGTTGCTAGAATGATTAAATAGCTTAAGTGTCTAAT
6633270 GA
1 GA
6633272 GAAAGGATTT
Statistics
Matches: 228, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
231 8 0.04
232 220 0.96
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (231 bp):
GAAAAAAATTAAAAAATTTATTGAATAAATTGGGTAAAAAAGAGGTATCGAGACCTCGATCTTGT
AAAACTGAGTCAAAAATATTTTTATAAATATTTATAAAATGTTGGTATTGTGGTATTAAAATTTC
GTTAGAAAATTTTAACGTTTCCGTAGTCAATTAAATAAAAAGGATTAAATTAAAAAAGGTGTAAA
AGTTGCTAGAATGATTAAATAGCTTAAGTGTCTAAT
Found at i:6639708 original size:28 final size:28
Alignment explanation
Indices: 6639677--6639732 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
6639667 TTTCTAATTA
* * *
6639677 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
6639705 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
6639733 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:6639822 original size:19 final size:19
Alignment explanation
Indices: 6639800--6639848 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
6639790 TATCTATAAA
6639800 TTATATTATATTATATATT
1 TTATATTATATTATATATT
* *
6639819 TTATTTTATTTTATATATT
1 TTATATTATATTATATATT
*
6639838 TTTTA-TATATT
1 TTATATTATATT
6639849 TTTTTATAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 5 0.20
19 20 0.80
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATATTATATTATATATT
Found at i:6639853 original size:12 final size:11
Alignment explanation
Indices: 6639827--6639856 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6639817 TTTTATTTTA
6639827 TTTTATATATT
1 TTTTATATATT
6639838 TTTTATATATT
1 TTTTATATATT
6639849 TTTT-TATA
1 TTTTATATA
6639857 AAATTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.21
11 15 0.79
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTATATATT
Found at i:6652693 original size:206 final size:206
Alignment explanation
Indices: 6652305--6653066 Score: 1217
Period size: 206 Copynumber: 3.7 Consensus size: 206
6652295 GCAGATCTGG
6652305 CTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
6652370 GATTTGACTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
** * * **
6652435 AGAACAAATCGAAGTTTGGAGTCTTTATATTCGACGGAGAGCAGATACATAGCAGATCTGGCCTT
130 AGAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTT
*
6652500 CAGATGTTTATA
195 CAGATGTTTAGA
*
6652512 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
6652577 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
66 ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
6652642 GAACAAATCGAAGTTTAGAGTCTCCATAGTCGAAGGAGGGCAGACACATAGCAGATCTAACCTTC
131 GAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
*
6652707 AGATGATTAGA
196 AGATGTTTAGA
* *
6652718 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAAGAACAAATCGAA-ATCATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGA-CATAGCT
* * * *
6652782 GATTTAGCTTTCATGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
6652847 AGAACAAATCGAAGTTTGGCA-TCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCT
130 AGAACAAATCGAAGTTTGG-AGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCT
6652911 TCAGATGATTT-GA
194 TCAGATG-TTTAGA
* * * *
6652924 CTGAAGCAGATCCAAGATGGTTTGGTATCCTTGTGCTTACAA-TAAGAAAATCGAAGACATAGCT
1 CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAA-CAAATCGAAGACATAGCT
* * *
6652988 GATTTGGTTTTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
6653053 AGAACAAATCGAAG
130 AGAACAAATCGAAG
6653067 AAGCAGATTT
Statistics
Matches: 518, Mismatches: 32, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
205 3 0.01
206 504 0.97
207 11 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (206 bp):
CTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTTTGGAGTCTCCATATTCGACGGAGGGCAGACACATAGCAGATCTAACCTTC
AGATGTTTAGA
Found at i:6653077 original size:43 final size:44
Alignment explanation
Indices: 6653029--6653111 Score: 114
Period size: 43 Copynumber: 1.9 Consensus size: 44
6653019 AATCTAAGAT
*
6653029 GATTTGGCATCTCTGTATT-GTCAGAGAACAAATCGAAGAAGCA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAGCA
* * * *
6653072 GATTTGGCGTCTCTGTGTTCGGCAGAGAGCAGATCGAAGA
1 GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGA
6653112 TATCAACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
43 17 0.50
44 17 0.50
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (44 bp):
GATTTGGCATCTCTGTATTCGGCAGAGAACAAATCGAAGAAGCA
Found at i:6654632 original size:29 final size:29
Alignment explanation
Indices: 6654572--6654630 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
6654562 GATTTTCTAA
* * *
6654572 TTAAATTCAATTTTAATCCTTTTTATATT
1 TTAAATTCAATTTAAATACTTTATATATT
*
6654601 TTAATTTC-ATTTAAATACTTTATATATT
1 TTAAATTCAATTTAAATACTTTATATATT
6654629 TT
1 TT
6654631 TATTAGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.59
Consensus pattern (29 bp):
TTAAATTCAATTTAAATACTTTATATATT
Found at i:6654640 original size:17 final size:17
Alignment explanation
Indices: 6654620--6654652 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6654610 TTTAAATACT
*
6654620 TTATATATTTTTATTAG
1 TTATATATTATTATTAG
6654637 TTATATATTATTATTA
1 TTATATATTATTATTA
6654653 TCCAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (17 bp):
TTATATATTATTATTAG
Found at i:6654722 original size:14 final size:13
Alignment explanation
Indices: 6654715--6654753 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
6654705 TTATATATTT
*
6654715 TATTTTATTTTATA
1 TATTTT-TTATATA
6654729 TATTTCTTTATATA
1 TATTT-TTTATATA
6654743 TATTTTTTATA
1 TATTTTTTATA
6654754 AAATTGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.26
14 16 0.70
15 1 0.04
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTTTTATATA
Found at i:6654771 original size:20 final size:21
Alignment explanation
Indices: 6654743--6654782 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
6654733 TCTTTATATA
*
6654743 TATTTTTTA-TAAAATTGTAT
1 TATTATTTACTAAAATTGTAT
*
6654763 TATTATTTACTAAATTTGTA
1 TATTATTTACTAAAATTGTA
6654783 AATGGCTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (21 bp):
TATTATTTACTAAAATTGTAT
Found at i:6655192 original size:14 final size:14
Alignment explanation
Indices: 6655173--6655202 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6655163 TCTATCTTTC
*
6655173 TTATATATTTTTTA
1 TTATATATTATTTA
6655187 TTATATATTATTTA
1 TTATATATTATTTA
6655201 TT
1 TT
6655203 TTGTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATATTATTTA
Found at i:6655265 original size:11 final size:10
Alignment explanation
Indices: 6655250--6655308 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
6655240 TGCAAAATAC
6655250 TTATTATATT
1 TTATTATATT
6655260 CTTATTAT-TT
1 -TTATTATATT
6655270 TATATTATATT
1 T-TATTATATT
**
6655281 TCCTTATATT
1 TTATTATATT
6655291 TTATTCATATT
1 TTATT-ATATT
*
6655302 ATATTAT
1 TTATTAT
6655309 TATATATAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
9 1 0.03
10 20 0.50
11 19 0.47
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (10 bp):
TTATTATATT
Found at i:6661919 original size:50 final size:50
Alignment explanation
Indices: 6661846--6661985 Score: 217
Period size: 50 Copynumber: 2.8 Consensus size: 50
6661836 TAGTGAGATA
* * * * *
6661846 CCAATCCCATATCCCAGATATGGTCTTACATGGGTTCACACATATCGATG
1 CCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACACATATCGATG
*
6661896 CCAATGTCATGTCTCAGACATGGTCTTACATGGGATCACACATATCGATG
1 CCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACACATATCGATG
*
6661946 CCAATGCCATGTCTTAGACATGGTCTTACATGGGATCACA
1 CCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACA
6661986 TATCGAAACT
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 82 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCTCAGACATGGTCTTACATGGGATCACACATATCGATG
Found at i:6663920 original size:24 final size:24
Alignment explanation
Indices: 6663866--6663920 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
6663856 TGATGGAAGT
*
6663866 AATAAAATGTGCATAATAAAATTAA
1 AATAAAATGT-CATAAAAAAATTAA
*
6663891 ATTAAAATGT-ATAAAAAAGATTAA
1 AATAAAATGTCATAAAAAA-ATTAA
6663915 AATAAA
1 AATAAA
6663921 TTTTTGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 7 0.27
24 10 0.38
25 9 0.35
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (24 bp):
AATAAAATGTCATAAAAAAATTAA
Found at i:6664211 original size:19 final size:19
Alignment explanation
Indices: 6664187--6664232 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
6664177 TTAAATTAAC
* **
6664187 TTTGAATAATAAAACTTAT
1 TTTGAATAAGAAAAAATAT
6664206 TTTGAATAAGAAAAAATAT
1 TTTGAATAAGAAAAAATAT
6664225 TTT-AATAA
1 TTTGAATAA
6664233 CTTCTCTAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.39
Consensus pattern (19 bp):
TTTGAATAAGAAAAAATAT
Found at i:6664365 original size:18 final size:19
Alignment explanation
Indices: 6664326--6664369 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 19
6664316 ATGGATGTTA
6664326 TAAAATGTGCAAAATAAAAT
1 TAAAATGT-CAAAATAAAAT
6664346 TAAAATGT-AAAA-AAATAT
1 TAAAATGTCAAAATAAA-AT
6664364 TAAAAT
1 TAAAAT
6664370 AAAACTTCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
20 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
TAAAATGTCAAAATAAAAT
Found at i:6666813 original size:14 final size:14
Alignment explanation
Indices: 6666796--6666830 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6666786 AAATATATTC
6666796 ATTTTTATTTTCTA
1 ATTTTTATTTTCTA
*
6666810 ATTTTCATTTTCTA
1 ATTTTTATTTTCTA
*
6666824 TTTTTTA
1 ATTTTTA
6666831 AATATTGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (14 bp):
ATTTTTATTTTCTA
Found at i:6668955 original size:167 final size:169
Alignment explanation
Indices: 6668644--6669022 Score: 494
Period size: 168 Copynumber: 2.3 Consensus size: 169
6668634 GCCGACTTTT
** * * *
6668644 CAAAAGTCATCAAAAGTCCTATAGCAAAGTGACTAAAATGATTTCAAAATTCCACAACATGTTTG
1 CAAAAGTTTTCAAAAGTCCTATAGCAAAGTGACTTAAATGATATCAAAAATCCACAACATGTTTG
* * *
6668709 CATTCCAGCAAATACTTCTTACAAATTCTGAAACCTCAAGCCAAAAATCTAATAAGCAACTTACA
66 CATTCCAGCAAATACTTCTTACAAACTCTGAAACCTCAAACCAAAAATCTAATAAGCAACTTAAA
* * * * * *
6668774 TGTTGCATATATGGAGGTACAAATGAACTTGTGT-GTGTA
131 TGCTCCAGATATGGAAGTACAAATGAACTTGTATAG-GCA
* * * * *
6668813 C-AAAGTTTTCAGAAGTCCCATAACAAAGTGACTTAAATGATATCAAAAATCTATAACATGTTTG
1 CAAAAGTTTTCAAAAGTCCTATAGCAAAGTGACTTAAATGATATCAAAAATCCACAACATGTTTG
* * * *
6668877 CA-TCCAGTAAATACTTCTTACATACTCTGAAACCTCAAACCAAAACTCTAATAAGGAACTTAAA
66 CATTCCAGCAAATACTTCTTACAAACTCTGAAACCTCAAACCAAAAATCTAATAAGCAACTTAAA
*
6668941 TGCTCCAGATATGGAAGTACAAATGACCTTGTATAGGCA
131 TGCTCCAGATATGGAAGTACAAATGAACTTGTATAGGCA
* *
6668980 CAAAATTTTTCAAAAATCCTATAGCAAAGTGACTTAAATGATA
1 CAAAAGTTTTCAAAAGTCCTATAGCAAAGTGACTTAAATGATA
6669023 GCAATAAAAG
Statistics
Matches: 179, Mismatches: 29, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
167 86 0.48
168 92 0.51
169 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.28
Consensus pattern (169 bp):
CAAAAGTTTTCAAAAGTCCTATAGCAAAGTGACTTAAATGATATCAAAAATCCACAACATGTTTG
CATTCCAGCAAATACTTCTTACAAACTCTGAAACCTCAAACCAAAAATCTAATAAGCAACTTAAA
TGCTCCAGATATGGAAGTACAAATGAACTTGTATAGGCA
Found at i:6669571 original size:23 final size:23
Alignment explanation
Indices: 6669541--6669587 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6669531 ATTGTCATGC
6669541 ATTCAAACCAACTTATGATCTTA
1 ATTCAAACCAACTTATGATCTTA
6669564 ATTCAAACCAACTTATGATCTTA
1 ATTCAAACCAACTTATGATCTTA
6669587 A
1 A
6669588 ATAATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.21, G:0.04, T:0.34
Consensus pattern (23 bp):
ATTCAAACCAACTTATGATCTTA
Found at i:6671609 original size:95 final size:95
Alignment explanation
Indices: 6671441--6671629 Score: 342
Period size: 95 Copynumber: 2.0 Consensus size: 95
6671431 GAACAAGATT
* *
6671441 CATTCGTATAATGCATGAAACATAAACAAACATGCAATATCATAATTGCACCCCACAGAGACTGG
1 CATTCGTATAATGCATGAAACATAAACAAACACGCAATATCATAATTGCACCCCACAGACACTGG
6671506 TTTTATATATTAACATCTAAAGGTATATTG
66 TTTTATATATTAACATCTAAAGGTATATTG
* *
6671536 CATTTGTATAATGCATGAAACATAAACAAACACGCAATATCATAATTGCACCCCACTGACACTGG
1 CATTCGTATAATGCATGAAACATAAACAAACACGCAATATCATAATTGCACCCCACAGACACTGG
6671601 TTTTATATATTAACATCTAAAGGTATATT
66 TTTTATATATTAACATCTAAAGGTATATT
6671630 CTAAATAATA
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 90 1.00
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.30
Consensus pattern (95 bp):
CATTCGTATAATGCATGAAACATAAACAAACACGCAATATCATAATTGCACCCCACAGACACTGG
TTTTATATATTAACATCTAAAGGTATATTG
Found at i:6677347 original size:15 final size:17
Alignment explanation
Indices: 6677321--6677355 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6677311 TTATCAATCC
6677321 GAAAACTTGA-TTAAAG
1 GAAAACTTGATTTAAAG
6677337 GAAAA-TTGATTTAAAG
1 GAAAACTTGATTTAAAG
6677353 GAA
1 GAA
6677356 TTCGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.51, C:0.03, G:0.20, T:0.26
Consensus pattern (17 bp):
GAAAACTTGATTTAAAG
Found at i:6678512 original size:22 final size:22
Alignment explanation
Indices: 6678487--6678531 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6678477 TTTTTTTCAA
6678487 ATTTTTAATATTTTAGATTAAT
1 ATTTTTAATATTTTAGATTAAT
**
6678509 ATTTTTAATATTTTTTATTAAT
1 ATTTTTAATATTTTAGATTAAT
6678531 A
1 A
6678532 AAATCTCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTTTTAATATTTTAGATTAAT
Found at i:6686078 original size:28 final size:28
Alignment explanation
Indices: 6686016--6686112 Score: 133
Period size: 28 Copynumber: 3.5 Consensus size: 28
6686006 TATTAAGTCT
*
6686016 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTATATAATCAAACTC
6686043 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTATATAATCAAACTC
* * * *
6686071 GCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTATATAA-TCAAACTC
6686100 GCACACTTAGTGC
1 GCACACTTAGTGC
6686113 CAATCTCATG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
GCACACTTAGTGCTATATAATCAAACTC
Found at i:6695172 original size:29 final size:28
Alignment explanation
Indices: 6695131--6695214 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 28
6695121 ATTCGAAGTA
6695131 CTGATATCATGGCCCGAAGCCAAATCAG
1 CTGATATCATGGCCCGAAGCCAAATCAG
6695159 CTGATATTCATGGCCCGAAGCCAAATCAG
1 CTGATA-TCATGGCCCGAAGCCAAATCAG
*
6695188 CCGATAGTCATGGCCCGAAGCCAAATC
1 CTGATA-TCATGGCCCGAAGCCAAATC
6695215 GGTATAACTC
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
28 6 0.11
29 47 0.89
ACGTcount: A:0.31, C:0.30, G:0.21, T:0.18
Consensus pattern (28 bp):
CTGATATCATGGCCCGAAGCCAAATCAG
Found at i:6698055 original size:28 final size:27
Alignment explanation
Indices: 6697988--6698044 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
6697978 GAGTTTGATG
*
6697988 ATGCTTGTATAGTTTTTTACTAAGCTT
1 ATGCTTGTATAATTTTTTACTAAGCTT
6698015 ATGCTTGTATAATTTTTTACTAAGCTT
1 ATGCTTGTATAATTTTTTACTAAGCTT
6698042 ATG
1 ATG
6698045 GTCTTGGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.51
Consensus pattern (27 bp):
ATGCTTGTATAATTTTTTACTAAGCTT
Found at i:6698644 original size:20 final size:20
Alignment explanation
Indices: 6698604--6698648 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
6698594 TTTGAAATGG
* *
6698604 TATGTTTAAGTGTGTTTGAA
1 TATGTTTAAGTCTGCTTGAA
6698624 TGATGTTTAAGTCT-CTTGAA
1 T-ATGTTTAAGTCTGCTTGAA
6698644 TATGT
1 TATGT
6698649 GCACAAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 11 0.50
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (20 bp):
TATGTTTAAGTCTGCTTGAA
Found at i:6705027 original size:75 final size:74
Alignment explanation
Indices: 6704941--6705080 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 74
6704931 GGAAAACTAG
* * *
6704941 GATTATTCCCTTATTAATAGAGAAGACAAATGGAAAGTTAGAAA-AATGAATTATATTATTTCCA
1 GATTATCCCCTTATTAACAAAGAAGACAAATGGAAAGTTAGAAACAA--AATTATATTATTTCCA
6705005 AAAGAATATAT
64 AAAGAATATAT
*
6705016 GATTATCCCCTTATTAACAAAGAAGACAAATGGAAAGTTAGAAAGCAAAATTATATTTTTTCCAA
1 GATTATCCCCTTATTAACAAAGAAGACAAATGGAAAGTTAGAAA-CAAAATTATATTATTTCCAA
6705081 TGTCTTTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 57 0.97
77 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.31
Consensus pattern (74 bp):
GATTATCCCCTTATTAACAAAGAAGACAAATGGAAAGTTAGAAACAAAATTATATTATTTCCAAA
AGAATATAT
Found at i:6705231 original size:71 final size:71
Alignment explanation
Indices: 6705156--6705510 Score: 215
Period size: 71 Copynumber: 5.1 Consensus size: 71
6705146 TATACAATTA
6705156 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
6705221 TCTTTT
66 TCTTTT
* ** * * ** * * *
6705227 ATATTTTGACAAAAAT-TAATTCATATAACTGGTTATATTAATAAATTCGATAA-AATA-T-A--
1 ATATTTTG-TATGAATCAAATTCATAT-ATTAATTATATT-CT---TTCCAAAAGAATATTAATT
* * *
6705286 TACA----ATTA
60 TCCATGTCTTTT
6705294 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
6705359 TCTTTT
66 TCTTTT
* ** * * ** ** ** * *
6705365 ATATTTTGACAAAAAT-TAATTCATATAACTGGTTATATT-AAT--AAATTCAATA-AAATAT--
1 ATATTTTG-TATGAATCAAATTCATAT-ATTAATTATATTCTTTCCAAA-AGAATATTAATTTCC
* * *
6705423 AT-ACAATTA
63 ATGTC-TTTT
* *
6705432 ATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCTAAAAGAATATTAATTTCCATG
1 ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
6705497 TCTTTT
66 TCTTTT
6705503 ATATTTTG
1 ATATTTTG
6705511 ACCGAAATTA
Statistics
Matches: 197, Mismatches: 59, Indels: 56
0.63 0.19 0.18
Matches are distributed among these distances:
62 6 0.03
63 4 0.02
64 1 0.01
65 2 0.01
66 27 0.14
67 43 0.22
68 4 0.02
69 14 0.07
70 4 0.02
71 52 0.26
72 27 0.14
73 2 0.01
74 1 0.01
75 4 0.02
76 6 0.03
ACGTcount: A:0.40, C:0.10, G:0.06, T:0.45
Consensus pattern (71 bp):
ATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATG
TCTTTT
Found at i:6705309 original size:138 final size:138
Alignment explanation
Indices: 6705074--6705607 Score: 908
Period size: 138 Copynumber: 3.9 Consensus size: 138
6705064 AATTATATTT
** * *
6705074 TTTCCAATGTCTTTTATATTTTGATTAAAATTAATTAATATAA-TTGTAAATATTAATAAATTCG
1 TTTCC-ATGTCTTTTATATTTTGACAAAAATTAATTAATATAACTGGT-TATATTAATAAATTCG
*
6705138 ATAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAA
64 ATAAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCCAAA
6705203 AGAATATTAA
129 AGAATATTAA
*
6705213 TTTCCATGTCTTTTATATTTTGACAAAAATTAATTCATATAACTGGTTATATTAATAAATTCGAT
1 TTTCCATGTCTTTTATATTTTGACAAAAATTAATTAATATAACTGGTTATATTAATAAATTCGAT
*
6705278 AAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATTATATTCTTTCCAAAAG
66 AAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCCAAAAG
6705343 AATATTAA
131 AATATTAA
* *
6705351 TTTCCATGTCTTTTATATTTTGACAAAAATTAATTCATATAACTGGTTATATTAATAAATTCAAT
1 TTTCCATGTCTTTTATATTTTGACAAAAATTAATTAATATAACTGGTTATATTAATAAATTCGAT
*
6705416 AAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCTAAAAG
66 AAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCCAAAAG
6705481 AATATTAA
131 AATATTAA
** * * *
6705489 TTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATACTAATAAATTCGGT
1 TTTCCATGTCTTTTATATTTTGACAAAAATTAATTAATATAACTGGTTATATTAATAAATTCGAT
6705554 AAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATT
66 AAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATT
6705608 TATGTTTTAT
Statistics
Matches: 379, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
138 371 0.98
139 8 0.02
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
TTTCCATGTCTTTTATATTTTGACAAAAATTAATTAATATAACTGGTTATATTAATAAATTCGAT
AAAATATATACAATTAATATTTTGTATGAATCAAATTCATACATTAATTATATTCTTTCCAAAAG
AATATTAA
Found at i:6705317 original size:67 final size:67
Alignment explanation
Indices: 6705244--6705456 Score: 173
Period size: 67 Copynumber: 3.1 Consensus size: 67
6705234 GACAAAAATT
*
6705244 AATTCATATAACTGGTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAAT
1 AATTCATATAACTGGTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAAT
6705309 CA
66 CA
* ** ** ** * * * * *
6705311 AATTCATAT-ATTAATTATATTCTTTCCAAA-AGAATATTAATTTCCATGTC-TTTTATATTTTG
1 AATTCATATAACTGGTTATATT-AAT--AAATTCAATA-AAATAT--AT-ACAATTAATATTTTG
* ** *
6705373 ACAAAAAT-T
59 -TATGAATCA
6705382 AATTCATATAACTGGTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAAT
1 AATTCATATAACTGGTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAAT
6705447 CA
66 CA
6705449 AATTCATA
1 AATTCATA
6705457 CATTAATTAT
Statistics
Matches: 101, Mismatches: 33, Indels: 24
0.64 0.21 0.15
Matches are distributed among these distances:
66 14 0.14
67 30 0.30
68 3 0.03
69 14 0.14
70 4 0.04
71 22 0.22
72 14 0.14
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.42
Consensus pattern (67 bp):
AATTCATATAACTGGTTATATTAATAAATTCAATAAAATATATACAATTAATATTTTGTATGAAT
CA
Found at i:6705619 original size:13 final size:13
Alignment explanation
Indices: 6705601--6705626 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6705591 CATACATTAA
6705601 TTATATTTATGTT
1 TTATATTTATGTT
6705614 TTATATTTATGTT
1 TTATATTTATGTT
6705627 CTCTTTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (13 bp):
TTATATTTATGTT
Found at i:6711697 original size:33 final size:33
Alignment explanation
Indices: 6711660--6711747 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
6711650 ATCTGGATAG
* *
6711660 TAAACAAAGAACAGAGATAGTCCGTCT-AGACAT
1 TAAACAAAGAAAAGAGATAGTCCAT-TAAGACAT
** *
6711693 TAAACATGGAAAAGAGATAATCCATTAAGACAT
1 TAAACAAAGAAAAGAGATAGTCCATTAAGACAT
6711726 TAAACAAA-AAATAGAGATAGTC
1 TAAACAAAGAAA-AGAGATAGTC
6711748 TACCGGGACA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
32 4 0.09
33 41 0.91
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (33 bp):
TAAACAAAGAAAAGAGATAGTCCATTAAGACAT
Found at i:6711763 original size:33 final size:33
Alignment explanation
Indices: 6711721--6711814 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 33
6711711 AATCCATTAA
* *
6711721 GACATTAAACAAAAAATAGAGATAGTCTACCGG
1 GACAATAAACAAAGAATAGAGATAGTCTACCGG
* ** * *
6711754 GACAGTAAACACGGAACAGAGATAGTCCACCGG
1 GACAATAAACAAAGAATAGAGATAGTCTACCGG
* *
6711787 GACAATAAACATAGAATAAAGATAGTCT
1 GACAATAAACAAAGAATAGAGATAGTCT
6711815 GTCAGCACAA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (33 bp):
GACAATAAACAAAGAATAGAGATAGTCTACCGG
Found at i:6713571 original size:40 final size:40
Alignment explanation
Indices: 6713478--6713735 Score: 301
Period size: 40 Copynumber: 6.5 Consensus size: 40
6713468 AAGCCAAGTA
* * *
6713478 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
6713516 CCTTCGGGACATAGCCCGGATATAGTAACTCGCGCCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
6713556 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * * *
6713596 CCTTCGGGACTTAGCCCAGATGTAATAACTCACACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
6713636 CCTTCGAGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
6713676 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
6713717 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
6713736 TTATCATCCA
Statistics
Matches: 192, Mismatches: 21, Indels: 10
0.86 0.09 0.04
Matches are distributed among these distances:
38 12 0.06
39 19 0.10
40 134 0.70
41 22 0.11
42 5 0.03
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:6717477 original size:37 final size:37
Alignment explanation
Indices: 6717427--6717505 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
6717417 TTATTACGAA
* * *
6717427 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
6717464 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
6717501 GTCTT
1 GTCTT
6717506 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:6717702 original size:47 final size:47
Alignment explanation
Indices: 6717624--6717913 Score: 427
Period size: 47 Copynumber: 6.1 Consensus size: 47
6717614 CCCTTCGGGA
* * * * * *
6717624 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
6717671 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
6717718 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
6717767 CTTATCACATATATATACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6717814 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
6717861 CTTATCACATACATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
6717910 CTTA
1 CTTA
6717914 CTATCATTTC
Statistics
Matches: 220, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 134 0.61
49 86 0.39
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:6717786 original size:96 final size:95
Alignment explanation
Indices: 6717624--6717913 Score: 449
Period size: 96 Copynumber: 3.0 Consensus size: 95
6717614 CCCTTCGGGA
* * * * * * *
6717624 CTTATCACATT-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATA
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
*
6717688 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACGTTCATCACATCGGCCATTAGGC
6717718 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACAT-TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
6717783 ACTTTCACGTTCATCACATCGGCCATTAGGC
65 ACTTTCACGTTCATCACATCGGCCATTAGGC
*
6717814 CTTATCAC-GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATA
1 CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT--ATATA
*
6717878 CACTTTCACGTTCATCACATCGGCCATTAGGC
64 TACTTTCACGTTCATCACATCGGCCATTAGGC
6717910 CTTA
1 CTTA
6717914 CTATCATTTC
Statistics
Matches: 182, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
94 58 0.32
95 1 0.01
96 123 0.68
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (95 bp):
CTTATCACATTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
CTTTCACGTTCATCACATCGGCCATTAGGC
Found at i:6717882 original size:143 final size:143
Alignment explanation
Indices: 6717624--6717913 Score: 454
Period size: 143 Copynumber: 2.0 Consensus size: 143
6717614 CCCTTCGGGA
* * * * * *
6717624 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
6717689 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATACACTTTCACATTCATCACA
6717754 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* * * * * *
6717767 CTTATCACATATATATACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCACGTATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
6717832 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATACACTTTCACGTTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATACACTTTCACATTCATCACA
6717897 TCGGCCATTAGGC
131 TCGGCCATTAGGC
6717910 CTTA
1 CTTA
6717914 CTATCATTTC
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 133 1.00
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATACATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:6724709 original size:15 final size:14
Alignment explanation
Indices: 6724689--6724731 Score: 61
Period size: 13 Copynumber: 3.1 Consensus size: 14
6724679 TTTCTCACAC
6724689 TCTTTTTCTTTCTCA
1 TCTTTTTCTTT-TCA
6724704 TCTTTTTCTTTTC-
1 TCTTTTTCTTTTCA
*
6724717 TCGTTTTCTTTTCA
1 TCTTTTTCTTTTCA
6724731 T
1 T
6724732 TTTCTTTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 12 0.46
14 3 0.12
15 11 0.42
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (14 bp):
TCTTTTTCTTTTCA
Found at i:6728158 original size:29 final size:27
Alignment explanation
Indices: 6728096--6728168 Score: 74
Period size: 28 Copynumber: 2.6 Consensus size: 27
6728086 ATTCAGCTGT
* *
6728096 GCTAGGACATATTAGAAACTTGTTTTAA
1 GCTAAGACATATTA-AAACATGTTTTAA
**
6728124 TTTAAGACATATTAATAACATGTATTTAA
1 GCTAAGACATATTAA-AACATGT-TTTAA
*
6728153 GCTAAGACACATTAAA
1 GCTAAGACATATTAAA
6728169 GACTTGTATA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
27 1 0.03
28 18 0.50
29 17 0.47
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (27 bp):
GCTAAGACATATTAAAACATGTTTTAA
Found at i:6728176 original size:29 final size:28
Alignment explanation
Indices: 6728096--6728177 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
6728086 ATTCAGCTGT
*
6728096 GCTAGGACATATTAGAAACTTGT-TTTAA
1 GCTAAGACATATTA-AAACTTGTATTTAA
** *
6728124 TTTAAGACATATTAATAACATGTATTTAA
1 GCTAAGACATATTAA-AACTTGTATTTAA
*
6728153 GCTAAGACACATTAAAGACTTGTAT
1 GCTAAGACATATTAAA-ACTTGTAT
6728178 AAAATATGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
27 1 0.02
28 18 0.42
29 24 0.56
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (28 bp):
GCTAAGACATATTAAAACTTGTATTTAA
Found at i:6732361 original size:62 final size:62
Alignment explanation
Indices: 6732246--6732365 Score: 186
Period size: 62 Copynumber: 1.9 Consensus size: 62
6732236 GGTAACCTGC
*
6732246 TAGTTCAGCTAGGCAGAGCAATCCTCACGTATAAGATAGATGAGTCCCCAAGTAAGGGCTGT
1 TAGTTCAGCTAGGCAGAGCAATCCTCACGTATAAGATAGAAGAGTCCCCAAGTAAGGGCTGT
* * * * *
6732308 TAGTTTAGCTAGGCAGAGCAATCCTCACGTATAAGATATAAGATTTCCTAAGTAAGGG
1 TAGTTCAGCTAGGCAGAGCAATCCTCACGTATAAGATAGAAGAGTCCCCAAGTAAGGG
6732366 TTGGAATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (62 bp):
TAGTTCAGCTAGGCAGAGCAATCCTCACGTATAAGATAGAAGAGTCCCCAAGTAAGGGCTGT
Found at i:6750221 original size:32 final size:32
Alignment explanation
Indices: 6750179--6750262 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
6750169 GAAATTGAAT
* * *
6750179 TGGGCAAGGCCCAACTGATATTGGTTTTGATA
1 TGGGCAAGGCCCAACTGATATTGATTCTGAGA
*
6750211 TGGGCCAGGCCCAACTGATATTGATTCTGAGA
1 TGGGCAAGGCCCAACTGATATTGATTCTGAGA
* *
6750243 TGGGCTAGGCCCAATTGATA
1 TGGGCAAGGCCCAACTGATA
6750263 CTATGATGGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (32 bp):
TGGGCAAGGCCCAACTGATATTGATTCTGAGA
Found at i:6752971 original size:25 final size:25
Alignment explanation
Indices: 6752917--6752971 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
6752907 AAACATTAAA
*
6752917 TTTAATTTAACATTAAGATAATCAC
1 TTTAATTTAACATTAAGAAAATCAC
*
6752942 TTTAATATTAA-ATTAATAAAAT-AC
1 TTTAAT-TTAACATTAAGAAAATCAC
6752966 TATTAA
1 T-TTAA
6752972 GATAAGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 3 0.12
25 19 0.73
26 4 0.15
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (25 bp):
TTTAATTTAACATTAAGAAAATCAC
Found at i:6753005 original size:37 final size:37
Alignment explanation
Indices: 6752911--6753018 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 37
6752901 CAAGATAAAC
6752911 ATTAAATTTAAT-TT-AAC-ATTAAGATAATCACTTTAAT
1 ATTAAATTTAATATTAAACTATTAAGATAAT-A--TTAAT
*
6752948 ATTAAA-TTAATA-AAATACTATTAAGATAAGTATTAA-
1 ATTAAATTTAATATTAA-ACTATTAAGATAA-TATTAAT
*
6752984 ATTAAATTTAATATTAAACTATTAAAATAATATTA
1 ATTAAATTTAATATTAAACTATTAAGATAATATTA
6753019 TTTTTGGAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 16 0.26
37 29 0.48
38 4 0.07
39 11 0.18
40 1 0.02
ACGTcount: A:0.52, C:0.05, G:0.03, T:0.41
Consensus pattern (37 bp):
ATTAAATTTAATATTAAACTATTAAGATAATATTAAT
Found at i:6755570 original size:23 final size:23
Alignment explanation
Indices: 6755540--6755595 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
6755530 AAATTGTAAT
*
6755540 TAATATTTAATATTAGGATAACA
1 TAATATTTAATATTAGGATAAAA
6755563 TAATATTTAATATTAGGATAAAA
1 TAATATTTAATATTAGGATAAAA
6755586 TAATATTTAA
1 TAATATTTAA
6755596 CTTTTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (23 bp):
TAATATTTAATATTAGGATAAAA
Found at i:6758131 original size:41 final size:41
Alignment explanation
Indices: 6758075--6758163 Score: 162
Period size: 41 Copynumber: 2.2 Consensus size: 41
6758065 GTTGTTTACT
6758075 GTTA-TTGTTGATAGTGTAAGTTCAAATGACGTTGCTATTG
1 GTTATTTGTTGATAGTGTAAGTTCAAATGACGTTGCTATTG
*
6758115 GTTATTTGTTGATAGTGTAAGTTCAAATGATGTTGCTATTG
1 GTTATTTGTTGATAGTGTAAGTTCAAATGACGTTGCTATTG
6758156 GTTATTTG
1 GTTATTTG
6758164 GTAAAGAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.46
Consensus pattern (41 bp):
GTTATTTGTTGATAGTGTAAGTTCAAATGACGTTGCTATTG
Found at i:6758776 original size:13 final size:13
Alignment explanation
Indices: 6758758--6758782 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6758748 TAAGATGAAT
6758758 TTGCTTGTGTTTG
1 TTGCTTGTGTTTG
6758771 TTGCTTGTGTTT
1 TTGCTTGTGTTT
6758783 TAGATCCTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.08, G:0.28, T:0.64
Consensus pattern (13 bp):
TTGCTTGTGTTTG
Found at i:6772623 original size:17 final size:18
Alignment explanation
Indices: 6772598--6772643 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
6772588 AAGCCAAGTT
*
6772598 GGGCGTATGGG-CCACAC
1 GGGCATATGGGCCCACAC
*
6772615 GGGCATATGGGCCCCCAC
1 GGGCATATGGGCCCACAC
6772633 GGGCATATGGG
1 GGGCATATGGG
6772644 TACATAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.17, C:0.28, G:0.41, T:0.13
Consensus pattern (18 bp):
GGGCATATGGGCCCACAC
Found at i:6773566 original size:16 final size:16
Alignment explanation
Indices: 6773528--6773569 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
6773518 TATAGTGTAT
6773528 TATT-ATTATTAATTTA
1 TATTAATTA-TAATTTA
*
6773544 T-TAAATTATAATTTA
1 TATTAATTATAATTTA
6773559 TATTAATTATA
1 TATTAATTATA
6773570 TTATGAGATT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATTAATTATAATTTA
Found at i:6773774 original size:24 final size:23
Alignment explanation
Indices: 6773748--6773796 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6773738 TATTTATTAA
*
6773748 TTATT-ATTAAGTTA-AAGATAT
1 TTATTAATTAAATTATAAGATAT
*
6773769 TTATTAATTAAATTATAAGATTT
1 TTATTAATTAAATTATAAGATAT
6773792 TTATT
1 TTATT
6773797 TGATAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 5 0.21
22 8 0.33
23 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (23 bp):
TTATTAATTAAATTATAAGATAT
Found at i:6777753 original size:20 final size:21
Alignment explanation
Indices: 6777707--6777755 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
6777697 TATTAGCTTT
*
6777707 TTAAAAATTTGTAAAACATTA
1 TTAAAAATTTATAAAACATTA
6777728 TT-AAAATTTATAAAA-A-TA
1 TTAAAAATTTATAAAACATTA
6777746 TCTAAAAATT
1 T-TAAAAATT
6777756 GAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 3 0.12
19 2 0.08
20 18 0.72
21 2 0.08
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (21 bp):
TTAAAAATTTATAAAACATTA
Found at i:6777763 original size:21 final size:21
Alignment explanation
Indices: 6777730--6777782 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
6777720 AAACATTATT
* * *
6777730 AAAATTTATAAAAATATCT-A
1 AAAATTAAAAAAAAAATCTAA
*
6777750 AAAATTGAAAAAAAAAATTTAA
1 AAAATT-AAAAAAAAAATCTAA
6777772 AAAATTAAAAA
1 AAAATTAAAAA
6777783 TTAATAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAATTAAAAAAAAAATCTAA
Found at i:6777780 original size:29 final size:31
Alignment explanation
Indices: 6777738--6777802 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
6777728 TTAAAATTTA
6777738 TAAAAATATCTAAAAATTGAA-AAAAAAAATT
1 TAAAAATATCTAAAAATT-AATAAAAAAAATT
*
6777769 TAAAAA-AT-TAAAAATTAATAAAAACAATT
1 TAAAAATATCTAAAAATTAATAAAAAAAATT
6777798 TAAAA
1 TAAAA
6777803 GTTAAAGTCT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 2 0.06
29 22 0.69
30 2 0.06
31 6 0.19
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (31 bp):
TAAAAATATCTAAAAATTAATAAAAAAAATT
Found at i:6783766 original size:37 final size:37
Alignment explanation
Indices: 6783715--6783795 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
6783705 AATTATTTAG
*
6783715 ACCTTTTAGGCTACACATGTAAGAAAATAATTGATAC
1 ACCTTTTAGGCTACACATATAAGAAAATAATTGATAC
* * *
6783752 ACCTTTTAGTCTACACATATAATAAGATAATTGATAC
1 ACCTTTTAGGCTACACATATAAGAAAATAATTGATAC
*
6783789 ACATTTT
1 ACCTTTT
6783796 TTAATTGGAC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.35
Consensus pattern (37 bp):
ACCTTTTAGGCTACACATATAAGAAAATAATTGATAC
Found at i:6784265 original size:278 final size:278
Alignment explanation
Indices: 6783768--6784621 Score: 1681
Period size: 278 Copynumber: 3.1 Consensus size: 278
6783758 TAGTCTACAC
6783768 ATATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
1 ATATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
6783833 ACATGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
66 ACATGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
6783898 TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
131 TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
6783963 TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
196 TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
6784028 TGTCCTGATTCAATGTGA
261 TGTCCTGATTCAATGTGA
6784046 ATATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
1 ATATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
*
6784111 ACACGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
66 ACATGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
6784176 TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
131 TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
6784241 TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
196 TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
6784306 TGTCCTGATTCAATGTGA
261 TGTCCTGATTCAATGTGA
*
6784324 GTATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
1 ATATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
6784389 ACATGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
66 ACATGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
6784454 TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
131 TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
6784519 TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
196 TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
6784584 TGTCCTGATTCAATGTGA
261 TGTCCTGATTCAATGTGA
*
6784602 GTATAATAAGATAATTGATA
1 ATATAATAAGATAATTGATA
6784622 GGGTTTTGGT
Statistics
Matches: 573, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
278 573 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (278 bp):
ATATAATAAGATAATTGATACACATTTTTTAATTGGACATATTTATACATTTAAAAAATAAATTT
ACATGCACAATTAATAAAATTAAAATTATTTATATTATTTATTTTCTAAAATATATATTTAATTT
TTTCCTAGAAGGTACCAATAGAATTAAAACATTGATTCATATCAAGTTTTTAAAGAAAACTATTT
TTAAATGTTTTTTTAAATTTTATGTAATTTAGAAAAATAATTTTGATTGAATGTTGACAAATGAT
TGTCCTGATTCAATGTGA
Found at i:6790920 original size:46 final size:44
Alignment explanation
Indices: 6790831--6791006 Score: 167
Period size: 46 Copynumber: 3.8 Consensus size: 44
6790821 GTATATCTGT
6790831 GCTGATGCCATGTCCCAGACATGGTCTTACACT-GACTCATCTCGTA-
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTCATCTCG-AG
* *
6790877 GCTGATGCATGTCCCAGACATGTTTTACACTAGCTTATGTCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCA--TCTCGAG
* *
6790923 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAG--CTCATCTCGAG
* * * * *
6790969 GCCGATGCCATGTTCCAAAGATGGTCTTACACTGGCTC
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC
6791007 TCATAATGTG
Statistics
Matches: 111, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
44 12 0.11
45 16 0.14
46 58 0.52
47 11 0.10
48 14 0.13
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCATCTCGAG
Found at i:6801546 original size:25 final size:27
Alignment explanation
Indices: 6801509--6801561 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6801499 TCAAACGTGC
6801509 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6801535 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6801561 A
1 A
6801562 AAACTGTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6802771 original size:26 final size:26
Alignment explanation
Indices: 6802741--6802845 Score: 210
Period size: 26 Copynumber: 4.0 Consensus size: 26
6802731 AATGCCCATA
6802741 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
6802767 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
6802793 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
6802819 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
6802845 A
1 A
6802846 ATTTTTATCA
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:6808216 original size:25 final size:27
Alignment explanation
Indices: 6808179--6808231 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6808169 TCAAACATGC
6808179 ATTTAGGTCAATTTAAC-CCTAAGGGT
1 ATTTAGGTCAATTTAACTCCTAAGGGT
* *
6808205 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAACTCCTAAGGGT
6808231 A
1 A
6808232 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAAGGGT
Found at i:6809731 original size:26 final size:26
Alignment explanation
Indices: 6809701--6809751 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
6809691 AATGCCCATC
6809701 ATGGAACATTTACCTAACCCATTATA
1 ATGGAACATTTACCTAACCCATTATA
*
6809727 ATGGAACATTTACCTAACCTATTAT
1 ATGGAACATTTACCTAACCCATTAT
6809752 CAATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATA
Found at i:6810212 original size:48 final size:45
Alignment explanation
Indices: 6810136--6810504 Score: 301
Period size: 45 Copynumber: 8.0 Consensus size: 45
6810126 AGGGTGAATT
* * *
6810136 GCCGATGCCATGTCCCAGGCATGATCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACA-GTCAAG
* * * * *
6810184 GTCGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTC-GTCTCAAT
1 GCCGATGCCATGT-CCA-ACATGGTCTTACACTGGCTCACAG--TCAAG
* * * * * ***
6810232 GCCGAGGCCATATCCAACATGGCCTTACACTGGCTCTCATATGGTG
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACA-GTCAAG
* * * * *
6810278 GACAACGCCATGTCCCAAACATGGTCTTACACTGGCTCACAATCAAC
1 GCCGATGCCATGT-CC-AACATGGTCTTACACTGGCTCACAGTCAAG
* * * *
6810325 ACTGATGCCATGTCCAACATGGTCTTACACTGGCTCATAGTCAAC
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAGTCAAG
* * *
6810370 ACCGATGCCATGTCCAACATAGTCTTACACTGGCTCACAGTCAAC
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAGTCAAG
* * * **
6810415 GCCAATACCATGTCCAACATGGTCTTACACTGGCTTAC-GAAAGATG
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAGTCA-A-G
*
6810461 GCCGATGCCATGTCCAACATGGTCTTACACTAGCTCACATGTCA
1 GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACA-GTCA
6810505 CCCTAAATGT
Statistics
Matches: 258, Mismatches: 53, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
44 2 0.01
45 104 0.40
46 66 0.26
47 15 0.06
48 71 0.28
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (45 bp):
GCCGATGCCATGTCCAACATGGTCTTACACTGGCTCACAGTCAAG
Found at i:6812163 original size:3 final size:3
Alignment explanation
Indices: 6812155--6812181 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6812145 ACTGGGCAGT
6812155 AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA
6812182 GACAAAATGG
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:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:6813770 original size:36 final size:36
Alignment explanation
Indices: 6813751--6813822 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
6813741 AATATTGTTG
6813751 CTGGTATATTGTTTCTTATGTTGTTATATATGGCTA
1 CTGGTATATTGTTTCTTATGTTGTTATATATGGCTA
* *
6813787 CTGGTATATTGTTTCTTATGTTGTTTTACATGGCTA
1 CTGGTATATTGTTTCTTATGTTGTTATATATGGCTA
6813823 ACGAAATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.18, C:0.10, G:0.19, T:0.53
Consensus pattern (36 bp):
CTGGTATATTGTTTCTTATGTTGTTATATATGGCTA
Found at i:6815377 original size:21 final size:21
Alignment explanation
Indices: 6815313--6815377 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
6815303 AAAAAATACT
6815313 CACTGCATGCATATTAAAAAA
1 CACTGCATGCATATTAAAAAA
* * * * * *
6815334 TAGT-CA-ACACATTAACAAT
1 CACTGCATGCATATTAAAAAA
6815353 CACTGCATGCATATTAAAAAA
1 CACTGCATGCATATTAAAAAA
6815374 CACT
1 CACT
6815378 CACTAAAACA
Statistics
Matches: 30, Mismatches: 12, Indels: 4
0.65 0.26 0.09
Matches are distributed among these distances:
19 11 0.37
20 4 0.13
21 15 0.50
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.25
Consensus pattern (21 bp):
CACTGCATGCATATTAAAAAA
Found at i:6817045 original size:15 final size:15
Alignment explanation
Indices: 6817027--6817067 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
6817017 CTTTCAAATG
* *
6817027 CATCACTACTAGATA
1 CATCACTACCAGACA
6817042 CATCACTACCAGACA
1 CATCACTACCAGACA
6817057 CATCACTACCA
1 CATCACTACCA
6817068 TATATTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.39, C:0.37, G:0.05, T:0.20
Consensus pattern (15 bp):
CATCACTACCAGACA
Found at i:6818256 original size:47 final size:47
Alignment explanation
Indices: 6818181--6818647 Score: 727
Period size: 47 Copynumber: 9.9 Consensus size: 47
6818171 CCCTTCGAGA
* * * *
6818181 CTTATCACATTTATACACTTTCATATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * * * *
6818228 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
6818275 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
6818322 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCAGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
6818369 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * * *
6818416 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
6818463 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
6818510 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
6818557 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
*
6818604 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTC
6818648 CATAACAAAA
Statistics
Matches: 391, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 391 1.00
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:6821719 original size:6 final size:6
Alignment explanation
Indices: 6821653--6821718 Score: 51
Period size: 6 Copynumber: 11.0 Consensus size: 6
6821643 ATCCAAATTG
* * * * * * **
6821653 AAATCT AAATTA AAATCT AAATCA AGATCG AAATCG AAATTG AAATCA
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
*
6821701 AAATCA AAATCA GAATCA
1 AAATCA AAATCA AAATCA
6821719 GTGAGTATTT
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:6821754 original size:12 final size:12
Alignment explanation
Indices: 6821732--6821776 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
6821722 AGTATTTCAT
*
6821732 AATTGAAATCAA
1 AATTAAAATCAA
*
6821744 AATCAAAATCAA
1 AATTAAAATCAA
*
6821756 AATTAGAATCAA
1 AATTAAAATCAA
6821768 AATTAAAAT
1 AATTAAAAT
6821777 TGAAATCGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.24
Consensus pattern (12 bp):
AATTAAAATCAA
Found at i:6821777 original size:6 final size:6
Alignment explanation
Indices: 6821737--6821776 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
6821727 TTCATAATTG
* * *
6821737 AAATCA AAATCA AAATCA AAATTA GAATCA AAATTA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
6821777 TGAAATCGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (6 bp):
AAATCA
Found at i:6821778 original size:42 final size:42
Alignment explanation
Indices: 6821647--6821788 Score: 119
Period size: 42 Copynumber: 3.4 Consensus size: 42
6821637 ACTGAAATCC
* * * * **
6821647 AAATTGAAATCTAAATTAAAATCTAAATCA-AGATCGAAATCG
1 AAATTGAAATCAAAATCAAAATCAAAATCAGA-ATCAAAATTA
* * * *
6821689 AAATTGAAATCAAAATCAAAATCAGAATCAG--TGAGTATTTCA
1 AAATTGAAATCAAAATCAAAATCAAAATCAGAATCA-AAATT-A
* *
6821731 TAATTGAAATCAAAATCAAAATCAAAATTAGAATCAAAATTA
1 AAATTGAAATCAAAATCAAAATCAAAATCAGAATCAAAATTA
*
6821773 AAATTGAAATCGAAAT
1 AAATTGAAATCAAAAT
6821789 AACCCTAAAT
Statistics
Matches: 77, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
40 1 0.01
41 2 0.03
42 69 0.90
43 3 0.04
44 2 0.03
ACGTcount: A:0.54, C:0.11, G:0.09, T:0.26
Consensus pattern (42 bp):
AAATTGAAATCAAAATCAAAATCAAAATCAGAATCAAAATTA
Found at i:6821783 original size:18 final size:17
Alignment explanation
Indices: 6821743--6821788 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
6821733 ATTGAAATCA
6821743 AAATCAAAATCAAAATT
1 AAATCAAAATCAAAATT
*
6821760 AGAATCAAAATTAAAATT
1 A-AATCAAAATCAAAATT
*
6821778 GAAATCGAAAT
1 -AAATCAAAAT
6821789 AACCCTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 23 0.92
19 1 0.04
ACGTcount: A:0.61, C:0.09, G:0.07, T:0.24
Consensus pattern (17 bp):
AAATCAAAATCAAAATT
Found at i:6822363 original size:30 final size:31
Alignment explanation
Indices: 6822298--6822365 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
6822288 ACTATTAATC
* * *
6822298 AGTGACTATTTTGTTATTTTTTTATAACGTT
1 AGTGACTATTTTGTAACTTTTTGATAACGTT
*
6822329 AGTGATTATTTTGTAACTTTTTGA-AA-GTT
1 AGTGACTATTTTGTAACTTTTTGATAACGTT
6822358 AAGTGACT
1 -AGTGACT
6822366 GAAATGAAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 3 0.10
30 8 0.26
31 20 0.65
ACGTcount: A:0.26, C:0.06, G:0.16, T:0.51
Consensus pattern (31 bp):
AGTGACTATTTTGTAACTTTTTGATAACGTT
Found at i:6830407 original size:16 final size:16
Alignment explanation
Indices: 6830382--6830420 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6830372 GTAAAAATAT
**
6830382 ATAA-AAAAAATTGAA
1 ATAACAAAAAATAAAA
6830397 ATAACAAAAAATAAAA
1 ATAACAAAAAATAAAA
6830413 ATAACAAA
1 ATAACAAA
6830421 CATCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.77, C:0.05, G:0.03, T:0.15
Consensus pattern (16 bp):
ATAACAAAAAATAAAA
Found at i:6830595 original size:19 final size:19
Alignment explanation
Indices: 6830567--6830641 Score: 64
Period size: 19 Copynumber: 3.9 Consensus size: 19
6830557 CATTCAAGTG
*
6830567 TAAAATTATAAAAAAAATT
1 TAAAAATATAAAAAAAATT
* *
6830586 TAAAAATATAAAATATA-T
1 TAAAAATATAAAAAAAATT
**
6830604 TAAAAAT-TATTAAAAATT
1 TAAAAATATAAAAAAAATT
*
6830622 CTAAAAAGTATATAAAAAAT
1 -TAAAAA-TATAAAAAAAAT
6830642 CTAATAGGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
17 5 0.11
18 9 0.20
19 20 0.45
20 1 0.02
21 9 0.20
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.32
Consensus pattern (19 bp):
TAAAAATATAAAAAAAATT
Found at i:6830607 original size:10 final size:9
Alignment explanation
Indices: 6830579--6830639 Score: 56
Period size: 10 Copynumber: 6.6 Consensus size: 9
6830569 AAATTATAAA
6830579 AAAAAT-TT
1 AAAAATATT
6830587 AAAAATA-T
1 AAAAATATT
6830595 AAAATATATT
1 AAAA-ATATT
6830605 AAAAATTATT
1 AAAAA-TATT
6830615 AAAAAT-TCT
1 AAAAATAT-T
6830624 AAAAAGTATAT
1 AAAAA-TAT-T
6830635 AAAAA
1 AAAAA
6830640 ATCTAATAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
8 12 0.27
9 11 0.24
10 15 0.33
11 7 0.16
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:6840945 original size:16 final size:17
Alignment explanation
Indices: 6840924--6840967 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
6840914 TTGAGTTGAG
6840924 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
6840940 AAAATTAATTTAGTTAA
1 AAAATTAATTTAATTAA
*
6840957 TTAAATTAATT
1 -AAAATTAATT
6840968 GATTAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.25
17 9 0.38
18 9 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:6842260 original size:13 final size:13
Alignment explanation
Indices: 6842242--6842276 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
6842232 AACGAATTCC
6842242 TAAATATTTTTAA
1 TAAATATTTTTAA
6842255 TAAATATTTTTAA
1 TAAATATTTTTAA
6842268 TAAATATTT
1 TAAATATTT
6842277 ACAAGAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TAAATATTTTTAA
Found at i:6850531 original size:42 final size:42
Alignment explanation
Indices: 6850406--6850541 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
6850396 ACACACATAT
* * *
6850406 TGCATCATCGGATAAACCGAAGCAATCATGCTGGCACGTAAG
1 TGCATCATCGGATATACCGAAGCAATTATACTGGCACGTAAG
* * * * * ***
6850448 TGAATCATCGGATGTACCAAAGAAAATATACCAACACGTAAG
1 TGCATCATCGGATATACCGAAGCAATTATACTGGCACGTAAG
* * *
6850490 TGCATCATCAGATATACCGAAGCAATTATATTGGCATGTAAG
1 TGCATCATCGGATATACCGAAGCAATTATACTGGCACGTAAG
*
6850532 TGCATTATCG
1 TGCATCATCG
6850542 AGTAAACTGC
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
42 70 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (42 bp):
TGCATCATCGGATATACCGAAGCAATTATACTGGCACGTAAG
Found at i:6860234 original size:25 final size:24
Alignment explanation
Indices: 6860202--6860286 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 24
6860192 TGTAATATAG
6860202 ATTTTAAAATTCTTTTACATTATTT
1 ATTTTAAAATTCTTTT-CATTATTT
*
6860227 ATTTTAAACTTGCTTTATGCATT-TTT
1 ATTTTAAAATT-CTTT-T-CATTATTT
*
6860253 CATTTT-AAATTGTTTT-ATTATTT
1 -ATTTTAAAATTCTTTTCATTATTT
**
6860276 GCTTTAAAATT
1 ATTTTAAAATT
6860287 ATATATATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
22 6 0.12
23 8 0.16
24 1 0.02
25 13 0.27
26 11 0.22
27 10 0.20
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (24 bp):
ATTTTAAAATTCTTTTCATTATTT
Found at i:6860454 original size:26 final size:27
Alignment explanation
Indices: 6860381--6860457 Score: 77
Period size: 26 Copynumber: 2.9 Consensus size: 27
6860371 TTAAGTTTCT
*
6860381 TTTTACATAACATTTATTTTAAACTCA
1 TTTTACATATCATTTATTTTAAACTCA
* * * * *
6860408 -TTCATATATTATTTATCTTAAA-TTA
1 TTTTACATATCATTTATTTTAAACTCA
*
6860433 TTTTACATATCATTCATTTTAAACT
1 TTTTACATATCATTTATTTTAAACT
6860458 TTTCCCGTAT
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
25 2 0.05
26 34 0.92
27 1 0.03
ACGTcount: A:0.35, C:0.13, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTTACATATCATTTATTTTAAACTCA
Found at i:6861248 original size:20 final size:17
Alignment explanation
Indices: 6861205--6861250 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 17
6861195 TAATTCAAGC
6861205 ATTTTAAAAAAAAATCG
1 ATTTTAAAAAAAAATCG
*
6861222 ATGTTAATAAAAAAGATCG
1 ATTTTAA-AAAAAA-ATCG
6861241 TATTTTAAAA
1 -ATTTTAAAA
6861251 TCTATTCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 6 0.25
20 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (17 bp):
ATTTTAAAAAAAAATCG
Found at i:6863887 original size:36 final size:36
Alignment explanation
Indices: 6863847--6863919 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
6863837 AACCAGGTGA
6863847 TTGATCAAAAAATACTTTCCCTTATAAGTTACCATG
1 TTGATCAAAAAATACTTTCCCTTATAAGTTACCATG
* **
6863883 TTGATTAAAAAATACTTTCTTTTATAAGTTACCATG
1 TTGATCAAAAAATACTTTCCCTTATAAGTTACCATG
6863919 T
1 T
6863920 AAGAATGTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (36 bp):
TTGATCAAAAAATACTTTCCCTTATAAGTTACCATG
Found at i:6874776 original size:6 final size:6
Alignment explanation
Indices: 6874762--6874795 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
6874752 CAAATGGATA
* *
6874762 ATTTCC ATTTTC ATTTTC ATTTCC ATTTCC ATTT
1 ATTTCC ATTTCC ATTTCC ATTTCC ATTTCC ATTT
6874796 TTGGAAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.59
Consensus pattern (6 bp):
ATTTCC
Found at i:6874785 original size:18 final size:18
Alignment explanation
Indices: 6874762--6874796 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6874752 CAAATGGATA
*
6874762 ATTTCCATTTTCATTTTC
1 ATTTCCATTTCCATTTTC
6874780 ATTTCCATTTCCATTTT
1 ATTTCCATTTCCATTTT
6874797 TGGAAACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTCCATTTCCATTTTC
Found at i:6881256 original size:47 final size:47
Alignment explanation
Indices: 6881203--6881300 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
6881193 CCTGACTTAA
* *
6881203 CTTACCAAATGCCATGTTCCAAACATGGTCTTACATGGTATCTTTGT
1 CTTACCAAATGCCATGTTCCAAACATGGTATTACATGGTATCCTTGT
*
6881250 CTTACCAAATTCCATGTTCCAAACATGGTATTACATGGTATCCTTGT
1 CTTACCAAATGCCATGTTCCAAACATGGTATTACATGGTATCCTTGT
6881297 CTTA
1 CTTA
6881301 ATGCCAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (47 bp):
CTTACCAAATGCCATGTTCCAAACATGGTATTACATGGTATCCTTGT
Found at i:6881366 original size:47 final size:47
Alignment explanation
Indices: 6881272--6881391 Score: 136
Period size: 47 Copynumber: 2.5 Consensus size: 47
6881262 CATGTTCCAA
* *
6881272 ACATGGTATTACATGGTATCCTT-GTCTTAATGCCAATGCCACATCTTG
1 ACATGGTCTTACATGGTATCCTTAATC--AATGCCAATGCCACATCTTG
** * **
6881320 ATGTGGTCTTACATGG-AGTCCTTAATCAATGCCGATGCCATGTCTTG
1 ACATGGTCTTACATGGTA-TCCTTAATCAATGCCAATGCCACATCTTG
6881367 ACATGGTCTTACATGGTATCCTTAA
1 ACATGGTCTTACATGGTATCCTTAA
6881392 CCATCAATTC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
47 39 0.65
48 19 0.32
49 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (47 bp):
ACATGGTCTTACATGGTATCCTTAATCAATGCCAATGCCACATCTTG
Found at i:6894865 original size:3 final size:3
Alignment explanation
Indices: 6894857--6894901 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
6894847 ACTCTTTTAC
6894857 TAT TAT TAT T-T TCAT TAT TAT TAT TAT TAT TATT TAT T-T TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
6894902 AATCCTTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 4 0.11
3 29 0.76
4 5 0.13
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6894875 original size:15 final size:14
Alignment explanation
Indices: 6894851--6894901 Score: 61
Period size: 15 Copynumber: 3.6 Consensus size: 14
6894841 CTCATTACTC
*
6894851 TTTTACTATTATTA
1 TTTTATTATTATTA
6894865 TTTTCATTATTATTA
1 TTTT-ATTATTATTA
6894880 --TTATTATTATTTA
1 TTTTATTATTA-TTA
6894893 TTTTATTAT
1 TTTTATTAT
6894902 AATCCTTTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
12 7 0.22
13 5 0.16
14 4 0.12
15 16 0.50
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:6896523 original size:6 final size:6
Alignment explanation
Indices: 6896507--6896580 Score: 87
Period size: 6 Copynumber: 12.5 Consensus size: 6
6896497 ATTGAGTCCA
* * *
6896507 TTTATT CTTATG TTTATT TTTATT TTTATT TTTATC TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * *
6896555 TTTCTT TTTATG TTT-TT TTTGTT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
6896581 CTATTTTGAA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
5 4 0.07
6 53 0.93
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:6896587 original size:24 final size:24
Alignment explanation
Indices: 6896514--6896587 Score: 105
Period size: 24 Copynumber: 3.1 Consensus size: 24
6896504 CCATTTATTC
*
6896514 TTATGTTTATTTTTATTTTTATTT
1 TTATGTTTATTTTTATTTTTCTTT
*
6896538 TTATCTTTATTTTTATTTTTCTTT
1 TTATGTTTATTTTTATTTTTCTTT
*
6896562 TTATGTTT-TTTTTGTTTTTCTATT
1 TTATGTTTATTTTTATTTTTCT-TT
6896586 TT
1 TT
6896588 GAACTTTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.27
24 33 0.73
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.80
Consensus pattern (24 bp):
TTATGTTTATTTTTATTTTTCTTT
Found at i:6899393 original size:13 final size:13
Alignment explanation
Indices: 6899375--6899409 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
6899365 AAATAATTCA
*
6899375 ACACGGGTGAGAG
1 ACACGGGCGAGAG
6899388 ACACGGGCGAGAG
1 ACACGGGCGAGAG
6899401 ACACGGGCG
1 ACACGGGCG
6899410 TGTCCCCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.23, G:0.46, T:0.03
Consensus pattern (13 bp):
ACACGGGCGAGAG
Found at i:6902702 original size:21 final size:20
Alignment explanation
Indices: 6902674--6902712 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
6902664 GTTTCATGAT
*
6902674 AAAATTTTCTAAGTTTTCCC
1 AAAATTTTCAAAGTTTTCCC
6902694 AAAAGTTTTCAAAGTTTTC
1 AAAA-TTTTCAAAGTTTTC
6902713 GGTTTAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (20 bp):
AAAATTTTCAAAGTTTTCCC
Found at i:6903773 original size:109 final size:108
Alignment explanation
Indices: 6903575--6903849 Score: 379
Period size: 109 Copynumber: 2.5 Consensus size: 108
6903565 TGGTAATACA
* * * * *
6903575 TGTGGTACGTGTAAGACCATTGCTGGGCTATTGCATTGTAATAGCGTGTAAAACCATAGCTGGGC
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATTGTGATA-CGTGTAAGACCATAGCTGGGC
*
6903640 TATGACATCGTGATACGTGCAAGACCATAGCTGGGCTATGGCAT
65 TATGACATCATGATACGTGCAAGACCATAGCTGGGCTATGGCAT
* * * *
6903684 TGTGATACGTGTAAGACTATAGCTAGGCTATGGCATCGTGATGACATGTAAGACCATAGCTGGGC
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATTGTGAT-ACGTGTAAGACCATAGCTGGGC
* * * *
6903749 TATGGCATTATGATTCGTGTAAGACCATAGCTGGGCTATGGCAT
65 TATGACATCATGATACGTGCAAGACCATAGCTGGGCTATGGCAT
* *
6903793 CGTGATGACATGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCAT
1 TGTGAT-ACGTGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCAT
6903850 GCCTGAGACA
Statistics
Matches: 144, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
109 111 0.77
110 33 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (108 bp):
TGTGATACGTGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCATAGCTGGGCT
ATGACATCATGATACGTGCAAGACCATAGCTGGGCTATGGCAT
Found at i:6903865 original size:36 final size:36
Alignment explanation
Indices: 6903575--6903849 Score: 379
Period size: 36 Copynumber: 7.6 Consensus size: 36
6903565 TGGTAATACA
* * *
6903575 TGTGGTACGTGTAAGACCATTGCTGGGCTATTGCAT
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
* * *
6903611 TGTAATAGCGTGTAAAACCATAGCTGGGCTATGACAT
1 TGTGATA-CGTGTAAGACCATAGCTGGGCTATGGCAT
* *
6903648 CGTGATACGTGCAAGACCATAGCTGGGCTATGGCAT
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
* *
6903684 TGTGATACGTGTAAGACTATAGCTAGGCTATGGCAT
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
* *
6903720 CGTGATGACATGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGAT-ACGTGTAAGACCATAGCTGGGCTATGGCAT
* *
6903757 TATGATTCGTGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
* *
6903793 CGTGATGACATGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGAT-ACGTGTAAGACCATAGCTGGGCTATGGCAT
6903830 TGTGATACGTGTAAGACCAT
1 TGTGATACGTGTAAGACCAT
6903850 GCCTGAGACA
Statistics
Matches: 207, Mismatches: 29, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
36 113 0.55
37 94 0.45
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (36 bp):
TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
Found at i:6903867 original size:73 final size:73
Alignment explanation
Indices: 6903584--6903849 Score: 417
Period size: 73 Copynumber: 3.6 Consensus size: 73
6903574 ATGTGGTACG
* * * * *
6903584 TGTAAGACCATTGCTGGGCTATTGCATTGTAATAGCGTGTAAAACCATAGCTGGGCTATGACATC
1 TGTAAGACCATAGCTGGGCTATGGCATTGTGATA-CGTGTAAGACCATAGCTGGGCTATGGCATC
*
6903649 GTGAT-ACG
65 GTGATGACA
* * *
6903657 TGCAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACTATAGCTAGGCTATGGCATCG
1 TGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCG
6903722 TGATGACA
66 TGATGACA
* *
6903730 TGTAAGACCATAGCTGGGCTATGGCATTATGATTCGTGTAAGACCATAGCTGGGCTATGGCATCG
1 TGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCG
6903795 TGATGACA
66 TGATGACA
6903803 TGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCAT
1 TGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCAT
6903850 GCCTGAGACA
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
72 31 0.18
73 145 0.82
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (73 bp):
TGTAAGACCATAGCTGGGCTATGGCATTGTGATACGTGTAAGACCATAGCTGGGCTATGGCATCG
TGATGACA
Done.