Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 30 of 213
Found at i:8153661 original size:17 final size:17
Alignment explanation
Indices: 8153639--8153672 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8153629 TAAAAATATT
* *
8153639 TTAAAAATATTTTAAAA
1 TTAAAAAAAATTTAAAA
8153656 TTAAAAAAAATTTAAAA
1 TTAAAAAAAATTTAAAA
8153673 AAAGTATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAAAAAAAATTTAAAA
Found at i:8157401 original size:17 final size:17
Alignment explanation
Indices: 8157271--8157405 Score: 53
Period size: 17 Copynumber: 7.5 Consensus size: 17
8157261 ACCTTGTTTA
* *
8157271 TATATTTTTTAAAATTT
1 TATAATTTTTATAATTT
8157288 TA-AATTTCTTATAAATTT
1 TATAATTT-TTAT-AATTT
8157306 CTATAATTCTTTATAATTTT
1 -TATAATT-TTTATAA-TTT
* *
8157326 TATTTAGTTTTTCTATATTT
1 TA--TAATTTTTATA-ATTT
* * *
8157346 TAAAAATTTTAATATATAT
1 T-ATAATTTTTATA-ATTT
**
8157365 T-GGATTTTTAT--TTAT
1 TATAATTTTTATAATT-T
*
8157380 AATAATTTTTATAATTT
1 TATAATTTTTATAATTT
8157397 TATAATTTT
1 TATAATTTT
8157406 GTACTTTTTT
Statistics
Matches: 87, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
14 1 0.01
15 1 0.01
16 12 0.14
17 21 0.24
18 7 0.08
19 18 0.21
20 20 0.23
21 7 0.08
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (17 bp):
TATAATTTTTATAATTT
Found at i:8161858 original size:29 final size:29
Alignment explanation
Indices: 8161796--8161859 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
8161786 ATAACTACAT
* * *
8161796 AGCTAACAACTAATTGACTTCAGCTAACT
1 AGCTAACAACTAACTGACTTCAGCAAACC
*
8161825 A-CTAACATACTAACTGACTTGA-CAAACC
1 AGCTAACA-ACTAACTGACTTCAGCAAACC
8161853 AGCTAAC
1 AGCTAAC
8161860 TGCTAGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
28 11 0.38
29 18 0.62
ACGTcount: A:0.41, C:0.27, G:0.09, T:0.23
Consensus pattern (29 bp):
AGCTAACAACTAACTGACTTCAGCAAACC
Found at i:8168635 original size:3 final size:3
Alignment explanation
Indices: 8168627--8168652 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8168617 GATTTAGTCC
8168627 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
8168653 CCTATTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8184040 original size:46 final size:46
Alignment explanation
Indices: 8183973--8184281 Score: 154
Period size: 44 Copynumber: 6.7 Consensus size: 46
8183963 ATTATACAGG
* *
8183973 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
** * *
8184019 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA---GAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAG-AATTTCAGA
* * * * ** * *
8184063 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-A
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAAT-TTCAGA
* * * * ** **
8184107 TCCTATCTCTCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCA-GA
* * * * *
8184151 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCAC-ATCAG-ATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA-C-CGA--AGAATT----TC--AGA
* * *
8184205 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
8184251 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
1 TCTTATCTCCCTGAGGTTACAGTGGAGCAGA
8184282 TTGAAGCCAG
Statistics
Matches: 201, Mismatches: 38, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
42 1 0.00
43 3 0.01
44 90 0.45
45 1 0.00
46 66 0.33
47 1 0.00
48 3 0.01
49 1 0.00
51 1 0.00
52 4 0.02
53 2 0.01
54 27 0.13
55 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTTATCTCCCTGAGGTTACAGTGGAGCAGACCGAAGAATTTCAGA
Found at i:8184083 original size:44 final size:43
Alignment explanation
Indices: 8184016--8184414 Score: 266
Period size: 44 Copynumber: 8.8 Consensus size: 43
8184006 GAAGAATTTC
* * *
8184016 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* *
8184060 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
8184104 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAA-TTACAGTGGAGCAGATTGAAGCTAG
*
8184147 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCACATCAGATTGAAGCCAG
1 A-GATCTTATCTCTCTGAA-TTACAGT-G-G-AG-------CAGATTGAAGCTAG
* * ** ** **
8184202 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTC
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTG--AAGCTAG
* * *
8184248 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCTCTGA-ATTACAGTGGAGCAGATTGAAGCTAG
* *
8184292 AGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTAG
1 AGATCTTATCTCTCTG-AATTACAGTGGAGCAGATTGAAGCTAG
* * ** *
8184336 TA-ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAA
1 -AGATCTTATCTCTCTGAA-TTACAGTGGAGCAGATTGAAGCTAG
* *
8184379 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGAT
1 A-GATCTTATCTCTCTGAA-TTACAGTGGAGCAGAT
8184415 CACATCAGAT
Statistics
Matches: 280, Mismatches: 52, Indels: 46
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.01
43 11 0.04
44 190 0.68
45 4 0.01
46 36 0.13
47 2 0.01
51 1 0.00
52 1 0.00
53 1 0.00
54 27 0.10
55 5 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (43 bp):
AGATCTTATCTCTCTGAATTACAGTGGAGCAGATTGAAGCTAG
Found at i:8184158 original size:88 final size:90
Alignment explanation
Indices: 8183973--8184183 Score: 225
Period size: 88 Copynumber: 2.4 Consensus size: 90
8183963 ATTATACAGG
* * * * *
8183973 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
* **
8184038 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTAAAGAAAGAGA
* * * *
8184063 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAG-CTAGT-A-ATCCTATCTCTCTGAAGTT
1 TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAAT-GTCAGATCCTATCTCCCTGAAGTT
* *
8184125 ACAGTGGAGCGGATTAAAATAAAG-GA
65 ACAGTGGAGCAGATT-AAAGAAAGAGA
*
8184151 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATC
1 TCTTATCTCTCTGAGA-TTACAGTGGAGTAGATC
8184184 ACATCAGATT
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
87 1 0.01
88 60 0.59
89 6 0.06
90 34 0.34
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (90 bp):
TCTTATCTCTCTGAGATTACAGTGGAGTAGATCGAAGAATGTCAGATCCTATCTCCCTGAAGTTA
CAGTGGAGCAGATTAAAGAAAGAGA
Found at i:8184323 original size:144 final size:142
Alignment explanation
Indices: 8184046--8184326 Score: 332
Period size: 144 Copynumber: 2.0 Consensus size: 142
8184036 TACAGTGGAG
* ** ** **
8184046 CAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATAGTAATCCT
* * * * *
8184111 ATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGCAG
8184176 AGTAGATCACAT
131 AGTAGATCACAT
* *
8184188 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAA-ATTTCAGAT
1 CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATA-GT-A-AT
* * * * *
8184252 CTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGC-CAGAGATCTTATCTCTCTGAAATTACA
63 CCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAG-GATCTTATCTCTCTGAAATTACA
*
8184316 GCGGAGTAGAT
127 GCAGAGTAGAT
8184327 TGAAGCTAGT
Statistics
Matches: 115, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
141 1 0.01
142 48 0.42
143 3 0.03
144 63 0.55
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (142 bp):
CAGATTGAAGCCAGAGATCTTATCTCCCTGAGATTACAGCGGAACAGACCGAAAATAGTAATCCT
ATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACAAAGGATCTTATCTCTCTGAAATTACAGCAG
AGTAGATCACAT
Found at i:8184379 original size:232 final size:232
Alignment explanation
Indices: 8183973--8184473 Score: 932
Period size: 232 Copynumber: 2.2 Consensus size: 232
8183963 ATTATACAGG
** *
8183973 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
*
8184038 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
8184103 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
8184168 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
8184205 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
8184270 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
66 CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
8184335 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
131 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
8184400 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
196 TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
* *
8184437 TCTTATCTCCCTGATG-TTGCAGTGGAACAGACTGAAA
1 TCTTATCTCCCTGA-GATTACAGTGGAACAGACCGAAA
8184474 CATAAATTTC
Statistics
Matches: 262, Mismatches: 6, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
232 261 1.00
233 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (232 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAAATTACAGCGGAGTAGATTGAAGCTA
GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGT
TACAGTAGAGTAGATCACATCAGATTGAAGCCAGAGA
Found at i:8189835 original size:5 final size:5
Alignment explanation
Indices: 8189825--8189883 Score: 52
Period size: 5 Copynumber: 11.8 Consensus size: 5
8189815 AAATTCAATA
* *
8189825 TATAT TATAT TAAAT TATAAT TA-AT TA-AT TAT-T AAGTAT ATATAT
1 TATAT TATAT TATAT TAT-AT TATAT TATAT TATAT TA-TAT -TATAT
8189870 TATAT TATAT TATA
1 TATAT TATAT TATA
8189884 ATAAAACAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
4 10 0.22
5 26 0.58
6 8 0.18
7 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (5 bp):
TATAT
Found at i:8189977 original size:20 final size:19
Alignment explanation
Indices: 8189925--8189969 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
8189915 AGACAAGCAA
8189925 AAAGAAACAGAAA-GGAAAG
1 AAAGAAA-AGAAAGGGAAAG
8189944 AAAGAAAAGAAAAGGGAAAG
1 AAAGAAAAG-AAAGGGAAAG
8189964 AAAGAA
1 AAAGAA
8189970 GGAGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.08
19 10 0.42
20 12 0.50
ACGTcount: A:0.71, C:0.02, G:0.27, T:0.00
Consensus pattern (19 bp):
AAAGAAAAGAAAGGGAAAG
Found at i:8203718 original size:122 final size:122
Alignment explanation
Indices: 8203501--8203847 Score: 604
Period size: 123 Copynumber: 2.8 Consensus size: 122
8203491 TTATTTCGAG
*
8203501 TTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
8203566 AAATCGCGCCCTCGTGGATGTGATTTTGCTACAGTAGTCATGTAAGAAATATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGTCATGTAAGAAATATTTTTT
* * *
8203623 TTGACGTTTCAGAGCAAATATTATAAAATCGCTTCTACAAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
* *
8203688 AAATCGTGCCCTCGTGGACGCGATTTTGCTACAGTTGGTCATGTAAGAAATATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAG-TAGTCATGTAAGAAATATTTTTT
8203746 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
*
8203811 AAATCGCGCCCTCATGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
8203848 CCAGTTTGGG
Statistics
Matches: 210, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
122 94 0.45
123 116 0.55
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (122 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGTCATGTAAGAAATATTTTTT
Found at i:8206972 original size:10 final size:10
Alignment explanation
Indices: 8206957--8206981 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8206947 CAAATCTAAC
8206957 ATTATGTAAA
1 ATTATGTAAA
8206967 ATTATGTAAA
1 ATTATGTAAA
8206977 ATTAT
1 ATTAT
8206982 TAAGTCCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (10 bp):
ATTATGTAAA
Found at i:8207026 original size:55 final size:55
Alignment explanation
Indices: 8206963--8207086 Score: 239
Period size: 55 Copynumber: 2.3 Consensus size: 55
8206953 TAACATTATG
8206963 TAAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
1 TAAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
*
8207018 TCAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
1 TAAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
8207073 TAAAATTATGTAAA
1 TAAAATTATGTAAA
8207087 TTAGGTTAGG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (55 bp):
TAAAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTA
Found at i:8207117 original size:29 final size:29
Alignment explanation
Indices: 8207083--8207297 Score: 326
Period size: 29 Copynumber: 7.3 Consensus size: 29
8207073 TAAAATTATG
8207083 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
* *
8207112 TAAATTAGGATAGGGTTAGAGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
*
8207141 TAAATTAGGTTAGGG-CAGTGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTA--GGGTTTTTAAT
8207171 TAAATTAGGTTAGGGTTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGG-TTAGGGTTTTTAAT
*
8207201 TAAATTAGGTTAAGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
*
8207230 TAAATTAGGTTAGGG-CAGTGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTA--GGGTTTTTAAT
8207260 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
8207289 TAAATTAGG
1 TAAATTAGG
8207298 GTTTTTATTA
Statistics
Matches: 169, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
28 2 0.01
29 89 0.53
30 76 0.45
31 1 0.01
32 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (29 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAAT
Found at i:8207174 original size:59 final size:58
Alignment explanation
Indices: 8207083--8207297 Score: 326
Period size: 59 Copynumber: 3.7 Consensus size: 58
8207073 TAAAATTATG
* *
8207083 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGAGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
*
8207141 TAAATTAGGTTAGGG-CAGTGGGTTTTTAATTAAATTAGGTTAGGGTTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTA--GGGTTTTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAAT
* *
8207201 TAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGTTAGGG-CAGTGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTA--GGGTTTTTAAT
8207260 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
8207298 GTTTTTATTA
Statistics
Matches: 144, Mismatches: 7, Indels: 11
0.89 0.04 0.07
Matches are distributed among these distances:
57 2 0.01
58 15 0.10
59 99 0.69
60 27 0.19
61 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (58 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAAT
Found at i:8207201 original size:89 final size:88
Alignment explanation
Indices: 8207083--8207297 Score: 394
Period size: 89 Copynumber: 2.4 Consensus size: 88
8207073 TAAAATTATG
*
8207083 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAGGGTTAGAGTTTTTAATTAAATTA
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAAGGTTAGAGTTTTTAATTAAATTA
8207148 GGTTAGGGCAGTGGGTTTTTAAT
66 GGTTAGGGCAGTGGGTTTTTAAT
* *
8207171 TAAATTAGGTTAGGGTTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAATTAAATT
1 TAAATTAGGTTAGGG-TTAGGGTTTTTAATTAAATTAGGATAAGGTTAGAGTTTTTAATTAAATT
8207236 AGGTTAGGGCAGTGGGTTTTTAAT
65 AGGTTAGGGCAGTGGGTTTTTAAT
8207260 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
8207298 GTTTTTATTA
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
88 38 0.31
89 85 0.69
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (88 bp):
TAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGATAAGGTTAGAGTTTTTAATTAAATTA
GGTTAGGGCAGTGGGTTTTTAAT
Found at i:8207409 original size:25 final size:25
Alignment explanation
Indices: 8207300--8207485 Score: 94
Period size: 25 Copynumber: 7.7 Consensus size: 25
8207290 AAATTAGGGT
8207300 TTTTATTACATCAAATAGAACTTCTA
1 TTTTATTACATCAAATA-AACTTCTA
*
8207326 TTTTATTATATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
8207349 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
* *
8207371 TTCCTATTATATCAAATAAACTTCTA
1 TT-TTATTACATCAAATAAACTTCTA
8207397 TTTTATTACATCAAAT-AA-TATC-A
1 TTTTATTACATCAAATAAACT-TCTA
** * *
8207420 --AAATAAC-TCGAAA-AAATTTCTA
1 TTTTATTACATC-AAATAAACTTCTA
**
8207442 TGCGTATTACATCAAATAAACTTCTA
1 T-TTTATTACATCAAATAAACTTCTA
8207468 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
8207486 TAAATTTAAA
Statistics
Matches: 119, Mismatches: 21, Indels: 41
0.66 0.12 0.23
Matches are distributed among these distances:
20 4 0.03
21 21 0.18
22 4 0.03
23 4 0.03
24 8 0.07
25 40 0.34
26 38 0.32
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.39
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:8207410 original size:71 final size:71
Alignment explanation
Indices: 8207303--8207487 Score: 325
Period size: 71 Copynumber: 2.6 Consensus size: 71
8207293 TTAGGGTTTT
*
8207303 TATTACATCAAATAGAACTTCTATTTTATTATATCAAATAATATCAAAATAACTCGAAAAAATTT
1 TATTACATCAAATA-AACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTT
*
8207368 CTATTCC
65 CTATGCC
*
8207375 TATTATATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
*
8207440 TATGCG
66 TATGCC
8207446 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
1 TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATA
8207488 AATTTAAATA
Statistics
Matches: 108, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
71 95 0.88
72 13 0.12
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.38
Consensus pattern (71 bp):
TATTACATCAAATAAACTTCTATTTTATTACATCAAATAATATCAAAATAACTCGAAAAAATTTC
TATGCC
Found at i:8208585 original size:7 final size:7
Alignment explanation
Indices: 8208575--8208599 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8208565 TTATATACAT
8208575 AATACTA
1 AATACTA
8208582 AATACTA
1 AATACTA
8208589 AATACTA
1 AATACTA
8208596 AATA
1 AATA
8208600 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:8209779 original size:51 final size:50
Alignment explanation
Indices: 8209714--8209872 Score: 273
Period size: 51 Copynumber: 3.1 Consensus size: 50
8209704 TTTAAAAAAT
* *
8209714 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAAAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGG-TTTGAGAGAATTTTGGAAG
8209765 GAAATTGAGAGGAAATTGAAATTAAATATTGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATA-TGGTTTGAGAGAATTTTGGAAG
8209816 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATAT-GGTTTGAGAGAATTTTGGAAG
8209867 GAAATT
1 GAAATT
8209873 TGGAAGGAGA
Statistics
Matches: 104, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
50 1 0.01
51 100 0.96
52 3 0.03
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (50 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGTTTGAGAGAATTTTGGAAG
Found at i:8209820 original size:29 final size:29
Alignment explanation
Indices: 8209788--8209875 Score: 66
Period size: 29 Copynumber: 3.3 Consensus size: 29
8209778 AATTGAAATT
8209788 AAATATTGGTTTGAGAGAATTTTGGAAGG
1 AAATATTGGTTTGAGAGAATTTTGGAAGG
* * * **
8209817 -AA-ATT-G--AGAG-GAA-ATTGAAATT
1 AAATATTGGTTTGAGAGAATTTTGGAAGG
*
8209839 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATTGGTTTGAGAGAATTTTGGAAGG
8209868 AAAT-TTGG
1 AAATATTGG
8209876 AAGGAGATTG
Statistics
Matches: 40, Mismatches: 12, Indels: 15
0.60 0.18 0.22
Matches are distributed among these distances:
22 5 0.12
23 5 0.12
24 5 0.12
25 1 0.03
26 1 0.03
27 6 0.15
28 8 0.20
29 9 0.22
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.32
Consensus pattern (29 bp):
AAATATTGGTTTGAGAGAATTTTGGAAGG
Found at i:8210181 original size:29 final size:28
Alignment explanation
Indices: 8210115--8210181 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
8210105 CGATTTCTCG
* *
8210115 AAAAATGGACCATTCCGGTAAATAATAA
1 AAAAACGGCCCATTCCGGTAAATAATAA
* **
8210143 AAAAATCGGCCCATTTCGGTAAATTTTGAA
1 AAAAA-CGGCCCATTCCGGTAAATAAT-AA
8210173 AAAAACGGC
1 AAAAACGGC
8210182 TTTTAGTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.16
29 20 0.62
30 7 0.22
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.22
Consensus pattern (28 bp):
AAAAACGGCCCATTCCGGTAAATAATAA
Found at i:8210626 original size:18 final size:19
Alignment explanation
Indices: 8210603--8210638 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8210593 TATTTTTACG
*
8210603 TAATTAA-TATAAAAATAA
1 TAATTAATTACAAAAATAA
8210621 TAATTAATTACAAAAATA
1 TAATTAATTACAAAAATA
8210639 GTATGGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
TAATTAATTACAAAAATAA
Found at i:8213538 original size:37 final size:37
Alignment explanation
Indices: 8213488--8213580 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
8213478 TAATAAGTTG
*
8213488 ACACCCAGTGTCTCATCGGTAAAACCAAAGAAAATTA
1 ACACCCAGTGTCTCATCGATAAAACCAAAGAAAATTA
* * * *
8213525 ACACCCAGTGTCTCATCGATTAAACCGAAGCAAATTG
1 ACACCCAGTGTCTCATCGATAAAACCAAAGAAAATTA
*
8213562 ACACCCAGTGCCTCATCGA
1 ACACCCAGTGTCTCATCGA
8213581 CTCATAGTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (37 bp):
ACACCCAGTGTCTCATCGATAAAACCAAAGAAAATTA
Found at i:8219546 original size:18 final size:18
Alignment explanation
Indices: 8219519--8219553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8219509 ATAAAATATT
*
8219519 ATAGGCCCAATCTATTAG
1 ATAGGCCCAATATATTAG
*
8219537 ATAGGTCCAATATATTA
1 ATAGGCCCAATATATTA
8219554 TGTAAGTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (18 bp):
ATAGGCCCAATATATTAG
Found at i:8232540 original size:30 final size:30
Alignment explanation
Indices: 8232499--8232556 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
8232489 AATTTTTAAA
*
8232499 ATTTCGGACATCCTAGTATCTACTGGTAGT
1 ATTTCGGACATCCTAATATCTACTGGTAGT
* *
8232529 ATTTTGGACATCCTAATGTCTACTGGTA
1 ATTTCGGACATCCTAATATCTACTGGTA
8232557 ACATAGAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (30 bp):
ATTTCGGACATCCTAATATCTACTGGTAGT
Found at i:8238700 original size:25 final size:24
Alignment explanation
Indices: 8238668--8238863 Score: 73
Period size: 24 Copynumber: 8.0 Consensus size: 24
8238658 TATCCGACAA
*
8238668 TATAACGGGAAGCTCATAAAGAGCC
1 TATAACGGGAAGCTC-CAAAGAGCC
*
8238693 TATAACGGGTAGCTCCAAAGAG-C
1 TATAACGGGAAGCTCCAAAGAGCC
* * ***
8238716 AATTAACGGGTAGCTTTGAAGAG--
1 TA-TAACGGGAAGCTCCAAAGAGCC
* * * *
8238739 TAATTAATGGGAAGCACCGAATAGCC
1 T-A-TAACGGGAAGCTCCAAAGAGCC
* * *
8238765 ATATAACGGAAAG-TTCAAGTGAG-C
1 -TATAACGGGAAGCTCCAA-AGAGCC
8238789 -ACTAACGGGAAGCTCACAAAGAGCC
1 TA-TAACGGGAAGCTC-CAAAGAGCC
* *
8238814 TTTAATCAGGAAGCTCACAAAGAGCC
1 TATAA-CGGGAAGCTC-CAAAGAGCC
* *
8238840 ATATAACAGGACGCT-CATAAGAGC
1 -TATAACGGGAAGCTCCA-AAGAGC
8238864 TGCGGTGTGC
Statistics
Matches: 130, Mismatches: 27, Indels: 28
0.70 0.15 0.15
Matches are distributed among these distances:
22 1 0.01
23 11 0.08
24 48 0.37
25 37 0.28
26 28 0.22
27 5 0.04
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.18
Consensus pattern (24 bp):
TATAACGGGAAGCTCCAAAGAGCC
Found at i:8238825 original size:26 final size:26
Alignment explanation
Indices: 8238791--8238856 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
8238781 AAGTGAGCAC
* *
8238791 TAACGGGAAGCTCACAAAGAGCC-TT
1 TAACAGGAAGCTCACAAAGAGCCATA
8238816 TAATCAGGAAGCTCACAAAGAGCCATA
1 TAA-CAGGAAGCTCACAAAGAGCCATA
*
8238843 TAACAGGACGCTCA
1 TAACAGGAAGCTCA
8238857 TAAGAGCTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 3 0.08
26 29 0.81
27 4 0.11
ACGTcount: A:0.39, C:0.24, G:0.21, T:0.15
Consensus pattern (26 bp):
TAACAGGAAGCTCACAAAGAGCCATA
Found at i:8239511 original size:21 final size:21
Alignment explanation
Indices: 8239469--8239512 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
8239459 AGCCCATGAA
* *
8239469 TTCCATGAAATTTTAGAATTT
1 TTCCATGAAATTTAAAAATTT
*
8239490 TTCCATG-AATTTAAAAACTT
1 TTCCATGAAATTTAAAAATTT
8239510 TTC
1 TTC
8239513 AATTTAATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (21 bp):
TTCCATGAAATTTAAAAATTT
Found at i:8240828 original size:91 final size:91
Alignment explanation
Indices: 8240711--8240889 Score: 295
Period size: 91 Copynumber: 2.0 Consensus size: 91
8240701 TCAAAATGTC
* *
8240711 AAAAATGTAATTTTACAGCAATTAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
** *
8240776 CATCAGTCAAACACATCCAAATAGTA
66 CATCAACCAAAAACATCCAAATAGTA
* *
8240802 AAAAATGTAACTTTACAGCAAATAAATAATGTGAAAACACTTTCTAAAATCTTCATTTAAGATTG
1 AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
8240867 CATCAACCAAAAACATCCAAATA
66 CATCAACCAAAAACATCCAAATA
8240890 ACATAAGGGA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 81 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (91 bp):
AAAAATGTAACTTTACAGCAAATAAATAATATGAAAACACTTTCTAAAATCTCCATTTAAGATTG
CATCAACCAAAAACATCCAAATAGTA
Found at i:8243499 original size:3 final size:3
Alignment explanation
Indices: 8243491--8243516 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8243481 ATGTGCAATT
8243491 CAA CAA CAA CAA CAA CAA CAA CAA CA
1 CAA CAA CAA CAA CAA CAA CAA CAA CA
8243517 TATAGATTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:8259000 original size:35 final size:37
Alignment explanation
Indices: 8258954--8259025 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
8258944 TACGTATGTT
8258954 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
* *
8258989 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
8259026 TAAAGCTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 10 0.30
36 3 0.09
37 20 0.61
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTCCCTGATCAGATAAGTGTAGC
Found at i:8259068 original size:52 final size:52
Alignment explanation
Indices: 8259006--8259399 Score: 578
Period size: 52 Copynumber: 7.8 Consensus size: 52
8258996 CACTTTGTTT
** * *
8259006 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
* *
8259058 CTTGATCAGATAAGTGTAGCCGAAACTATCACTTATCAC--T----TTGTCT
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
* *
8259104 CTTGATCAGATAAGTATAGCCGAAGTTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
8259156 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
* * *
8259208 CTTGATCAGATAAGTGTAGCCGAAACTATCACTTTTCAC--T----TTGTCT
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
8259254 CTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
8259306 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
*
8259358 CTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTT
1 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
8259400 GTCACTTGAT
Statistics
Matches: 308, Mismatches: 22, Indels: 24
0.87 0.06 0.07
Matches are distributed among these distances:
46 82 0.27
48 2 0.01
50 2 0.01
52 222 0.72
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (52 bp):
CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCA
Found at i:8259118 original size:98 final size:98
Alignment explanation
Indices: 8258989--8259413 Score: 540
Period size: 98 Copynumber: 4.3 Consensus size: 98
8258979 TAAGTGTAGC
** * * *
8258989 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTCCACTT
*
8259054 GTCACTTGATCAGATAAGTGTAGCCGAAACTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * *
8259087 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGTTATCACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTCCACTT
*
8259152 GTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
8259185 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAA-CTATCACTTTTCAC--
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCC-AAAGCTATCACTTATCACTT
* *
8259247 T----TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
59 TCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
8259283 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT
8259348 CCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
60 CCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
8259387 CACCTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
8259414 AGTACTCAAA
Statistics
Matches: 291, Mismatches: 22, Indels: 28
0.85 0.06 0.08
Matches are distributed among these distances:
97 2 0.01
98 204 0.70
100 2 0.01
102 2 0.01
104 79 0.27
105 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:8259277 original size:150 final size:150
Alignment explanation
Indices: 8259006--8259413 Score: 735
Period size: 150 Copynumber: 2.7 Consensus size: 150
8258996 CACTTTGTTT
* * *
8259006 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTTTCACTTTTCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
*
8259071 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGTTATCAC
66 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
8259136 TTATCACTTTCCACTTGTCA
131 TTATCACTTTCCACTTGTCA
8259156 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
*
8259221 GTGTAGCCGAAACTATCACTTTTCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
66 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
8259286 TTATCACTTTCCACTTGTCA
131 TTATCACTTTCCACTTGTCA
*
8259306 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
1 CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
* * *
8259371 GTGTAGCCGAAGCTATCACCTATCACTTTGTCACTTGATCAGA
66 GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGA
8259414 AGTACTCAAA
Statistics
Matches: 248, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 248 1.00
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (150 bp):
CTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAA
GTGTAGCCGAAACTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCAC
TTATCACTTTCCACTTGTCA
Found at i:8263986 original size:20 final size:21
Alignment explanation
Indices: 8263961--8264003 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
8263951 ATATTTTAAA
* *
8263961 TTCTTTTTATTTTAT-TTTAT
1 TTCTTTTAATATTATATTTAT
8263981 TTCTTTTAATATTATATTTAT
1 TTCTTTTAATATTATATTTAT
8264002 TT
1 TT
8264004 AAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
TTCTTTTAATATTATATTTAT
Found at i:8270776 original size:17 final size:17
Alignment explanation
Indices: 8270751--8270834 Score: 89
Period size: 17 Copynumber: 4.8 Consensus size: 17
8270741 ATCCAAAAAC
8270751 AAATATATAAAAAATTCA
1 AAAT-TATAAAAAATTCA
*
8270769 AAATTATAAAAAATTAGA
1 AAATTATAAAAAATT-CA
*
8270787 AAATTATAAGAAAAAT-A
1 AAATTATAA-AAAATTCA
*
8270804 TAAATTCTAAAAAATTCA
1 -AAATTATAAAAAATTCA
*
8270822 AAACTATAAAAAA
1 AAATTATAAAAAA
8270835 AATAGTTAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
17 28 0.50
18 23 0.41
19 5 0.09
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (17 bp):
AAATTATAAAAAATTCA
Found at i:8270780 original size:18 final size:18
Alignment explanation
Indices: 8270754--8270835 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
8270744 CAAAAACAAA
8270754 TATATAAAAAATTCAAAAT
1 TATA-AAAAAATTCAAAAT
*
8270773 TAT-AAAAAATTAGAAAAT
1 TATAAAAAAATT-CAAAAT
8270791 TATAAGAAAAA-T-ATAAAT
1 TATAA-AAAAATTCA-AAAT
* *
8270809 TCT-AAAAAATTCAAAAC
1 TATAAAAAAATTCAAAAT
8270826 TATAAAAAAA
1 TATAAAAAAA
8270836 ATAGTTAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
16 5 0.10
17 16 0.31
18 21 0.40
19 5 0.10
20 5 0.10
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (18 bp):
TATAAAAAAATTCAAAAT
Found at i:8270836 original size:35 final size:36
Alignment explanation
Indices: 8270769--8270838 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
8270759 AAAAAATTCA
* * *
8270769 AAATTATAAAAAATTAGAAAATTATAAGAAAAATAT
1 AAATTATAAAAAATTACAAAACTATAAAAAAAATAT
*
8270805 AAATTCTAAAAAATT-CAAAACTATAAAAAAAATA
1 AAATTATAAAAAATTACAAAACTATAAAAAAAATA
8270839 GTTAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (36 bp):
AAATTATAAAAAATTACAAAACTATAAAAAAAATAT
Found at i:8271109 original size:31 final size:29
Alignment explanation
Indices: 8271074--8271153 Score: 71
Period size: 30 Copynumber: 2.8 Consensus size: 29
8271064 TAATAAAAGT
*
8271074 AAAATTACATTTTAACCTCCTTAAAAA-TATA
1 AAAATTA-A-TTTAACCT-ATTAAAAATTATA
*
8271105 AAAATTTAATTTAATCTATTAAAAATTATA
1 AAAA-TTAATTTAACCTATTAAAAATTATA
8271135 AAAA-T-A-TTAA-CTATTAAAA
1 AAAATTAATTTAACCTATTAAAA
8271154 TGGTAAACTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
25 9 0.20
26 4 0.09
27 1 0.02
28 1 0.02
29 7 0.16
30 15 0.33
31 5 0.11
32 3 0.07
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATTAATTTAACCTATTAAAAATTATA
Found at i:8271118 original size:30 final size:31
Alignment explanation
Indices: 8271084--8271144 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
8271074 AAAATTACAT
*
8271084 TTTAACCTCCTTAAAAA-TATAAAAAT-TTAA
1 TTTAACCT-ATTAAAAATTATAAAAATATTAA
*
8271114 TTTAATCTATTAAAAATTATAAAAATATTAA
1 TTTAACCTATTAAAAATTATAAAAATATTAA
8271145 CTATTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 7 0.26
30 16 0.59
31 4 0.15
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.39
Consensus pattern (31 bp):
TTTAACCTATTAAAAATTATAAAAATATTAA
Found at i:8271963 original size:28 final size:28
Alignment explanation
Indices: 8271909--8271963 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 28
8271899 GCGGAGATTG
* * * *
8271909 TTTTACATATAGATTTATATTTTTATAA
1 TTTTACAAATAGATATATATATATATAA
*
8271937 TTTTACAAATGGATATATATATATATA
1 TTTTACAAATAGATATATATATATATA
8271964 TAGATAGATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (28 bp):
TTTTACAAATAGATATATATATATATAA
Found at i:8271970 original size:4 final size:4
Alignment explanation
Indices: 8271963--8271988 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
8271953 ATATATATAT
8271963 ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG AT
8271989 TTTAACAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:8274788 original size:37 final size:37
Alignment explanation
Indices: 8274738--8274810 Score: 137
Period size: 37 Copynumber: 2.0 Consensus size: 37
8274728 ACCAATCCTA
8274738 GTGTCTAGCATTAGGATTCAACTACTGTTGACTTACT
1 GTGTCTAGCATTAGGATTCAACTACTGTTGACTTACT
*
8274775 GTGTCTAGCATTAGGATTCAACTATTGTTGACTTAC
1 GTGTCTAGCATTAGGATTCAACTACTGTTGACTTAC
8274811 CAATCCTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (37 bp):
GTGTCTAGCATTAGGATTCAACTACTGTTGACTTACT
Found at i:8281169 original size:133 final size:133
Alignment explanation
Indices: 8280931--8281186 Score: 374
Period size: 133 Copynumber: 1.9 Consensus size: 133
8280921 GAAATACCCT
* * * *
8280931 CGATGGGTAAAATTATCGAAATACCCTTAATGGGTAAAATTATCGAAATGCCCTTGATGGGTAAA
1 CGATGGGTAAAATTATCGAAATACCCTTAATGGGTAAAATTACCAAAATACCCTTGATGGATAAA
* **
8280996 GTTACTGAAATACCCTTGATGGGTAAAATTACTGAAATACCCTTGATGGGTAAAATTAACAAAAT
66 GTTACTGAAATACCCTTGATGGGTAAAATTACTAAAATACCCTCAATGGGTAAAATTAACAAAAT
8281061 ATC
131 ATC
* *
8281064 CGATGGGTAAAATTATTGAAATACCCTTGATGGGTAAAATTACCAAAATACCCTCT-ATGGATAG
1 CGATGGGTAAAATTATCGAAATACCCTTAATGGGTAAAATTACCAAAATACCCT-TGATGGATA-
*
8281128 AA-TTA-TCGAAATACCCTTGATGGGTAAAATTTCTAAAATACCCTCAATGGGTAAAATTA
64 AAGTTACT-GAAATACCCTTGATGGGTAAAATTACTAAAATACCCTCAATGGGTAAAATTA
8281187 CTGAAATACC
Statistics
Matches: 110, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
132 1 0.01
133 106 0.96
134 3 0.03
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.29
Consensus pattern (133 bp):
CGATGGGTAAAATTATCGAAATACCCTTAATGGGTAAAATTACCAAAATACCCTTGATGGATAAA
GTTACTGAAATACCCTTGATGGGTAAAATTACTAAAATACCCTCAATGGGTAAAATTAACAAAAT
ATC
Found at i:8281180 original size:160 final size:160
Alignment explanation
Indices: 8280911--8281198 Score: 452
Period size: 160 Copynumber: 1.8 Consensus size: 160
8280901 GCTTGGGCTA
* * *
8280911 TAAAATTACTGAAATACCCTCGATGGGTAAAATTATCGAAATACCCTTAATGGGTAAAATTATCG
1 TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTTAATGGATAAAATTATCG
* * * **
8280976 AAATGCCCTTGATGGGTAAAGTTACTGAAATACCCTTGATGGGTAAAATTACTGAAATACCCTTG
66 AAATACCCTTGATGGGTAAAATTACTAAAATACCCTCAATGGGTAAAATTACTGAAATACCCTTG
8281041 ATGGGTAAAATTAACAAAATATCCGATGGG
131 ATGGGTAAAATTAACAAAATATCCGATGGG
* * *
8281071 TAAAATTATTGAAATACCCTTGATGGGTAAAATTACCAAAATACCCTCT-ATGGATAGAATTATC
1 TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCT-TAATGGATAAAATTATC
*
8281135 GAAATACCCTTGATGGGTAAAATTTCTAAAATACCCTCAATGGGTAAAATTACTGAAATACCCT
65 GAAATACCCTTGATGGGTAAAATTACTAAAATACCCTCAATGGGTAAAATTACTGAAATACCCT
8281199 CGATAGAATA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
160 114 0.99
161 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (160 bp):
TAAAATTACTGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTTAATGGATAAAATTATCG
AAATACCCTTGATGGGTAAAATTACTAAAATACCCTCAATGGGTAAAATTACTGAAATACCCTTG
ATGGGTAAAATTAACAAAATATCCGATGGG
Found at i:8281199 original size:27 final size:27
Alignment explanation
Indices: 8280911--8281198 Score: 347
Period size: 27 Copynumber: 10.7 Consensus size: 27
8280901 GCTTGGGCTA
*
8280911 TAAAATTACTGAAATACCCTCGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
*
8280938 TAAAATTA-TCGAAATACCCTTAATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
*
8280965 TAAAATTA-TCGAAATGCCCTTGATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
*
8280992 TAAAGTTACTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
8281019 TAAAATTACTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
* *
8281046 TAAAATTAAC-AAAATATCC--GATGGG
1 TAAAATT-ACTGAAATACCCTTGATGGG
*
8281071 TAAAATTATTGAAATACCCTTGATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
** *
8281098 TAAAATTACCAAAATACCCTCT-ATGGA
1 TAAAATTACTGAAATACCCT-TGATGGG
*
8281125 TAGAATTA-TCGAAATACCCTTGATGGG
1 TAAAATTACT-GAAATACCCTTGATGGG
* * **
8281152 TAAAATTTCTAAAATACCCTCAATGGG
1 TAAAATTACTGAAATACCCTTGATGGG
8281179 TAAAATTACTGAAATACCCT
1 TAAAATTACTGAAATACCCT
8281199 CGATAGAATA
Statistics
Matches: 224, Mismatches: 27, Indels: 20
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.00
25 20 0.09
26 2 0.01
27 196 0.88
28 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTTGATGGG
Found at i:8281393 original size:27 final size:27
Alignment explanation
Indices: 8281328--8281430 Score: 102
Period size: 27 Copynumber: 3.8 Consensus size: 27
8281318 ATAGAGGAAG
* * *
8281328 TACTGTTTCTGGCGGCTCTGCCACACACA
1 TACTGTTACTGGCGGCTTTGCCACA-A-T
* *
8281357 TACTGATACTGGTGGCTTTGCCACAAT
1 TACTGTTACTGGCGGCTTTGCCACAAT
*
8281384 TACTGTTACTGGTGGCTTTGCCAC-AT
1 TACTGTTACTGGCGGCTTTGCCACAAT
*
8281410 ATACTG-TACTGGCAGCTTTGC
1 -TACTGTTACTGGCGGCTTTGC
8281431 TGCGTTATTA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
26 15 0.23
27 28 0.43
28 1 0.02
29 21 0.32
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.33
Consensus pattern (27 bp):
TACTGTTACTGGCGGCTTTGCCACAAT
Found at i:8289068 original size:16 final size:16
Alignment explanation
Indices: 8289037--8289082 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
8289027 TTTATTTAAT
*
8289037 TGAATTAAT-TTTAAA
1 TGAATTAATATTAAAA
*
8289052 TGTTATT-ATATTAAAA
1 TG-AATTAATATTAAAA
8289068 TGAATTAATATTAAA
1 TGAATTAATATTAAA
8289083 TTCTTAAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (16 bp):
TGAATTAATATTAAAA
Found at i:8289083 original size:15 final size:15
Alignment explanation
Indices: 8289032--8289083 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
8289022 AAGATTTTAT
* *
8289032 TTAATTGAATTAATT
1 TTAAATGAATTAATA
*
8289047 TTAAATGTTATT-ATA
1 TTAAATG-AATTAATA
8289062 TTAAAATGAATTAATA
1 TT-AAATGAATTAATA
8289078 TTAAAT
1 TTAAAT
8289084 TCTTAAGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 17 0.57
16 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (15 bp):
TTAAATGAATTAATA
Found at i:8289815 original size:14 final size:14
Alignment explanation
Indices: 8289791--8289824 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8289781 CTACTTATAT
*
8289791 TATTCAACATTTTA
1 TATTAAACATTTTA
*
8289805 TGTTAAACATTTTA
1 TATTAAACATTTTA
8289819 TATTAA
1 TATTAA
8289825 GTAAAAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (14 bp):
TATTAAACATTTTA
Found at i:8290300 original size:7 final size:7
Alignment explanation
Indices: 8290290--8290314 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
8290280 AAATTAGAAA
8290290 AAATAAT
1 AAATAAT
8290297 AAATAAT
1 AAATAAT
8290304 AAATAAT
1 AAATAAT
8290311 AAAT
1 AAAT
8290315 TTTAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:8290649 original size:28 final size:28
Alignment explanation
Indices: 8290617--8290682 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 28
8290607 ACATTTTGTG
8290617 TAATTTTTTATGACTT-TAAAAAATTTTA
1 TAATTTTTTAT-ACTTCTAAAAAATTTTA
* *
8290645 TAATTTTTTTATATTTCTATAAAATTTTA
1 TAA-TTTTTTATACTTCTAAAAAATTTTA
*
8290674 CAATTTTTT
1 TAATTTTTT
8290683 CTATATTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 12 0.36
29 21 0.64
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.59
Consensus pattern (28 bp):
TAATTTTTTATACTTCTAAAAAATTTTA
Found at i:8290981 original size:4 final size:4
Alignment explanation
Indices: 8290972--8290998 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
8290962 TGAAAATGAT
8290972 TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTT
8290999 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTC
Found at i:8292019 original size:22 final size:24
Alignment explanation
Indices: 8291994--8292039 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
8291984 AACACATTTA
*
8291994 GAGAATTTTTTG-TTT-AAGTTTT
1 GAGAATTATTTGTTTTCAAGTTTT
*
8292016 GAGAGTTATTTGTTTTCAAGTTTT
1 GAGAATTATTTGTTTTCAAGTTTT
8292040 CGGGGTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 3 0.15
24 7 0.35
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.57
Consensus pattern (24 bp):
GAGAATTATTTGTTTTCAAGTTTT
Found at i:8294792 original size:45 final size:44
Alignment explanation
Indices: 8294728--8294878 Score: 144
Period size: 45 Copynumber: 3.4 Consensus size: 44
8294718 TACCAATGGT
* * *
8294728 TGTGGAAACACAAC-AAAATCTCGCAAATAGAATATGCTTATAGC
1 TGTGGATACACAGCAAAAATCTCGCAGATAGAATATGCTT-TAGC
* * * *
8294772 TGTGGATACATAGTAAAAATCTTGCAGATAAAATTTAT-CTTTAGC
1 TGTGGATACACAGCAAAAATCTCGCAGATAGAA--TATGCTTTAGC
* * * *
8294817 TGTGAATACACAGCAAAAATCTCGCAGATAGAATCTGCCTCTGGC
1 TGTGGATACACAGCAAAAATCTCGCAGATAGAATATG-CTTTAGC
*
8294862 TGTGGATACACAACAAA
1 TGTGGATACACAGCAAA
8294879 TTTGCAAATA
Statistics
Matches: 85, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
43 2 0.02
44 10 0.12
45 67 0.79
46 3 0.04
47 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (44 bp):
TGTGGATACACAGCAAAAATCTCGCAGATAGAATATGCTTTAGC
Found at i:8295023 original size:34 final size:33
Alignment explanation
Indices: 8294985--8295083 Score: 119
Period size: 34 Copynumber: 2.9 Consensus size: 33
8294975 GTAATATGAT
*
8294985 ATGCTTATAACAGATCAATACAGTAACAATTAAA
1 ATGCTTATAATAGATCAATAC-GTAACAATTAAA
*
8295019 ATGCTTATAATAGATCAATACGATAGA-AATTAAT
1 ATGCTTATAATAGATCAATACG-TA-ACAATTAAA
* *
8295053 ATGCTTATGATAGATCAATACGGTAGCAATT
1 ATGCTTATAATAGATCAATAC-GTAACAATT
8295084 TGTAACTTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
33 1 0.02
34 54 0.95
35 2 0.04
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.30
Consensus pattern (33 bp):
ATGCTTATAATAGATCAATACGTAACAATTAAA
Found at i:8299631 original size:22 final size:22
Alignment explanation
Indices: 8299600--8299645 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
8299590 ATAAAATATA
8299600 TAAAAATATT-TTTTATTAATT
1 TAAAAATATTATTTTATTAATT
*
8299621 TAAAAAGTATTATTTTATTATTT
1 TAAAAA-TATTATTTTATTAATT
8299644 TA
1 TA
8299646 TATATTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.27
22 4 0.18
23 12 0.55
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TAAAAATATTATTTTATTAATT
Found at i:8299948 original size:16 final size:17
Alignment explanation
Indices: 8299927--8299959 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
8299917 CAATATAAGT
8299927 TTTTAAAATA-ATTTTA
1 TTTTAAAATATATTTTA
*
8299943 TTTTAAATTATATTTTA
1 TTTTAAAATATATTTTA
8299960 ATTCATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAAAATATATTTTA
Found at i:8301352 original size:18 final size:18
Alignment explanation
Indices: 8301301--8301359 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
8301291 TTATAAATTT
**
8301301 TTTTAATTTTA-AATAGT
1 TTTTAATTTTATAATAAA
8301318 TTTTATGATTTT-T-ATAAA
1 TTTTA--ATTTTATAATAAA
8301336 TTTTAATTTTATAAT-AA
1 TTTTAATTTTATAATAAA
8301353 TTTTAAT
1 TTTTAAT
8301360 ATTTTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
16 5 0.14
17 15 0.43
18 10 0.29
19 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAATTTTATAATAAA
Found at i:8301356 original size:26 final size:25
Alignment explanation
Indices: 8301327--8301395 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 25
8301317 TTTTTATGAT
* *
8301327 TTTTATAAATTTTAATTTTATAATAA
1 TTTTATAATTTTTAATGTT-TAATAA
* *
8301353 TTTTAATATTTTTTAATGTTTAATAT
1 TTTT-ATAATTTTTAATGTTTAATAA
*
8301379 TTTTATGATTTTTAATG
1 TTTTATAATTTTTAATG
8301396 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
25 11 0.31
26 13 0.36
27 12 0.33
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (25 bp):
TTTTATAATTTTTAATGTTTAATAA
Found at i:8301369 original size:19 final size:17
Alignment explanation
Indices: 8301350--8301382 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8301340 AATTTTATAA
8301350 TAAT-TTTAATATTTTT
1 TAATGTTTAATATTTTT
8301366 TAATGTTTAATATTTTT
1 TAATGTTTAATATTTTT
8301383 ATGATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TAATGTTTAATATTTTT
Found at i:8301406 original size:22 final size:21
Alignment explanation
Indices: 8301378--8301426 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
8301368 ATGTTTAATA
*
8301378 TTTTTATGA-TTTTTAATGAATT
1 TTTTTATAAGTTTTTAA-G-ATT
8301400 TTTTTATAAGTTTTTAAGATT
1 TTTTTATAAGTTTTTAAGATT
8301421 TTTTTA
1 TTTTTA
8301427 CATTATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 9 0.36
22 9 0.36
23 7 0.28
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (21 bp):
TTTTTATAAGTTTTTAAGATT
Found at i:8301460 original size:19 final size:18
Alignment explanation
Indices: 8301438--8301567 Score: 65
Period size: 19 Copynumber: 6.9 Consensus size: 18
8301428 ATTATTATAA
8301438 AATTTTAAATATTTTTATT
1 AATTTT-AATATTTTTATT
* *
8301457 AATTTT-ATAATTGATT-TG
1 AATTTTAAT-ATT-TTTATT
8301475 AATTATT-ATATTTTTA-T
1 AATT-TTAATATTTTTATT
* *
8301492 AATATTT-ATAAGTTTATATC
1 AAT-TTTAAT-A-TTTTTATT
8301512 AATTTTAATATTTTT-TT
1 AATTTTAATATTTTTATT
*
8301529 AAATATTTAATAATTTTTATG
1 -AAT-TTTAAT-ATTTTTATT
*
8301550 ATTTTTTAATATTTTTAT
1 A-ATTTTAATATTTTTAT
8301568 GAGATAATAT
Statistics
Matches: 87, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
17 12 0.14
18 20 0.23
19 35 0.40
20 18 0.21
21 2 0.02
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (18 bp):
AATTTTAATATTTTTATT
Found at i:8301544 original size:20 final size:20
Alignment explanation
Indices: 8301485--8301546 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
8301475 AATTATTATA
8301485 TTTTTATAATATTT-ATAAGTT
1 TTTTTA-AATATTTAATAA-TT
* * *
8301506 TATATCAAT-TTTAAT-ATT
1 TTTTTAAATATTTAATAATT
8301524 TTTTTAAATATTTAATAATT
1 TTTTTAAATATTTAATAATT
8301544 TTT
1 TTT
8301547 ATGATTTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 7
0.71 0.13 0.16
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 11 0.34
21 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTTTAAATATTTAATAATT
Found at i:8306218 original size:21 final size:21
Alignment explanation
Indices: 8306192--8306232 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8306182 AGACGAGCAA
* *
8306192 TACTCCATAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
8306213 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
8306233 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:8311477 original size:23 final size:23
Alignment explanation
Indices: 8311451--8311497 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
8311441 GAAGTGGACG
8311451 GTTTGT-GGAGAGATAGTAGGAGA
1 GTTTGTAGGAGAGA-AGTAGGAGA
* *
8311474 GTTTTTAGGAGAGAATTAGGAGA
1 GTTTGTAGGAGAGAAGTAGGAGA
8311497 G
1 G
8311498 GTTAGGGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (23 bp):
GTTTGTAGGAGAGAAGTAGGAGA
Found at i:8313737 original size:15 final size:14
Alignment explanation
Indices: 8313705--8313739 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
8313695 TGCATGTGGG
*
8313705 TTTTTAAGACGTGA
1 TTTTTAAGAAGTGA
*
8313719 TTTTTAAGAATTGA
1 TTTTTAAGAAGTGA
8313733 TTTTTAA
1 TTTTTAA
8313740 ATATTTTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.51
Consensus pattern (14 bp):
TTTTTAAGAAGTGA
Found at i:8313868 original size:25 final size:25
Alignment explanation
Indices: 8313840--8313891 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8313830 CTGTTTTTGA
*
8313840 TAGTATAT-CTTGAAACTGCTATAGG
1 TAGTATATAC-TGAAACTACTATAGG
*
8313865 TAGTATATACTGAGACTACTATAGG
1 TAGTATATACTGAAACTACTATAGG
8313890 TA
1 TA
8313892 AACTGTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:8328850 original size:23 final size:23
Alignment explanation
Indices: 8328823--8328870 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8328813 AAACTATACT
8328823 AAAAATAAGAAAGT-AAATAAACA
1 AAAAATAAGAAA-TCAAATAAACA
* *
8328846 AAAAATGAGAAATCAAATAATCA
1 AAAAATAAGAAATCAAATAAACA
8328869 AA
1 AA
8328871 TATGTATCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.71, C:0.06, G:0.08, T:0.15
Consensus pattern (23 bp):
AAAAATAAGAAATCAAATAAACA
Found at i:8339231 original size:25 final size:25
Alignment explanation
Indices: 8339183--8339251 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
8339173 TCAGTATAGT
* * * *
8339183 CTATCTATAGTAGTCTAAGTATATA
1 CTATCTATAGCAGTTTCAGGATATA
8339208 CTATCTATAGCAGTTTCAGGATATA
1 CTATCTATAGCAGTTTCAGGATATA
*
8339233 CTATC-AAAGACAGTTTCAG
1 CTATCTATAG-CAGTTTCAG
8339252 ATTCAGTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 3 0.08
25 35 0.92
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (25 bp):
CTATCTATAGCAGTTTCAGGATATA
Found at i:8340554 original size:17 final size:18
Alignment explanation
Indices: 8340522--8340556 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
8340512 CCATGATGTT
*
8340522 CGCCCGTGTGGGCCCACA
1 CGCCCATGTGGGCCCACA
8340540 CGCCCATGT-GGCCCACA
1 CGCCCATGTGGGCCCACA
8340557 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (18 bp):
CGCCCATGTGGGCCCACA
Found at i:8342138 original size:22 final size:22
Alignment explanation
Indices: 8342113--8342162 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
8342103 TCAATTATTT
8342113 TCTCAATTTCC-TCTTAAATTGC
1 TCTCAATTTCCTTC-TAAATTGC
*
8342135 TCTCAATTTCCTTCTAAATTTC
1 TCTCAATTTCCTTCTAAATTGC
8342157 TCTCAA
1 TCTCAA
8342163 ATCCCTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.24, C:0.28, G:0.02, T:0.46
Consensus pattern (22 bp):
TCTCAATTTCCTTCTAAATTGC
Found at i:8343932 original size:18 final size:18
Alignment explanation
Indices: 8343909--8343949 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8343899 TTTTCAGATG
* *
8343909 ATCCTAGCCCTTTTATGT
1 ATCCTAACCCTTATATGT
8343927 ATCCTAACCCTTATATGT
1 ATCCTAACCCTTATATGT
*
8343945 TTCCT
1 ATCCT
8343950 TTTTCTAGTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.07, T:0.44
Consensus pattern (18 bp):
ATCCTAACCCTTATATGT
Found at i:8344236 original size:21 final size:22
Alignment explanation
Indices: 8344190--8344237 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
8344180 CCAACACCGA
8344190 CAACCAGATCCCCTACCAGATG
1 CAACCAGATCCCCTACCAGATG
*
8344212 -AACCAGAATCCCC-ACCGGA-G
1 CAACCAG-ATCCCCTACCAGATG
8344232 CAACCA
1 CAACCA
8344238 CAACCCCCGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 16 0.70
22 6 0.26
ACGTcount: A:0.35, C:0.42, G:0.15, T:0.08
Consensus pattern (22 bp):
CAACCAGATCCCCTACCAGATG
Found at i:8344424 original size:49 final size:49
Alignment explanation
Indices: 8344370--8344466 Score: 185
Period size: 49 Copynumber: 2.0 Consensus size: 49
8344360 GTTTATATTA
8344370 ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
8344419 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTT
1 ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTT
8344467 CTAGTTTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.42, C:0.01, G:0.09, T:0.47
Consensus pattern (49 bp):
ATGTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:8344473 original size:31 final size:31
Alignment explanation
Indices: 8344437--8344498 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
8344427 AAATACAAAA
8344437 TAGTTTATTTTGAATATTTTGATATTATTTC
1 TAGTTTATTTTGAATATTTTGATATTATTTC
8344468 TAGTTTATTTTGAATATTTTGATATTATTTC
1 TAGTTTATTTTGAATATTTTGATATTATTTC
8344499 ATTTAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (31 bp):
TAGTTTATTTTGAATATTTTGATATTATTTC
Found at i:8344484 original size:80 final size:80
Alignment explanation
Indices: 8344388--8344547 Score: 293
Period size: 80 Copynumber: 2.0 Consensus size: 80
8344378 AAATAAAAAA
* *
8344388 TAGTTTATTTTGAATATTTTGATATTATTTGATGTAATAAAATACAAAATAGTTTATTTTGAATA
1 TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
8344453 TTTTGATATTATTTC
66 TTTTGATATTATTTC
*
8344468 TAGTTTATTTTGAATATTTTGATATTATTTCATTTAATAAAATAAAAAATAGTTTATTTTGAATA
1 TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
8344533 TTTTGATATTATTTC
66 TTTTGATATTATTTC
8344548 ATTTAATAAA
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 77 1.00
ACGTcount: A:0.36, C:0.03, G:0.09, T:0.53
Consensus pattern (80 bp):
TAGTTTATTTTGAATATTTTGATATTATTTCATGTAATAAAATAAAAAATAGTTTATTTTGAATA
TTTTGATATTATTTC
Found at i:8348044 original size:124 final size:125
Alignment explanation
Indices: 8347782--8348064 Score: 478
Period size: 124 Copynumber: 2.3 Consensus size: 125
8347772 AACATGCTAG
*
8347782 TGTAGCAAAAGCTCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
* * * *
8347847 AGCGTTTTTTATACTATTTTCTTAGAAACGTCAACTCGAAATTATTTTTTCAGGACCTAC
66 AGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
* * *
8347907 TGTAGCAAAAGCGCGTCCACGTGTGAGCGATTTTAGAAATTCTTTTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
8347972 AGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
66 AGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
*
8348031 TGTAGCAAAAGCGCGTTCACGTGGGAGCGATTTC
1 TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
8348065 CTTAATAAAA
Statistics
Matches: 147, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 82 0.56
125 65 0.44
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGCTTGA
AGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGACCTAC
Found at i:8350412 original size:38 final size:38
Alignment explanation
Indices: 8350361--8350438 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
8350351 TTTGAAAAAG
8350361 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
1 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
8350399 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
1 AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
8350437 AA
1 AA
8350439 GGAATTGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.38, C:0.05, G:0.23, T:0.33
Consensus pattern (38 bp):
AAATTGTAAATTGTGAGTGGTAACAAGCTGGAAATTTT
Found at i:8351495 original size:160 final size:160
Alignment explanation
Indices: 8351312--8351627 Score: 596
Period size: 160 Copynumber: 2.0 Consensus size: 160
8351302 CTAAGTCTTG
*
8351312 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTTAAACCATAAATGTACCAT
1 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAATGTACCAT
8351377 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
66 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
8351442 AAATTAGAACCAATTTATGTTTCCCTAAAA
131 AAATTAGAACCAATTTATGTTTCCCTAAAA
* *
8351472 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATATGTCAAACCATAAGTGTACCAT
1 GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAATGTACCAT
*
8351537 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATGACAGATAAGC
66 CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
8351602 AAATTAGAACCAATTTATGTTTCCCT
131 AAATTAGAACCAATTTATGTTTCCCT
8351628 CCCCCTACTT
Statistics
Matches: 152, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
160 152 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (160 bp):
GTTATTGAAAAGTTTCATGTGTAAAGAATTAAATAGCTAAATAGGTCAAACCATAAATGTACCAT
CCCAATTTAAAAGAAAAATTTTACCTTTTACCAAAAACATGCAAAAATAGCGATAACAGATAAGC
AAATTAGAACCAATTTATGTTTCCCTAAAA
Found at i:8357639 original size:24 final size:24
Alignment explanation
Indices: 8357607--8357654 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8357597 AATTAAACAA
8357607 AATTAAAACAAAACCC-CTAGCCC
1 AATTAAAACAAAACCCACTAGCCC
**
8357630 AATTACAAACCTAACCCACTAGCCC
1 AATTA-AAACAAAACCCACTAGCCC
8357655 GATAAGCCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.44, C:0.38, G:0.04, T:0.15
Consensus pattern (24 bp):
AATTAAAACAAAACCCACTAGCCC
Found at i:8358885 original size:3 final size:3
Alignment explanation
Indices: 8358864--8358934 Score: 65
Period size: 3 Copynumber: 24.0 Consensus size: 3
8358854 TTATTTATCA
* * * *
8358864 TAT TAT TAC TAC TAC TAT TAT TAT TAT TAG TAT TA- TATT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* *
8358909 TAT TAC T-T TAT TAT TAT TAT AAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
8358935 CTACTCATTC
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
2 3 0.05
3 52 0.91
4 2 0.04
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:8358933 original size:23 final size:24
Alignment explanation
Indices: 8358894--8358939 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
8358884 TTATTATTAG
*
8358894 TATTATATTTATTATTAT-TACTT
1 TATTATATTTATAATTATCTACTT
8358917 TATTAT-TATTATAATTATCTACT
1 TATTATAT-TTATAATTATCTACT
8358940 CATTCATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 15 0.75
24 4 0.20
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.61
Consensus pattern (24 bp):
TATTATATTTATAATTATCTACTT
Found at i:8359361 original size:12 final size:12
Alignment explanation
Indices: 8359344--8359382 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
8359334 TTTTATACTT
8359344 TATATATATACA
1 TATATATATACA
8359356 TATATATATACA
1 TATATATATACA
** *
8359368 CCTATATATGCA
1 TATATATATACA
8359380 TAT
1 TAT
8359383 TTGTTTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (12 bp):
TATATATATACA
Found at i:8359403 original size:55 final size:55
Alignment explanation
Indices: 8359315--8359419 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
8359305 TACATATCCT
* *
8359315 TATATATGCATACTTATTTTTTTATACTTTATATATATACATAT-ATATATACACC
1 TATATATGCATACTTATTTTTTTATACTGTATATACATACAT-TCATATATACACC
* * *
8359370 TATATATGCATATTTGTTTTTTTTTTA-TGTATATACATACATTCATATAT
1 TATATATGCATACTT-ATTTTTTTATACTGTATATACATACATTCATATAT
8359420 TTTATAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 33 0.77
56 9 0.21
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (55 bp):
TATATATGCATACTTATTTTTTTATACTGTATATACATACATTCATATATACACC
Found at i:8361635 original size:21 final size:20
Alignment explanation
Indices: 8361602--8361645 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
8361592 GCACTCGTTG
8361602 AAAGACTAAGAAAATGGACC
1 AAAGACTAAGAAAATGGACC
* * *
8361622 AAAGATTAGAGAAACTGGAGC
1 AAAGACTA-AGAAAATGGACC
8361643 AAA
1 AAA
8361646 TGCAAAAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.55, C:0.11, G:0.23, T:0.11
Consensus pattern (20 bp):
AAAGACTAAGAAAATGGACC
Found at i:8364192 original size:36 final size:35
Alignment explanation
Indices: 8364138--8364221 Score: 96
Period size: 36 Copynumber: 2.3 Consensus size: 35
8364128 CCCAATCCTA
** *
8364138 AAAAAAAAAAGAAAAATCAAAGTCAAAAGCAAAAGC
1 AAAAAAAAAA-ATCAATCAAAATCAAAAGCAAAAGC
* *
8364174 AAAAAAGAAAAATCAATCAAAATCAAAATCAAAATC
1 AAAAAA-AAAAATCAATCAAAATCAAAAGCAAAAGC
*
8364210 AAAATAAAAAAT
1 AAAAAAAAAAAT
8364222 GAGAAAAAGA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 6 0.15
36 31 0.76
37 4 0.10
ACGTcount: A:0.73, C:0.11, G:0.06, T:0.11
Consensus pattern (35 bp):
AAAAAAAAAAATCAATCAAAATCAAAAGCAAAAGC
Found at i:8364219 original size:6 final size:6
Alignment explanation
Indices: 8364188--8364218 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
8364178 AAGAAAAATC
8364188 AATCAA AATCAA AATCAA AATCAA AAT-AA AA
1 AATCAA AATCAA AATCAA AATCAA AATCAA AA
8364219 AATGAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (6 bp):
AATCAA
Found at i:8364219 original size:18 final size:16
Alignment explanation
Indices: 8364176--8364219 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
8364166 GCAAAAGCAA
*
8364176 AAAAGAAAAATCAATC
1 AAAATAAAAATCAATC
*
8364192 AAAATCAAAATCAAAATC
1 AAAATAAAAATC--AATC
8364210 AAAATAAAAA
1 AAAATAAAAA
8364220 ATGAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 10 0.43
18 13 0.57
ACGTcount: A:0.73, C:0.11, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATCAATC
Found at i:8364600 original size:7 final size:7
Alignment explanation
Indices: 8364588--8364628 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
8364578 TGGATTTCAA
8364588 AAAAATG
1 AAAAATG
8364595 AAAAATG
1 AAAAATG
*
8364602 -AGAATG
1 AAAAATG
8364608 AAAAATG
1 AAAAATG
8364615 AAAAATG
1 AAAAATG
8364622 AAAAATG
1 AAAAATG
8364629 GAGAAGCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:8364609 original size:13 final size:13
Alignment explanation
Indices: 8364591--8364633 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
8364581 ATTTCAAAAA
8364591 AATGAAAAATGAG
1 AATGAAAAATGAG
*
8364604 AATGAAAAATGAAA
1 AATGAAAAATG-AG
8364618 AATGAAAAATGGAG
1 AATGAAAAAT-GAG
8364632 AA
1 AA
8364634 GCTAAGGGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 11 0.42
14 14 0.54
15 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (13 bp):
AATGAAAAATGAG
Found at i:8365998 original size:87 final size:87
Alignment explanation
Indices: 8365849--8366330 Score: 730
Period size: 87 Copynumber: 5.5 Consensus size: 87
8365839 AGATCAGTGA
** *
8365849 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAAAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
8365914 CTTCCTGCATTGATAGCGAAGC
66 CTTCCTGCGTTAATAGCGAAGC
* * * *
8365936 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTCCAGTGGAGCTGGTTGAAGATAGCAAATCTTAC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
8366001 CTTCCTGCGTTAATAGCGAAGC
66 CTTCCTGCGTTAATAGCGAAGC
* *
8366023 AGATCGAAAATAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* * *
8366088 CTTTCTGCGTTAACAGCGAAGT
66 CTTCCTGCGTTAATAGCGAAGC
8366110 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
*
8366175 CTTCCTGCATTAATAGCGAAGC
66 CTTCCTGCGTTAATAGCGAAGC
**
8366197 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTATAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
* *
8366262 CTTCTTGCGTTAACAGCGAAGC
66 CTTCCTGCGTTAATAGCGAAGC
* * ** * * *
8366284 AGATCAAAAATAAAATCTTGCCTCCATCGATTACAGTGGAGCGGGTT
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTT
8366331 AAAATAAAAG
Statistics
Matches: 359, Mismatches: 36, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 359 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
CTTCCTGCGTTAATAGCGAAGC
Found at i:8366323 original size:261 final size:261
Alignment explanation
Indices: 8365849--8366333 Score: 817
Period size: 261 Copynumber: 1.9 Consensus size: 261
8365839 AGATCAGTGA
8365849 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAAAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAAAGCTGGTTAAAGATAGCAGATCTTGC
* *
8365914 CTTCCTGCATTGATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTCCAGTGGAGCT
66 CTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTACAGTGGAGCT
* * *
8365979 GGTTGAAGATAGCAAATCTTACCTTCCTGCGTTAATAGCGAAGCAGATCGAAAATAAAGCCTTGC
131 GGTTGAAGATAGCAAATCTTACCTTCCTGCGTTAACAGCGAAGCAGATCAAAAATAAAACCTTGC
* * *
8366044 CTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTTCTGCGTTAACAGCGAAG
196 CTCCATCGATTACAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTTCTGCGTTAACAGCGAAG
8366109 T
261 T
** *
8366110 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTGAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAAAGCTGGTTAAAGATAGCAGATCTTGC
* *
8366175 CTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCGGTTATAGTGGAGCT
66 CTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTACAGTGGAGCT
* * * *
8366240 GGTTGAAGATAGCAGATCTTGCCTTCTTGCGTTAACAGCGAAGCAGATCAAAAATAAAATCTTGC
131 GGTTGAAGATAGCAAATCTTACCTTCCTGCGTTAACAGCGAAGCAGATCAAAAATAAAACCTTGC
8366305 CTCCATCGATTACAGTGGAGCGGGTTAAA
196 CTCCATCGATTACAGTGGAGCGGGTTAAA
8366334 ATAAAAGATC
Statistics
Matches: 207, Mismatches: 17, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
261 207 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.25
Consensus pattern (261 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTAAAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAATAGCGAAGCAGATCGAAAACAAAGCCTTGCCTCCATCAGTTACAGTGGAGCT
GGTTGAAGATAGCAAATCTTACCTTCCTGCGTTAACAGCGAAGCAGATCAAAAATAAAACCTTGC
CTCCATCGATTACAGTGGAGCGGGTTAAAGATAGCAGATCTTGCCTTTCTGCGTTAACAGCGAAG
T
Found at i:8366447 original size:44 final size:44
Alignment explanation
Indices: 8366379--8366466 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
8366369 TAGATCGCAT
*
8366379 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
* * *
8366423 CAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAG
1 CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
8366467 TGGATTAAAG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (44 bp):
CAGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAG
Found at i:8366491 original size:44 final size:44
Alignment explanation
Indices: 8366394--8366515 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
8366384 TGAAGCCAGA
* * *
8366394 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCTAAT
* **
8366438 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAG-TAAT
1 AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCTAAT
* **
8366481 AGATCTTATCTCTCTGA-AGTTACAGTAAAGCAGAT
1 A-ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
8366516 CACATCGAGT
Statistics
Matches: 64, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
43 5 0.08
44 59 0.92
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAGCTAAT
Found at i:8366619 original size:44 final size:43
Alignment explanation
Indices: 8366571--8366771 Score: 142
Period size: 44 Copynumber: 4.7 Consensus size: 43
8366561 AAATCAACCC
* * *
8366571 TATCTCCCTAAAGTTATAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACC-CAGATCT
* * * * * * *
8366615 TATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACATCGAG-TCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCCAGATCT
* * * * *
8366656 TATCTCCCT-AAG-CAGTAGTGGAGCAGATAGAAGAAACCA-ATCC
1 TATCTCCCTGAAGTTA-CAGTGGAGCAGAT-TAA-AACCCAGATCT
* *
8366699 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACC-CAGATCT
* * *
8366743 TATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 TATCTCCCTGAAGTTACAGTGGAGCAGAT
8366772 CGCATCAAGT
Statistics
Matches: 117, Mismatches: 31, Indels: 18
0.70 0.19 0.11
Matches are distributed among these distances:
40 13 0.11
41 11 0.09
42 6 0.05
43 22 0.19
44 65 0.56
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.26
Consensus pattern (43 bp):
TATCTCCCTGAAGTTACAGTGGAGCAGATTAAAACCCAGATCT
Found at i:8366647 original size:128 final size:127
Alignment explanation
Indices: 8366438--8366850 Score: 612
Period size: 128 Copynumber: 3.2 Consensus size: 127
8366428 TGAAGCTAGT
* * *** * *
8366438 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAGTAATAGATCTTATCTCTCTGAAGTTA
1 AATCCTATCTCCCTAAG-TTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
*
8366503 CAGTAAAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
65 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
* *
8366566 AACCCTATCTCCCTAAAGTTATAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCT-AAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* *
8366631 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGAAACC
65 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
*
8366694 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCT-AAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTG
* * *
8366759 CAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGAC-GAAAGAAATA
65 CAGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAG-AAGAAATC
* *
8366822 AATCCTATCTCCCCGAAGTTGCAGTGGAG
1 AATCCTATCT-CCCTAAGTTACAGTGGAG
8366851 TGTATAAAAA
Statistics
Matches: 260, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
127 1 0.00
128 254 0.98
129 5 0.02
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (127 bp):
AATCCTATCTCCCTAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATCACATCGAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGACAGAAGAAATC
Found at i:8368906 original size:19 final size:19
Alignment explanation
Indices: 8368858--8368909 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
8368848 AATCTTTAGG
8368858 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
8368877 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
8368896 GATATGCAATCTTA
1 GATATGCAATCTTA
8368910 AAAGATATGA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:8369468 original size:34 final size:34
Alignment explanation
Indices: 8369428--8369496 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
8369418 TTACAGTTCA
* *
8369428 AATTAGTCTTTT-TTCATTTTCTTTATTTTTTATT
1 AATTAGTCTTTTATTC-TTTTCTTTATATTTAATT
* *
8369462 AATTAGTTTTTTATTCTTTTTTTTATATTTAATT
1 AATTAGTCTTTTATTCTTTTCTTTATATTTAATT
8369496 A
1 A
8369497 TTTTAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 27 0.90
35 3 0.10
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.70
Consensus pattern (34 bp):
AATTAGTCTTTTATTCTTTTCTTTATATTTAATT
Found at i:8369533 original size:21 final size:21
Alignment explanation
Indices: 8369508--8369548 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8369498 TTTAAAAAAT
*
8369508 ATATATGCATATATATTTTTC
1 ATATACGCATATATATTTTTC
*
8369529 ATATACGCATATTTATTTTT
1 ATATACGCATATATATTTTT
8369549 TGTAGTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.32, C:0.10, G:0.05, T:0.54
Consensus pattern (21 bp):
ATATACGCATATATATTTTTC
Found at i:8369586 original size:25 final size:25
Alignment explanation
Indices: 8369558--8369637 Score: 70
Period size: 27 Copynumber: 3.1 Consensus size: 25
8369548 TTGTAGTATA
* * *
8369558 ATATAATTATTTTTTTTATTTATTT
1 ATATAATTATTTTTTATATATATGT
*
8369583 ATATGTAATTATTTTTTATCTATATGT
1 ATA--TAATTATTTTTTATATATATGT
* * *
8369610 ATATATTTATTTTAGTATACATATGT
1 ATATAATTATTTT-TTATATATATGT
8369636 AT
1 AT
8369638 GTACACATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
25 12 0.27
26 11 0.25
27 21 0.48
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (25 bp):
ATATAATTATTTTTTATATATATGT
Found at i:8370999 original size:20 final size:20
Alignment explanation
Indices: 8370954--8370991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8370944 ATATAATTTA
*
8370954 TATATATGCGTACATATTCT
1 TATATATGCATACATATTCT
*
8370974 TATATATGCATACTTATT
1 TATATATGCATACATATT
8370992 TTTTTATACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (20 bp):
TATATATGCATACATATTCT
Found at i:8371024 original size:16 final size:16
Alignment explanation
Indices: 8371003--8371039 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
8370993 TTTTATACTT
*
8371003 TATATATATACACGTA
1 TATATATATACACCTA
8371019 TATATATATACACCTA
1 TATATATATACACCTA
8371035 TATAT
1 TATAT
8371040 GCATATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.41
Consensus pattern (16 bp):
TATATATATACACCTA
Found at i:8378766 original size:3 final size:3
Alignment explanation
Indices: 8378758--8378788 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8378748 ATTTTTTAGC
*
8378758 TTA TTA TTA TTA ATA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
8378789 GTATATCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8378914 original size:12 final size:12
Alignment explanation
Indices: 8378897--8378930 Score: 54
Period size: 10 Copynumber: 3.0 Consensus size: 12
8378887 ATATTTTATA
8378897 ATCTATATACAT
1 ATCTATATACAT
8378909 ATC--TATACAT
1 ATCTATATACAT
8378919 ATCTATATACAT
1 ATCTATATACAT
8378931 TTTTTACTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (12 bp):
ATCTATATACAT
Found at i:8388656 original size:18 final size:18
Alignment explanation
Indices: 8388551--8388656 Score: 62
Period size: 18 Copynumber: 6.1 Consensus size: 18
8388541 ATATTTTGAA
* *
8388551 AAATATATAAAAAT-TAT
1 AAATGTATAAATATATAT
*
8388568 -AATGTATATAAT-TAATAA
1 AAATGTATA-AATAT-ATAT
* * * *
8388586 AAATTTACAAATTTATAA
1 AAATGTATAAATATATAT
8388604 AAATGTATAAATATATA-
1 AAATGTATAAATATATAT
* *
8388621 AAA-GAATAAA-AAATTAT
1 AAATGTATAAATATA-TAT
8388638 AAATGTATAAATATATAT
1 AAATGTATAAATATATAT
8388656 A
1 A
8388657 TAATAACTAA
Statistics
Matches: 68, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
15 2 0.03
16 16 0.24
17 8 0.12
18 33 0.49
19 9 0.13
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATGTATAAATATATAT
Found at i:8390414 original size:30 final size:31
Alignment explanation
Indices: 8390372--8390432 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
8390362 GGGTTGGGAG
* * *
8390372 GGGAAGGGAGTAAAGGTTTTGGGGGGAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
8390403 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
8390433 ACAAAAGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.46, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:8390504 original size:18 final size:19
Alignment explanation
Indices: 8390481--8390517 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
8390471 TATAGTTTGA
8390481 TATTCGAATTATTC-AATT
1 TATTCGAATTATTCGAATT
*
8390499 TATTCGAGTTATTCGAATT
1 TATTCGAATTATTCGAATT
8390518 CGAAAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (19 bp):
TATTCGAATTATTCGAATT
Found at i:8390589 original size:9 final size:9
Alignment explanation
Indices: 8390572--8390602 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
8390562 TCGAGTTGAT
8390572 TCGAATAAC
1 TCGAATAAC
*
8390581 TCGATTAAC
1 TCGAATAAC
8390590 TCGAATAAC
1 TCGAATAAC
8390599 TCGA
1 TCGA
8390603 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:8391082 original size:14 final size:15
Alignment explanation
Indices: 8391046--8391089 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
8391036 GTTTTGTATA
*
8391046 TATTTTTACATTAATT
1 TATTTTTA-ATTATTT
*
8391062 TATTTTTATTTATTT
1 TATTTTTAATTATTT
8391077 TA-TTTTAATTATT
1 TATTTTTAATTATT
8391090 GTTTTATACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.40
15 7 0.28
16 8 0.32
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTTTAATTATTT
Found at i:8393954 original size:41 final size:41
Alignment explanation
Indices: 8393904--8394079 Score: 271
Period size: 41 Copynumber: 4.3 Consensus size: 41
8393894 AATTCATCAT
* *
8393904 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
8393945 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
8393986 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* * *
8394027 ATTTAGATCACCGGCACTTAGCCTACTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
8394068 ATTCATATCACC
1 ATTCAGATCACC
8394080 AATTCCAAAC
Statistics
Matches: 122, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 122 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:8394047 original size:82 final size:82
Alignment explanation
Indices: 8393910--8394079 Score: 322
Period size: 82 Copynumber: 2.1 Consensus size: 82
8393900 TCATATTCGG
*
8393910 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTACTAGG
8393975 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
8393992 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTACTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTACTAGG
8394057 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
8394074 ATCACC
1 ATCACC
8394080 AATTCCAAAC
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 86 1.00
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTACTAGG
TTTATAACCTGATTCAT
Found at i:8401609 original size:41 final size:41
Alignment explanation
Indices: 8401559--8401734 Score: 280
Period size: 41 Copynumber: 4.3 Consensus size: 41
8401549 AATTCATCAT
* *
8401559 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
8401600 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
8401641 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
8401682 ATTTAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
8401723 ATTCATATCACC
1 ATTCAGATCACC
8401735 AATTCCAAAC
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 123 1.00
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:8401702 original size:82 final size:82
Alignment explanation
Indices: 8401565--8401734 Score: 331
Period size: 82 Copynumber: 2.1 Consensus size: 82
8401555 TCATATTCGG
8401565 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
8401630 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
*
8401647 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTTAGATCACCGGCACTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
8401712 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
8401729 ATCACC
1 ATCACC
8401735 AATTCCAAAC
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 87 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:8401975 original size:19 final size:19
Alignment explanation
Indices: 8401947--8401984 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8401937 TGTTCGATCC
* *
8401947 ACACATATATATATATATT
1 ACACACATATACATATATT
8401966 ACACACATATACATATATT
1 ACACACATATACATATATT
8401985 CGCACATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (19 bp):
ACACACATATACATATATT
Found at i:8414128 original size:21 final size:21
Alignment explanation
Indices: 8414102--8414141 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
8414092 CAAAACAATG
*
8414102 TAGTTTTGTCTTTTAACTTGA
1 TAGTTTTGACTTTTAACTTGA
8414123 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
8414142 TAGATAAGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.12, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:8414374 original size:3 final size:3
Alignment explanation
Indices: 8414366--8414402 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
8414356 ATTTTAAAGC
*
8414366 ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8414403 GATATTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:8414574 original size:19 final size:20
Alignment explanation
Indices: 8414550--8414606 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
8414540 CAAATTTTAG
* *
8414550 AATTTTTATAAA-TATTTTT
1 AATTTTTAAAAATTATTTTC
8414569 AA-TTTTAAAAATTATTTTC
1 AATTTTTAAAAATTATTTTC
*
8414588 AATTTTTGAAAATTATTTT
1 AATTTTTAAAAATTATTTT
8414607 GATTATTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 15 0.45
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTAAAAATTATTTTC
Done.