Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 77 of 228
Found at i:22853426 original size:30 final size:31
Alignment explanation
Indices: 22853388--22853533 Score: 133
Period size: 30 Copynumber: 4.9 Consensus size: 31
22853378 AGGCAAAAAA
* **
22853388 TAAAATTTACATTTTAACCCCTGTACTTTT-
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
*
22853418 TGAAATTTACATTTTGA-CCCTAAACTTTTC
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
*
22853448 TAAAATTTACATTTTGACCCC-AAAATTTTC
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
* ** ** *
22853478 TATAA-TTACATTTCAACCTTTAGAC-TTTC
1 TAAAATTTACATTTTGACCCCTAAACTTTTC
*
22853507 TCAAAATTT-CACTTTGACCCCTAAACT
1 T-AAAATTTACATTTTGACCCCTAAACT
22853534 CTCAAGAAAT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
29 26 0.29
30 59 0.66
31 5 0.06
ACGTcount: A:0.32, C:0.22, G:0.04, T:0.42
Consensus pattern (31 bp):
TAAAATTTACATTTTGACCCCTAAACTTTTC
Found at i:22854020 original size:14 final size:14
Alignment explanation
Indices: 22854001--22854030 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22853991 CCAAAGGAAA
22854001 AAGAGAAAAAAAAG
1 AAGAGAAAAAAAAG
*
22854015 AAGAGAAAAGAAAG
1 AAGAGAAAAAAAAG
22854029 AA
1 AA
22854031 AAAGGAAGAG
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:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAGAGAAAAAAAAG
Found at i:22854023 original size:21 final size:21
Alignment explanation
Indices: 22853999--22854042 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22853989 ACCCAAAGGA
22853999 AAAAGAGAA-AAAAAAGAAGAG
1 AAAAGA-AAGAAAAAAGAAGAG
*
22854020 AAAAGAAAGAAAAAGGAAGAG
1 AAAAGAAAGAAAAAAGAAGAG
22854041 AA
1 AA
22854043 GGAGAGGCGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAAAAAAGAAGAG
Found at i:22854177 original size:12 final size:12
Alignment explanation
Indices: 22854150--22854192 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
22854140 AAAAAGAGAG
*
22854150 AAAAAGAAAGAGA
1 AAAAAGAAA-ATA
22854163 AAAAAGAAAATA
1 AAAAAGAAAATA
*
22854175 AAAAAGGAAATA
1 AAAAAGAAAATA
22854187 ATAAAA
1 A-AAAA
22854193 AATAAAAGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 14 0.52
13 13 0.48
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (12 bp):
AAAAAGAAAATA
Found at i:22854474 original size:19 final size:19
Alignment explanation
Indices: 22854450--22854488 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
22854440 CTTTTGGGTA
* *
22854450 TTATTTTTTTTAATCTATT
1 TTATTTTATTTAATATATT
22854469 TTATTTTATTTAATATATT
1 TTATTTTATTTAATATATT
22854488 T
1 T
22854489 AAATGGTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTTTATTTAATATATT
Found at i:22855026 original size:17 final size:17
Alignment explanation
Indices: 22855006--22855055 Score: 82
Period size: 17 Copynumber: 2.9 Consensus size: 17
22854996 AAAAAAATTA
22855006 TGTTTTCAAAACTTTCG
1 TGTTTTCAAAACTTTCG
* *
22855023 TGTTTTCAAAATTTTTG
1 TGTTTTCAAAACTTTCG
22855040 TGTTTTCAAAACTTTC
1 TGTTTTCAAAACTTTC
22855056 ATGTGTTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (17 bp):
TGTTTTCAAAACTTTCG
Found at i:22855141 original size:17 final size:17
Alignment explanation
Indices: 22855121--22855661 Score: 89
Period size: 17 Copynumber: 30.6 Consensus size: 17
22855111 AAAAAATTCA
22855121 TGTTTTCAAAATTTTCG
1 TGTTTTCAAAATTTTCG
* *
22855138 TGTTTTTAAGATTTTTCG
1 TGTTTTCAA-AATTTTCG
*
22855156 TG---TCAAAATAATTCTCA
1 TGTTTTCAAAAT--TT-TCG
* *
22855173 TG-TATCGAAAATTTCCG
1 TGTTTTC-AAAATTTTCG
* *
22855190 TGTTTTCAAAAAATTTCC
1 TGTTTTC-AAAATTTTCG
* *
22855208 TCGTTTCCAAAA-ATTCAGG
1 T-GTTTTCAAAATTTTC--G
** *
22855227 TGATTTAAAAAATCTTCG
1 TG-TTTTCAAAATTTTCG
** *
22855245 TGTTTTCAAAAACTCCG
1 TGTTTTCAAAATTTTCG
*
22855262 -GTTTTCAAAATTTTCA
1 TGTTTTCAAAATTTTCG
*
22855278 TGTTTTTCAAAAAATTCTCG
1 TG-TTTTC--AAAATTTTCG
* *
22855298 TG-TTTCAAAAACTTCCG
1 TGTTTTC-AAAATTTTCG
* *
22855315 TGTTCTCAAAAATTCTCG
1 TGTTTTC-AAAATTTTCG
*
22855333 T-ATTTCAAAAATCTTT-G
1 TGTTTTC-AAAAT-TTTCG
* *
22855350 TGCTTTT-AAAACTTTCA
1 TG-TTTTCAAAATTTTCG
*
22855367 TG-TTTCAAAAATTTTCT
1 TGTTTTC-AAAATTTTCG
* *
22855384 TGTTTTCAAAAAATTCCG
1 TGTTTTC-AAAATTTTCG
* ***
22855402 ATGATCAAAGAAATTTTTCG
1 -TGTTTTCA-AAA-TTTTCG
* * * *
22855422 TGATTTCTAAAAACTTCCA
1 TG-TTT-TCAAAATTTTCG
22855441 TG-TTTCAAAAATTTTCG
1 TGTTTTC-AAAATTTTCG
* *
22855458 TGTTTT-AAGAGTTTTCT
1 TGTTTTCAA-AATTTTCG
*
22855475 TGCTTTCAACAATTCTT-G
1 TGTTTTCAA-AATT-TTCG
* *
22855493 T-ATTTCTTAAATTTTCG
1 TGTTTTC-AAAATTTTCG
* **
22855510 AG-TTTCAAAA-AATCG
1 TGTTTTCAAAATTTTCG
*
22855525 TGTTTTCAAAAAAAAAATTCTCG
1 TGTTTTC------AAAATTTTCG
**
22855548 TGTTTT-AAAATCCTCG
1 TGTTTTCAAAATTTTCG
*
22855564 TG-TTTCAAAATTGTCG
1 TGTTTTCAAAATTTTCG
*
22855580 TGTTTTCAAAAATTTTAG
1 TGTTTTC-AAAATTTTCG
*
22855598 TGTTTTTAAGAATTTTCG
1 TGTTTTCAA-AATTTTCG
* *
22855616 TG-TCTCTAAAATTCTCG
1 TGTTTTC-AAAATTTTCG
*
22855633 TGTTTTAAAAAAATTTT-G
1 TGTTTT--CAAAATTTTCG
*
22855651 TGTTCTCAAAA
1 TGTTTTCAAAA
22855662 ATAAAAAATG
Statistics
Matches: 378, Mismatches: 92, Indels: 109
0.65 0.16 0.19
Matches are distributed among these distances:
14 2 0.01
15 13 0.03
16 54 0.14
17 119 0.31
18 109 0.29
19 40 0.11
20 26 0.07
21 2 0.01
22 4 0.01
23 9 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (17 bp):
TGTTTTCAAAATTTTCG
Found at i:22855174 original size:52 final size:51
Alignment explanation
Indices: 22855076--22855206 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 51
22855066 GTTTTCAAAA
* * *
22855076 AAAATTCTCGTGTCTTTTAAAAAATTTCGTGTTAAAAAAAATTCATGTTTTC-
1 AAAATTTTCGTGT-TTTTAAAAAATTTCGTGTCAAAAAAAATTCATG-TATCG
* ** * *
22855128 AAAATTTTCGTGTTTTTAAGATTTTTCGTGTCAAAATAATTCTCATGTATCG
1 AAAATTTTCGTGTTTTTAAAAAATTTCGTGTCAAAAAAAAT-TCATGTATCG
* *
22855180 AAAATTTCCGTGTTTTCAAAAAATTTC
1 AAAATTTTCGTGTTTTTAAAAAATTTC
22855207 CTCGTTTCCA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
51 25 0.39
52 39 0.61
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.44
Consensus pattern (51 bp):
AAAATTTTCGTGTTTTTAAAAAATTTCGTGTCAAAAAAAATTCATGTATCG
Found at i:22855339 original size:53 final size:52
Alignment explanation
Indices: 22855215--22855360 Score: 133
Period size: 53 Copynumber: 2.8 Consensus size: 52
22855205 TCCTCGTTTC
** *
22855215 CAAAAATTCAGGTGATTT-AAAAAATCTTCGTGTTTTCAAAAACTCCGGTTTT
1 CAAAAATTCTCGT-ATTTCAAAAAATCTTCGTGTTTTCAAAAACTCCGGTTCT
* *
22855267 C-AAAATTTTCATGTTTTTCAAAAAAT-TCTCGTG-TTTCAAAAACTTCCGTGTTCT
1 CAAAAATTCTC--GTATTTCAAAAAATCT-TCGTGTTTTCAAAAAC-TCCG-GTTCT
*
22855321 CAAAAATTCTCGTATTTC-AAAAATCTTTGTGCTTTT-AAAA
1 CAAAAATTCTCGTATTTCAAAAAATCTTCGTG-TTTTCAAAA
22855361 CTTTCATGTT
Statistics
Matches: 76, Mismatches: 8, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
51 6 0.08
52 25 0.33
53 29 0.38
54 8 0.11
55 8 0.11
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (52 bp):
CAAAAATTCTCGTATTTCAAAAAATCTTCGTGTTTTCAAAAACTCCGGTTCT
Found at i:22855343 original size:18 final size:18
Alignment explanation
Indices: 22855074--22855662 Score: 113
Period size: 18 Copynumber: 33.3 Consensus size: 18
22855064 GTGTTTTCAA
*
22855074 AAAAAATTCTCGTGTCTTTT
1 AAAAAATTCTCGTG--TTTC
**
22855094 AAAAAATT-TCGTGTTAA
1 AAAAAATTCTCGTGTTTC
22855111 AAAAAATTCAT-GT-TTTC
1 AAAAAATTC-TCGTGTTTC
* *
22855128 --AAAATTTTCGTGTTTT
1 AAAAAATTCTCGTGTTTC
* * * *
22855144 TAAGATTTTTCGTG--TC
1 AAAAAATTCTCGTGTTTC
* *
22855160 AAAATAATTCTCATGTATC
1 AAAA-AATTCTCGTGTTTC
* *
22855179 GAAAATTTC-CGTGTTTTC
1 AAAAAATTCTCGTG-TTTC
*
22855197 AAAAAATT-TCCTCGTTTC
1 AAAAAATTCTCGT-GTTTC
* **
22855215 CAAAAATTCAGGTGATTT-
1 AAAAAATTCTCGTG-TTTC
22855233 AAAAAA-TCTTCGTGTTTTC
1 AAAAAATTC-TCGTG-TTTC
*
22855252 -AAAAACTC-CG-GTTTTC
1 AAAAAATTCTCGTG-TTTC
** *
22855268 AAAATTTTCAT-GTTTTTC
1 AAAAAATTC-TCGTGTTTC
22855286 AAAAAATTCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
*
22855304 AAAAACTTC-CGTGTTCTC
1 AAAAAATTCTCGTGTT-TC
*
22855322 -AAAAATTCTCGTATTTC
1 AAAAAATTCTCGTGTTTC
*
22855339 -AAAAA-TCTTTGTGCTTT-
1 AAAAAATTC-TCGTG-TTTC
* * *
22855356 TAAAACTT-TCATGTTTC
1 AAAAAATTCTCGTGTTTC
* *
22855373 -AAAAATTTTCTTGTTTTC
1 AAAAAATTCTCGTG-TTTC
*
22855391 AAAAAATTC-CGATG-ATC
1 AAAAAATTCTCG-TGTTTC
*
22855408 AAAGAAATTTTTCGTGATTTC
1 AAA-AAA-TTCTCGTG-TTTC
* *
22855429 TAAAAACTTC-CATGTTTC
1 -AAAAAATTCTCGTGTTTC
*
22855447 -AAAAATTTTCGTGTTT-
1 AAAAAATTCTCGTGTTTC
* * * * *
22855463 TAAGAGTTTTCTTGCTTTC
1 AAAAAATTCTCGTG-TTTC
* * *
22855482 -AACAATTCTTGTATTTC
1 AAAAAATTCTCGTGTTTC
** * *
22855499 -TTAAATTTTCGAGTTTC
1 AAAAAATTCTCGTGTTTC
22855516 AAAAAA---TCGTGTTTTC
1 AAAAAATTCTCGTG-TTTC
22855532 AAAAAAAAAATTCTCGTGTTT-
1 ----AAAAAATTCTCGTGTTTC
* *
22855553 -TAAAATCCTCGTGTTTC
1 AAAAAATTCTCGTGTTTC
*
22855570 --AAAATTGTCGTGTTTTC
1 AAAAAATTCTCGTG-TTTC
* * *
22855587 -AAAAATTTTAGTGTTTT
1 AAAAAATTCTCGTGTTTC
* * * *
22855604 TAAGAATTTTCGTGTCTC
1 AAAAAATTCTCGTGTTTC
* *
22855622 -TAAAATTCTCGTGTTTTA
1 AAAAAATTCTCGTG-TTTC
*
22855640 AAAAAATT-TTGTGTTCTC
1 AAAAAATTCTCGTGTT-TC
22855658 AAAAA
1 AAAAA
22855663 TAAAAAATGT
Statistics
Matches: 415, Mismatches: 95, Indels: 120
0.66 0.15 0.19
Matches are distributed among these distances:
14 1 0.00
15 12 0.03
16 57 0.14
17 116 0.28
18 155 0.37
19 41 0.10
20 18 0.04
21 4 0.01
22 6 0.01
23 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
AAAAAATTCTCGTGTTTC
Found at i:22855563 original size:16 final size:16
Alignment explanation
Indices: 22855538--22855642 Score: 102
Period size: 16 Copynumber: 6.2 Consensus size: 16
22855528 TTTCAAAAAA
22855538 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
22855554 AAAATCCTCGTGTTTC
1 AAAATTCTCGTGTTTT
*
22855570 AAAATTGTCGTGTTTT
1 AAAATTCTCGTGTTTT
* *
22855586 CAAAAATTTTAGTGTTTTT
1 --AAAATTCTCGTG-TTTT
* *
22855605 AAGAATTTTCGTGTCTCT
1 AA-AATTCTCGTGT-TTT
22855623 AAAATTCTCGTGTTTT
1 AAAATTCTCGTGTTTT
22855639 AAAA
1 AAAA
22855643 AAATTTTGTG
Statistics
Matches: 73, Mismatches: 11, Indels: 10
0.78 0.12 0.11
Matches are distributed among these distances:
16 33 0.45
17 13 0.18
18 23 0.32
19 4 0.05
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (16 bp):
AAAATTCTCGTGTTTT
Found at i:22857251 original size:9 final size:9
Alignment explanation
Indices: 22857240--22857342 Score: 143
Period size: 9 Copynumber: 11.4 Consensus size: 9
22857230 TTTGATTAAA
*
22857240 AATTAACCA
1 AATTAACCG
22857249 AATTAACCG
1 AATTAACCG
*
22857258 AAATAACCG
1 AATTAACCG
*
22857267 AATTACCCG
1 AATTAACCG
22857276 AATTAACCG
1 AATTAACCG
*
22857285 AATTACCCG
1 AATTAACCG
*
22857294 AATTACCCG
1 AATTAACCG
22857303 AATTAACCG
1 AATTAACCG
*
22857312 AATTACCCG
1 AATTAACCG
22857321 AATTAACCG
1 AATTAACCG
*
22857330 AATTAACCA
1 AATTAACCG
22857339 AATT
1 AATT
22857343 GAATCACTAC
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 84 1.00
ACGTcount: A:0.44, C:0.25, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTAACCG
Found at i:22859817 original size:12 final size:12
Alignment explanation
Indices: 22859800--22859832 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
22859790 GACACCACAC
22859800 GGCCATGTGCTA
1 GGCCATGTGCTA
*
22859812 GGCCATGTGGTA
1 GGCCATGTGCTA
22859824 GGCCATGTG
1 GGCCATGTG
22859833 AGCCAAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.39, T:0.24
Consensus pattern (12 bp):
GGCCATGTGCTA
Found at i:22864160 original size:17 final size:17
Alignment explanation
Indices: 22864138--22864173 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
22864128 AAACCTGCAA
22864138 AGTATAATCAACCAACC
1 AGTATAATCAACCAACC
22864155 AGTATAATCAACCAACC
1 AGTATAATCAACCAACC
22864172 AG
1 AG
22864174 AATATCCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.28, G:0.08, T:0.17
Consensus pattern (17 bp):
AGTATAATCAACCAACC
Found at i:22866420 original size:75 final size:75
Alignment explanation
Indices: 22866137--22866695 Score: 647
Period size: 77 Copynumber: 7.3 Consensus size: 75
22866127 AAATTATTTC
* * *
22866137 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTAGGTCGCAT
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
*
22866202 GCTAAGGTAT
66 GCTGAGGTAT
* * * *
22866212 TTTCAATTTATGTTTTTCAAAAAAATCAACTTATAATGCAAGAGGTGAGTTGAGCTTCAGGTCGC
1 TTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGC
22866277 ACGCTGAGGTAT
64 ACGCTGAGGTAT
*
22866289 TTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTATGTTTTTC--AAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGC
* *
22866354 ACACTAAGGTAT
64 ACGCTGAGGTAT
* * *
22866366 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
22866431 G-TAGAGGTATT
66 GCT-GAGGTA-T
* * *
22866442 TTTCAATTTATGTTTTTTTTTTAAAAAAATCAACTCATAAATACGAGAGG-GAGGTGAGCCTCGG
1 TTTCAATTTATG-----TTTTT-CAAAAATCAACTCAT-AATACGAGAGGTGAGTTGAGCCTCAG
*
22866506 GTCGCACTCTGAGGTATT
59 GTCGCACGCTGAGGTA-T
* * * * *
22866524 TTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATCCGAGATGTGAGTTGAGCCTCGGGTTGCA
1 TTTCAATTTATG-TTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCA
22866589 CGCTGAGGTAT
65 CGCTGAGGTAT
* * * * *
22866600 TTTCAATTTCTGTTTTTCAAAGATCAACTCATAATTA-GAAAGATGAGTTGAGCTTCAGGTCGCA
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAA-TACGAGAGGTGAGTTGAGCCTCAGGTCGCA
* * * *
22866664 CACCGAGCTAG
65 CGCTGAGGTAT
* *
22866675 TTTCGATTTCTGTTTTTCAAA
1 TTTCAATTTATGTTTTTCAAA
22866696 TAAAAATAAA
Statistics
Matches: 427, Mismatches: 43, Indels: 28
0.86 0.09 0.06
Matches are distributed among these distances:
74 1 0.00
75 137 0.32
76 35 0.08
77 180 0.42
78 6 0.01
81 5 0.01
82 52 0.12
83 11 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (75 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCGCAC
GCTGAGGTAT
Found at i:22866579 original size:234 final size:228
Alignment explanation
Indices: 22866137--22866660 Score: 685
Period size: 234 Copynumber: 2.3 Consensus size: 228
22866127 AAATTATTTC
* * * *
22866137 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTAGGTCGCAT
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
* * *
22866202 GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTTATAATGCAAGAGGTGAGTTGAGC
66 GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACAAGAGGTGAGGTGAGC
*
22866267 TTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACGAGA
131 CTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTC-AAAAAATCAACTCATAATACGAGA
22866332 GGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
195 GGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
*
22866366 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACAC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
* *
22866431 G-TAGAGGTATTTTTCAATTTATGTTTTTTTTTTAAAAAAATCAACTCATAAATACGAGAGG-GA
66 GCTA-AGGTA-TTTTCAATTTATG----TTTTTCAAAAAAATCAACTCAT-AATACAAGAGGTGA
* * *
22866494 GGTGAGCCTCGGGTCGCACTCTGAGGTATTTTTCAATTTTTGTTTTTTC-AAAAATCAACTCATA
124 GGTGAGCCTCAGGTCGCACGCTGAGGTA-TTTTCAATTTATG-TTTTTCAAAAAATCAACTCATA
* * * ** * *
22866558 ATCCGAGATGTGAGTTGAGCCTCGGGTTGCACGCTGAGGTAT
187 ATACGAGAGGTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
* * ** * * *
22866600 TTTCAATTTCTGTTTTTCAAAGATCAACTCATAATTAGAAAGATGAGTTGAGCTTCAGGTC
1 TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTC
22866661 GCACACCGAG
Statistics
Matches: 257, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
228 2 0.01
229 66 0.26
230 13 0.05
234 149 0.58
235 21 0.08
236 6 0.02
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (228 bp):
TTTCAATTTATGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCAGGTCACAC
GCTAAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATAATACAAGAGGTGAGGTGAGC
CTCAGGTCGCACGCTGAGGTATTTTCAATTTATGTTTTTCAAAAAATCAACTCATAATACGAGAG
GTGAGTTGAGCCTCAGGTCACACACTAAGGTAT
Found at i:22867003 original size:30 final size:29
Alignment explanation
Indices: 22866940--22867040 Score: 132
Period size: 30 Copynumber: 3.4 Consensus size: 29
22866930 AAAAAAATTT
* *
22866940 AAATTACATTTTGACCCAT-AACTTTTCA
1 AAATTACATTTTGACCCCTAAACTTTCCA
22866968 AAATTACATTTTGACCCCTAAACTTTCCTA
1 AAATTACATTTTGACCCCTAAACTTTCC-A
* *
22866998 AAATTACATTTTAACCCCTAAAATTTCCCA
1 AAATTACATTTTGACCCCTAAACTTT-CCA
*
22867028 AAATTACACTTTG
1 AAATTACATTTTG
22867041 GCTCCAAAAG
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
28 18 0.28
29 7 0.11
30 37 0.58
31 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (29 bp):
AAATTACATTTTGACCCCTAAACTTTCCA
Found at i:22867245 original size:24 final size:25
Alignment explanation
Indices: 22867218--22867265 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
22867208 ATCGGCCAAC
* *
22867218 AATCAACAACAAAAA-AGAGGAAAA
1 AATCAAAAAAAAAAAGAGAGGAAAA
22867242 AATCAAAAAAAAAAAGAGAGGAAA
1 AATCAAAAAAAAAAAGAGAGGAAA
22867266 GAAGATAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.73, C:0.08, G:0.15, T:0.04
Consensus pattern (25 bp):
AATCAAAAAAAAAAAGAGAGGAAAA
Found at i:22867270 original size:12 final size:11
Alignment explanation
Indices: 22867252--22867294 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
22867242 AATCAAAAAA
22867252 AAAAAGAGAGG
1 AAAAAGAGAGG
* *
22867263 AAAGAAGATAGA
1 AAA-AAGAGAGG
22867275 AAAAAGAGAAGG
1 AAAAAGAG-AGG
22867287 AAAAAGAG
1 AAAAAGAG
22867295 GGGAGTGTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.02
Consensus pattern (11 bp):
AAAAAGAGAGG
Found at i:22872061 original size:3 final size:3
Alignment explanation
Indices: 22872053--22872092 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
22872043 CGGTTTCAAC
*
22872053 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22872093 GTTAGTTTGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:22872688 original size:13 final size:15
Alignment explanation
Indices: 22872670--22872701 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22872660 ATAGTCTCAA
22872670 TAATTAA-A-AATAT
1 TAATTAATATAATAT
22872683 TAATTAATATAATAT
1 TAATTAATATAATAT
22872698 TAAT
1 TAAT
22872702 AGTTTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAATATAATAT
Found at i:22873116 original size:21 final size:21
Alignment explanation
Indices: 22873090--22873133 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22873080 CGCTGTATTG
* *
22873090 GATTAGAGGTGTATTGGATTA
1 GATTAGAGGTGTAATGGAATA
22873111 GATTAGAGGTGTAATGGAATA
1 GATTAGAGGTGTAATGGAATA
22873132 GA
1 GA
22873134 GGTGTAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (21 bp):
GATTAGAGGTGTAATGGAATA
Found at i:22873186 original size:45 final size:44
Alignment explanation
Indices: 22873120--22873214 Score: 127
Period size: 45 Copynumber: 2.1 Consensus size: 44
22873110 AGATTAGAGG
* * *
22873120 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAACAAAAC-ACTGTTTGGTTGAA
* **
22873165 TGTAATGGAATAGAGGCGTAATAATAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAACAAAACACTGTTTGGTTGAA
22873209 TGTAAT
1 TGTAAT
22873215 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAACAAAACACTGTTTGGTTGAA
Found at i:22873397 original size:18 final size:17
Alignment explanation
Indices: 22873376--22873410 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22873366 TTATTATTTA
*
22873376 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22873394 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22873411 GGTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22873404 original size:28 final size:27
Alignment explanation
Indices: 22873334--22873406 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
22873324 TTTATTATCA
*
22873334 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
22873362 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
22873389 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
22873407 AAATGGTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:22873523 original size:144 final size:147
Alignment explanation
Indices: 22873295--22873566 Score: 460
Period size: 144 Copynumber: 1.9 Consensus size: 147
22873285 ATGATTATTG
*
22873295 TTATTGTTATTTGAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
* *
22873360 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATGGTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGC
22873425 AAAAATTTGTTTTGGTAAA
129 AAAAATTTGTTTTGGTAAA
*
22873444 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
*
22873506 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTA
22873567 ATATTCTTAT
Statistics
Matches: 118, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
144 90 0.76
145 1 0.01
148 22 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATGCTTAATAATTAGCAA
AAATTTGTTTTGGTAAA
Found at i:22873541 original size:18 final size:17
Alignment explanation
Indices: 22873520--22873554 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
22873510 TTATTATTAA
*
22873520 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
22873538 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
22873555 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:22886873 original size:3 final size:3
Alignment explanation
Indices: 22886865--22886900 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
22886855 TACTAGCATA
22886865 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
22886901 AATAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:22886905 original size:3 final size:3
Alignment explanation
Indices: 22886899--22886943 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
22886889 GATGATGATG
22886899 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22886944 TGTGTACAAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22887063 original size:18 final size:17
Alignment explanation
Indices: 22887011--22887063 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
22887001 TAAATAGATG
22887011 AGTAAATGATAATAAAAT
1 AGTAAAT-ATAATAAAAT
* * *
22887029 AATAATAGATGATAAAAT
1 AGTAA-ATATAATAAAAT
22887047 AGTAAATATAATGAAAA
1 AGTAAATATAAT-AAAA
22887064 CGTAAAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
17 5 0.19
18 21 0.78
19 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.26
Consensus pattern (17 bp):
AGTAAATATAATAAAAT
Found at i:22888428 original size:24 final size:24
Alignment explanation
Indices: 22888384--22888429 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
22888374 TTTTGGGTCT
*
22888384 GTTTGGGTTAGGTTTAGTTTGGTG
1 GTTTGGGTTAGGTTTAATTTGGTG
*
22888408 GTTTTGGTT-GGTTTGAATTTGG
1 GTTTGGGTTAGGTTT-AATTTGG
22888430 GTTGGGTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.09, C:0.00, G:0.39, T:0.52
Consensus pattern (24 bp):
GTTTGGGTTAGGTTTAATTTGGTG
Found at i:22889065 original size:239 final size:242
Alignment explanation
Indices: 22888625--22889107 Score: 760
Period size: 239 Copynumber: 2.0 Consensus size: 242
22888615 CCACTTCAGG
* *
22888625 GAAATAGGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGTAACTTCAACCTGC
1 GAAATAAGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAACTT--ACC-GC
* * *
22888690 CCACTACAATTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTATAACTTCAGAGAGAT
63 CCACTACAATTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTCAGAGAGAA
* * *
22888755 AAGATTCGCTATCTTCCAAGAGATAATATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGG
128 AAGATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGG
22888820 AGTTCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAAA
193 AGTTCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAAA
*
22888870 GAAATAAGATCGTTAGTCTGCTCCACTTCAACTTCAGGGAAATAAGACTCGTAAC-T-CC-CCCA
1 GAAATAAGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAACTTACCGCCCA
* * *
22888932 CTACAACTTT-AGGGATATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTTAGAGAGAAAA
66 CTACAA-TTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTCAGAGAGAAAA
*
22888996 GATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAA-TTTCAGGAA
130 GATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGG-A
*
22889060 GTTCAGATTTGTAACTTATAGCCTTAATCTGTTCCACTGTAACTTCAA
194 GTTCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAA
22889108 GGTTGATGCT
Statistics
Matches: 222, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
238 6 0.03
239 158 0.71
240 3 0.01
241 2 0.01
244 1 0.00
245 52 0.23
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (242 bp):
GAAATAAGATCGTTAGTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAACTTACCGCCCA
CTACAATTTCAAGGAGATAAGGTTTATAGCTTTAATCTGCCCTACTACAACTTCAGAGAGAAAAG
ATTCGCTATATTCCAAAAGATAAAATTTGCTTTATTCAATCTGCTCCACTACAATTTTAAGGAGT
TCAGATTTGTAACTTATAGCCTTAATCTATTCCACTGTAACTTCAAA
Found at i:22889293 original size:11 final size:10
Alignment explanation
Indices: 22889279--22889344 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
22889269 GGCCTCTCCT
22889279 TTTTCTTTTTC
1 TTTT-TTTTTC
*
22889290 TTTTCTTTTCC
1 TTTT-TTTTTC
* *
22889301 TTATTTTTCC
1 TTTTTTTTTC
22889311 TTATTTTTTTC
1 TT-TTTTTTTC
*
22889322 TTATTTTTTC
1 TTTTTTTTTC
*
22889332 -TTATTTTTC
1 TTTTTTTTTC
22889341 TTTT
1 TTTT
22889345 ATGAAACATT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
9 7 0.16
10 17 0.38
11 21 0.47
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:22889317 original size:9 final size:10
Alignment explanation
Indices: 22889295--22889340 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
22889285 TTTTCTTTTC
22889295 TTTTCCTTAT
1 TTTTCCTTAT
22889305 TTTTCCTTATT
1 TTTTCCTTA-T
*
22889316 TTTTTCTTAT
1 TTTTCCTTAT
*
22889326 TTTTTCTTAT
1 TTTTCCTTAT
22889336 TTTTC
1 TTTTC
22889341 TTTTATGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCCTTAT
Found at i:22889319 original size:21 final size:21
Alignment explanation
Indices: 22889295--22889339 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
22889285 TTTTCTTTTC
22889295 TTTTCCTTATTTTTCCTTATT
1 TTTTCCTTATTTTTCCTTATT
* *
22889316 TTTTTCTTATTTTTTCTTATT
1 TTTTCCTTATTTTTCCTTATT
22889337 TTT
1 TTT
22889340 CTTTTATGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCCTTATTTTTCCTTATT
Found at i:22889338 original size:8 final size:9
Alignment explanation
Indices: 22889284--22889342 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 9
22889274 CTCCTTTTTC
*
22889284 TTTTTCTTT
1 TTTTTCTTA
22889293 TCTTTTCCTTA
1 T-TTTT-CTTA
22889304 TTTTTCCTTA
1 TTTTT-CTTA
22889314 TTTTTTTCTTA
1 --TTTTTCTTA
22889325 TTTTTTCTTA
1 -TTTTTCTTA
22889335 TTTTTCTT
1 TTTTTCTT
22889343 TTATGAAACA
Statistics
Matches: 45, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 9 0.20
10 23 0.51
11 8 0.18
12 5 0.11
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTCTTA
Found at i:22889346 original size:21 final size:21
Alignment explanation
Indices: 22889284--22889346 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
22889274 CTCCTTTTTC
* *
22889284 TTTTTCTTTTCTTTTC-CTTAT
1 TTTTTCTTAT-TTTTCTTTTAT
*
22889305 TTTTCCTTATTTTT-TTCTTAT
1 TTTTTCTTATTTTTCTT-TTAT
22889326 TTTTTCTTATTTTTCTTTTAT
1 TTTTTCTTATTTTTCTTTTAT
22889347 GAAACATTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 4 0.11
21 29 0.83
22 2 0.06
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTCTTATTTTTCTTTTAT
Found at i:22896084 original size:44 final size:44
Alignment explanation
Indices: 22896034--22896963 Score: 662
Period size: 44 Copynumber: 20.6 Consensus size: 44
22896024 TTTGAACCTA
*
22896034 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* ** * * *
22896078 CCCCACTATAACTTCAGGGAGATAAGATTTTTAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * *
22896122 TTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * *
22896166 CTCCACTGCAACTTTAGGGAGATAAGCTTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * *
22896210 CTCCACTGTAACTTCAGGGAGATAAGATTTTTAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * *
22896254 TTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * * *
22896298 CTCCATTGTAACTTTAGGGAGATGAGGTTTGTAACTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGT-A----T--CTTCAATCTG
* * * *
22896349 TTCCATTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTG
* * * *
22896394 CTCCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * ** * *
22896438 ATCCACTGCAACTTCAGGGAGATAAGTTTTAAAACTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* ** *
22896482 CTCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTG
* *
22896527 CTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * *
22896571 CCCCACTACAACTTCAGGGGGATCCGATTGTAATTTGTAGCCTT-AATCTG
1 CTCCACTGCAACTTCAGGGAGAT---A-AG--ATTTGTA-TCTTCAATCTG
* * * * ** * * *
22896621 TTCCACTGCAACTTTAAGGAAATAAGATTCACTATATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTATCTTCAATCTG
* * * * * * * *
22896666 CTCCATTGCAACTTTAGGGAGATAAAACTTATAACTTAAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* ** * * *
22896710 C-CTCACTGCAACTTAAAGGG-GATCCGATTTGTATTTTGTAGCCTTGATATG
1 CTC-CACTGCAACTT-CAGGGAGATAAGATTTGTA-TCT-T---C--AATCTG
* * * ** **
22896761 TTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCCGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATT-TGTATCTTCAATCTG
* * * * *
22896806 CTCCATTGCAACTTCAGGGATATAAGACTTGTAACTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * * *
22896850 C-CCTACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTA
1 CTCC-ACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
* * * * *
22896894 CTCTAATACAACTTCAGGGAGATAAGATTTGCTATCTTCAGTTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATCTG
* *
22896939 CTCCACTACAACTTTAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
22896964 AATTCGTCAT
Statistics
Matches: 686, Mismatches: 167, Indels: 65
0.75 0.18 0.07
Matches are distributed among these distances:
43 3 0.00
44 414 0.60
45 167 0.24
46 2 0.00
47 4 0.01
48 1 0.00
50 33 0.05
51 58 0.08
52 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATCTG
Found at i:22896611 original size:272 final size:271
Alignment explanation
Indices: 22896060--22896963 Score: 755
Period size: 272 Copynumber: 3.3 Consensus size: 271
22896050 GGGAGATAAG
* ** ** * * * * * *
22896060 ATTTGTATCTTTAATCTGCCCCACTATAACTTCAGGGAGATAAGATTTTTAGCTTCAATTTGTTC
1 ATTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTCTATCTTCAATCTGCTC
* * *
22896125 CACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATA
66 CACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAACCTGATCCACTGCAACTTCAGGGAGATA
** * * ** * * *
22896190 AGCTTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTTTAGCTTCAATTTGT
131 AGCTTTAAAACTTTAATCTGCTCCACTGCAACTTCAAAGAGATAAGATTTCTAGCTTCAATCTGC
* * * ** *
22896255 TCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACCCGCTCCATTGTAACTTTAGGGAGA
196 TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGAGA
* *
22896320 TGAGGTTTGTA
261 TGACGATTGTA
* *
22896331 ACTTGTAGCTTTAATCTGTTCCATTGCAACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCT
1 ATTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTT-CTATCTTCAATCTGCT
* * *
22896396 CCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTTAATCTGATCCACTGCAACTTCAGGGAGAT
65 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAACCTGATCCACTGCAACTTCAGGGAGAT
* * * *
22896461 AAGTTTTAAAACTTTAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGCTATCTTCAGTCT
130 AAGCTTTAAAACTTTAATCTGCTCCACTGCAACTTCAAAGAGATAAGATTT-CTAGCTTCAATCT
* * * * *
22896526 GCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAATCTGCCCCACTACAACTTCAGGGG
194 GCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGA
*
22896591 GAT-CCGATTGTA
259 GATGACGATTGTA
* * * * * *
22896603 ATTTGTAGCCTTAATCTGTTCCACTGCAACTTTAAGGAAATAAGATTCACTATATTTAGTCTGCT
1 ATTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATT-TCTATCTTCAATCTGCT
* * * * * * * *
22896668 CCATTGCAACTTTAGGGAGATAAAACTTATAACTTAAACCTG-CCTCACTGCAACTTAAAGGGGA
65 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAACCTGATC-CACTGCAACTT-CA-GGGA
** * ** * * * * * * ** * * *
22896732 TCCGATTTGTATTTTGTAGCCTTGATATGTTCCACCGCAACTTCAGGGAAATAAGATTCACTATC
127 ---GATAAG--CTTTAAAACTTTAATCTGCTCCACTGCAACTTCAAAGAGATAAGATT-TCTAGC
** * * * * * **
22896797 TTCCGTCTGCTCCATTGCAACTTCAGGGATATAAGACTTGTAACTTCAACCTGCCCTACTGTAAC
186 TTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAACCCGCCCCACTACAAC
22896862 TTCAGGGAGAT-A--A--G--
251 TTCAGGGAGATGACGATTGTA
* * ** * * * * * * *
22896876 GTTTATAGCTTTAATCTACTCTAATACAACTTCAGGGAGATAAGATTTGCTATCTTCAGTTTGCT
1 ATTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTT-CTATCTTCAATCTGCT
*
22896941 CCACTACAACTTTAGGGAGATAA
65 CCACTGCAACTTTAGGGAGATAA
22896964 AATTCGTCAT
Statistics
Matches: 513, Mismatches: 107, Indels: 24
0.80 0.17 0.04
Matches are distributed among these distances:
271 40 0.08
272 221 0.43
273 136 0.27
274 4 0.01
275 1 0.00
277 5 0.01
279 106 0.21
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (271 bp):
ATTTGTAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTTCTATCTTCAATCTGCTC
CACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAACCTGATCCACTGCAACTTCAGGGAGATA
AGCTTTAAAACTTTAATCTGCTCCACTGCAACTTCAAAGAGATAAGATTTCTAGCTTCAATCTGC
TCCACTGCAACTTCAGGGAGATAAGACTTGTAGCTTCAACCCGCCCCACTACAACTTCAGGGAGA
TGACGATTGTA
Found at i:22896808 original size:412 final size:404
Alignment explanation
Indices: 22896035--22896963 Score: 1027
Period size: 412 Copynumber: 2.3 Consensus size: 404
22896025 TTGAACCTAC
* * * * *
22896035 TCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAATCTGCCCCACTATAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAGA
* * * * * *
22896100 TAAGATTT-TTAGCTTCAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAACC
66 TAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACC
* * * * * * *
22896164 TGCTCCACTGCAACTTTAGGGAGATAAGCTTTGTAGCTTTAATCTGCTCCACTGTAACTTCAGGG
131 TGCCCCACTACAACTTCAGGGAGATAAGATTTGTAGCCTTAATCTGCTCCACTGCAACTTCAAGG
* ** * * * * * * * *
22896229 AGATAAGATTTTTAGCTTCAATTTGTTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAA
196 AAATAAGATTACTAGATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTAAA
* * * * * * * **
22896294 CCCGCTCCATTGTAACTTTAGGGAGATGAGGTTTGTAACTTGTAGCTTTAATCTGTTCCATTGCA
261 CCCGCTCCACTGCAACTTAAGGGAGATCAGATTTGTAACTTGTAGCCTTAATATGTTCCACCGCA
* ** * *
22896359 ACTTTAGGGAAATAAGATTTGCTATCTTCAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTT
326 ACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT
* * *
22896424 GTAGCTTTAATCTG
391 GTAACTTCAACCTG
* * * **
22896438 ATCCACTGCAACTTCAGGGAGATAAGTTTTAAAACTTTAATCTGCTCTACTGCAACTTCAAAGAG
1 -TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAG
* * *
22896503 ATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTATCTTCAAT
65 ATAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAAC
* * *
22896568 CTGCCCCACTACAACTTCAGGGGGATCCGATTGTAATTTGTAGCCTTAATCTGTTCCACTGCAAC
130 CTGCCCCACTACAACTTCAGGGAGAT---A-AG--ATTTGTAGCCTTAATCTGCTCCACTGCAAC
* * * * * *
22896633 TTTAAGGAAATAAGATTCACTATATTTAGTCTGCTCCATTGCAACTTTAGGGAGATAAAACTTAT
189 TTCAAGGAAATAAGATT-ACTAGATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTAT
* * ** *
22896698 AACTTAAACCTGC-CTCACTGCAACTTAAAGGG-GATCCGATTTGTATTTTGTAGCCTTGATATG
253 AACTTAAACCCGCTC-CACTGCAACTT-AAGGGAGATCAGATTTGTAACTTGTAGCCTTAATATG
** *
22896761 TTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCCGTCTGCTCCATTGCAACTTCAGGGA
316 TTCCACCGCAACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGA
*
22896826 TATAAGACTTGTAACTTCAACCTG
381 AATAAGACTTGTAACTTCAACCTG
* * * * * *
22896850 CCCTACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTAATACAACTTCAGGGAG
1 TCC-ACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAG
*
22896915 ATAAGATTTGCTATCTTCAGTTTGCTCCACTACAACTTTAGGGAGATAA
65 ATAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAA
22896964 AATTCGTCAT
Statistics
Matches: 430, Mismatches: 84, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
404 63 0.15
405 68 0.16
408 1 0.00
409 1 0.00
411 43 0.10
412 250 0.58
413 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (404 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTATAACTTTAATCTGCTCTACTACAACTTCAGGGAGA
TAAGATTTGCTATCTTCAGTTTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTAGCTTCAACC
TGCCCCACTACAACTTCAGGGAGATAAGATTTGTAGCCTTAATCTGCTCCACTGCAACTTCAAGG
AAATAAGATTACTAGATTCAATCTGCTCCACTGCAACTTCAGGGAGATAAAACTTATAACTTAAA
CCCGCTCCACTGCAACTTAAGGGAGATCAGATTTGTAACTTGTAGCCTTAATATGTTCCACCGCA
ACTTCAGGGAAATAAGATTCACTATCTTCAATCTGCTCCACTGCAACTTCAGGGAAATAAGACTT
GTAACTTCAACCTG
Found at i:22899944 original size:21 final size:23
Alignment explanation
Indices: 22899920--22899962 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
22899910 CAACACAACT
22899920 TCTCA-ATT-AGTGAATATCTTG
1 TCTCACATTAAGTGAATATCTTG
*
22899941 TCTCACATTAAGTGAATTTCTT
1 TCTCACATTAAGTGAATATCTT
22899963 ACTGAGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.28, C:0.16, G:0.12, T:0.44
Consensus pattern (23 bp):
TCTCACATTAAGTGAATATCTTG
Found at i:22900498 original size:42 final size:42
Alignment explanation
Indices: 22900379--22900504 Score: 180
Period size: 43 Copynumber: 3.0 Consensus size: 42
22900369 GCCCCAAAAG
* *
22900379 TACATTTTGCTAGATTGAGCTTCAGTTGGAATTTTCTCAATC
1 TACATTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAATC
* * *
22900421 TACATTTTTGTTGGATTAAGCTTCAGCTAGAATTTTCTCAATC
1 TACA-TTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAATC
* *
22900464 TACATTTTACTGGAATGAGCTTCAGCTGGAATTTTCTCAAT
1 TACATTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAAT
22900505 TTCAAGAACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 36 0.49
43 37 0.51
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.42
Consensus pattern (42 bp):
TACATTTTGCTGGATTGAGCTTCAGCTGGAATTTTCTCAATC
Found at i:22907356 original size:30 final size:31
Alignment explanation
Indices: 22907317--22907376 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
22907307 AGAGGTGGGA
*
22907317 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
22907348 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
22907377 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:22907614 original size:18 final size:18
Alignment explanation
Indices: 22907591--22907625 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
22907581 TAGTTTGATA
22907591 TTCGAGTTATTCGAATTG
1 TTCGAGTTATTCGAATTG
*
22907609 TTCGAGTTATTCTAATT
1 TTCGAGTTATTCGAATT
22907626 TGAAAACTCA
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:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (18 bp):
TTCGAGTTATTCGAATTG
Found at i:22916030 original size:41 final size:41
Alignment explanation
Indices: 22915973--22916120 Score: 183
Period size: 41 Copynumber: 3.6 Consensus size: 41
22915963 TTCCGAATCT
* **
22915973 ATGAAAAGGTTGAAAAGGA-AGTTATTTGAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGACA-ATATCCGAAAAGGATAACAA
* *
22916014 ATGAAAAGGTTAAAAAGGACAATATCCGACAAA-GATACCAA
1 ATGAAAAGGTTGAAAAGGACAATATCCGA-AAAGGATAACAA
*
22916055 ATGAAAAGGTTGAAAAGGACAATATCCGAAAAGGATATCAA
1 ATGAAAAGGTTGAAAAGGACAATATCCGAAAAGGATAACAA
* * *
22916096 ATGAATAGGTTGAAAATGACGATAT
1 ATGAAAAGGTTGAAAAGGACAATAT
22916121 TTGAAGAAAA
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
40 3 0.03
41 87 0.93
42 4 0.04
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGACAATATCCGAAAAGGATAACAA
Found at i:22923167 original size:29 final size:29
Alignment explanation
Indices: 22923135--22923194 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
22923125 CTGAAGTAGG
22923135 AAAGTCTTATGGGACTATTTTATGAGTAC
1 AAAGTCTTATGGGACTATTTTATGAGTAC
22923164 AAAGTCTTATGGGACTATTTTATGAGTAC
1 AAAGTCTTATGGGACTATTTTATGAGTAC
22923193 AA
1 AA
22923195 GTATGCAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (29 bp):
AAAGTCTTATGGGACTATTTTATGAGTAC
Found at i:22939160 original size:14 final size:14
Alignment explanation
Indices: 22939141--22939189 Score: 73
Period size: 14 Copynumber: 3.5 Consensus size: 14
22939131 TCATTTTTAA
22939141 AATTTTTACATTCT
1 AATTTTTACATTCT
22939155 AATTTTTACATTCT
1 AATTTTTACATTCT
*
22939169 AATTCTTT-TATTCT
1 AATT-TTTACATTCT
22939183 AATTTTT
1 AATTTTT
22939190 TTATTTTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 3 0.09
14 27 0.82
15 3 0.09
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (14 bp):
AATTTTTACATTCT
Found at i:22939191 original size:14 final size:14
Alignment explanation
Indices: 22939150--22939194 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
22939140 AAATTTTTAC
**
22939150 ATTCTAATTTTTAC
1 ATTCTAATTTTTTT
*
22939164 ATTCTAATTCTTTT
1 ATTCTAATTTTTTT
22939178 ATTCTAATTTTTTT
1 ATTCTAATTTTTTT
22939192 ATT
1 ATT
22939195 TTCTTCTGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTCTAATTTTTTT
Found at i:22942922 original size:15 final size:15
Alignment explanation
Indices: 22942896--22942931 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
22942886 CCCTTTTACC
*
22942896 TTATTT-TTATTTGT
1 TTATTTATTATTTAT
22942910 TTATTTATTATTTAT
1 TTATTTATTATTTAT
22942925 TTATTTA
1 TTATTTA
22942932 GTTTCTTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATTTATTATTTAT
Found at i:22943257 original size:3 final size:3
Alignment explanation
Indices: 22943249--22943284 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
22943239 TTTTATTTTC
*
22943249 TAT TAT TAT TAT TAT TAT T-T TAT TAG TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
22943285 CTTCTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:22943273 original size:17 final size:17
Alignment explanation
Indices: 22943251--22943284 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
22943241 TTATTTTCTA
*
22943251 TTATTATTATTATTATT
1 TTATTAGTATTATTATT
22943268 TTATTAGTATTATTATT
1 TTATTAGTATTATTATT
22943285 CTTCTTTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
TTATTAGTATTATTATT
Found at i:22944470 original size:6 final size:6
Alignment explanation
Indices: 22944459--22944522 Score: 56
Period size: 6 Copynumber: 9.8 Consensus size: 6
22944449 TTTGTTTCTC
* * *
22944459 TTTTTA TTTTTA TTTTTTTA TGTTTA TGTTTA ATTTTA TTTTTA GTTGTTTTA
1 TTTTTA TTTTTA --TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA --T-TTTTA
22944512 TTTTTA TTTTT
1 TTTTTA TTTTT
22944523 TTAGACTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
6 36 0.73
7 1 0.02
8 7 0.14
9 5 0.10
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:22944520 original size:26 final size:25
Alignment explanation
Indices: 22944444--22944521 Score: 68
Period size: 26 Copynumber: 2.9 Consensus size: 25
22944434 GGATCAGTGA
*
22944444 TTTTATTTGTTTCTCTTTTTATTTTTAT
1 TTTTA-TTGTTT-TATTTTTA-TTTTAT
* *
22944472 TTTT-TTATGTTTATGTTTAATTTTAT
1 TTTTATTGT-TTTAT-TTTTATTTTAT
22944498 TTTTAGTTGTTTTATTTTTATTTT
1 TTTTA-TTGTTTTATTTTTATTTT
22944522 TTTAGACTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
26 23 0.56
27 11 0.27
28 7 0.17
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (25 bp):
TTTTATTGTTTTATTTTTATTTTAT
Found at i:22951781 original size:8 final size:8
Alignment explanation
Indices: 22951770--22951800 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
22951760 ATGTATATAT
22951770 ATATTTTA
1 ATATTTTA
22951778 ATA-TTTA
1 ATATTTTA
22951785 ATATTTTA
1 ATATTTTA
22951793 ATATTTTA
1 ATATTTTA
22951801 CTATACCCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTTTA
Found at i:22951790 original size:15 final size:15
Alignment explanation
Indices: 22951770--22951798 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
22951760 ATGTATATAT
22951770 ATATTTTAATATTTA
1 ATATTTTAATATTTA
22951785 ATATTTTAATATTT
1 ATATTTTAATATTT
22951799 TACTATACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTTAATATTTA
Found at i:22958259 original size:18 final size:17
Alignment explanation
Indices: 22958232--22958265 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
22958222 ATTAGAATGT
*
22958232 AAAAATTAAATTAAAAC
1 AAAAATTAAAATAAAAC
22958249 AAAAATATAAAATAAAA
1 AAAAAT-TAAAATAAAA
22958266 TAAACAATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAAATTAAAATAAAAC
Found at i:22964774 original size:31 final size:31
Alignment explanation
Indices: 22964715--22964774 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
22964705 TAATATATAA
22964715 AAAATATATAAATATTATTAAATATTAAATT
1 AAAATATATAAATATTATTAAATATTAAATT
* * *
22964746 AAAATAATATAATTTTTTTTAAAT-TTAAA
1 AAAAT-ATATAAATATTATTAAATATTAAA
22964775 AATAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (31 bp):
AAAATATATAAATATTATTAAATATTAAATT
Found at i:22965701 original size:15 final size:16
Alignment explanation
Indices: 22965672--22965705 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22965662 TTTTTATTTT
*
22965672 TATTTTTAATCAAATA
1 TATTTTTAATAAAATA
22965688 TATTTTT-ATAAAATA
1 TATTTTTAATAAAATA
22965703 TAT
1 TAT
22965706 ATATTTTGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTTTTAATAAAATA
Found at i:22976542 original size:18 final size:20
Alignment explanation
Indices: 22976509--22976545 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
22976499 TAAAATATTG
22976509 AAATTATTTCATGAAATAAA
1 AAATTATTTCATGAAATAAA
22976529 AAATTA-TT-ATGAAATAA
1 AAATTATTTCATGAAATAA
22976546 TATAATTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (20 bp):
AAATTATTTCATGAAATAAA
Found at i:22981645 original size:18 final size:18
Alignment explanation
Indices: 22981619--22981662 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22981609 CACAATTTGG
*
22981619 CAAATTAATACAGTTCAC
1 CAAATTAATACAGATCAC
*
22981637 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
22981655 CAAATTAA
1 CAAATTAA
22981663 CATAGTTAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.48, C:0.20, G:0.05, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:22988764 original size:16 final size:16
Alignment explanation
Indices: 22988743--22988775 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22988733 AAGGTTGTTG
22988743 AACTGAAATAGAGTTT
1 AACTGAAATAGAGTTT
22988759 AACTGAAATAGAGTTT
1 AACTGAAATAGAGTTT
22988775 A
1 A
22988776 CTCTTTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
AACTGAAATAGAGTTT
Found at i:22991000 original size:19 final size:19
Alignment explanation
Indices: 22990978--22991120 Score: 117
Period size: 19 Copynumber: 7.4 Consensus size: 19
22990968 ATGCACCTCA
22990978 TGTGCCAATATGCACTTTG
1 TGTGCCAATATGCACTTTG
* *
22990997 TGTGCCAGTATGCGCTTTG
1 TGTGCCAATATGCACTTTG
** *
22991016 TGCACCAGGA-ATGCGCTTTG
1 TGTGCCA--ATATGCACTTTG
* *
22991036 TGTGCCAAGATGCACTTCG
1 TGTGCCAATATGCACTTTG
** *
22991055 TGTGCCAGGATGTACTTTG
1 TGTGCCAATATGCACTTTG
****
22991074 TGTGCCAATATATGTTTTG
1 TGTGCCAATATGCACTTTG
*
22991093 TGTGCCAATAATGCACTTCG
1 TGTGCCAAT-ATGCACTTTG
22991113 TGTGCCAA
1 TGTGCCAA
22991121 GTTGCACATT
Statistics
Matches: 98, Mismatches: 22, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
18 1 0.01
19 69 0.70
20 28 0.29
ACGTcount: A:0.20, C:0.21, G:0.26, T:0.34
Consensus pattern (19 bp):
TGTGCCAATATGCACTTTG
Found at i:22991073 original size:58 final size:57
Alignment explanation
Indices: 22990978--22991119 Score: 151
Period size: 58 Copynumber: 2.5 Consensus size: 57
22990968 ATGCACCTCA
* * * * *
22990978 TGTGCCAATATGCACTTTGTGTGCCAGTATGCGCTTTGTGCACCAGGA-ATGCGCTTTG
1 TGTGCCAAAATGCACTTCGTGTGCCAGGATGCACTTTGTGCACCA--ATATACGCTTTG
* * ** * *
22991036 TGTGCCAAGATGCACTTCGTGTGCCAGGATGTACTTTGTGTGCCAATATATGTTTTG
1 TGTGCCAAAATGCACTTCGTGTGCCAGGATGCACTTTGTGCACCAATATACGCTTTG
22991093 TGTGCCAATAATGCACTTCGTGTGCCA
1 TGTGCCAA-AATGCACTTCGTGTGCCA
22991120 AGTTGCACAT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
56 1 0.01
57 15 0.21
58 55 0.77
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (57 bp):
TGTGCCAAAATGCACTTCGTGTGCCAGGATGCACTTTGTGCACCAATATACGCTTTG
Found at i:22991093 original size:77 final size:77
Alignment explanation
Indices: 22990962--22991136 Score: 179
Period size: 77 Copynumber: 2.3 Consensus size: 77
22990952 CACTTCATAC
* * * * *
22990962 GCCATGATGCACCTCATGTGCCAATATGCACTTTGTGTGCCAGTATGCGCTTTGTGCACCAGGAA
1 GCCAAGATGCACCTCATGTGCCAAGATGCACTTTGTGTGCCAATATACGCTTTGTGCACCAAGAA
* *
22991027 TGCGCTTTGTGT
66 TGCACTTCGTGT
* * * * * * ** *
22991039 GCCAAGATGCACTTCGTGTGCCAGGATGTACTTTGTGTGCCAATATATGTTTTGTGTGCCAATAA
1 GCCAAGATGCACCTCATGTGCCAAGATGCACTTTGTGTGCCAATATACGCTTTGTGCACCAAGAA
22991104 TGCACTTCGTGT
66 TGCACTTCGTGT
* * *
22991116 GCCAAGTTGCACATTATGTGC
1 GCCAAGATGCACCTCATGTGC
22991137 TAGTTACCCT
Statistics
Matches: 78, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (77 bp):
GCCAAGATGCACCTCATGTGCCAAGATGCACTTTGTGTGCCAATATACGCTTTGTGCACCAAGAA
TGCACTTCGTGT
Found at i:22992318 original size:27 final size:27
Alignment explanation
Indices: 22992280--22992336 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
22992270 GGCATTACAT
22992280 GGTTGCTGAAAAGTAAACGTGACCACG
1 GGTTGCTGAAAAGTAAACGTGACCACG
*
22992307 GGTTGCTGAAAAGTAAACGTGATCACG
1 GGTTGCTGAAAAGTAAACGTGACCACG
22992334 GGT
1 GGT
22992337 CATTCATCTT
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:0.32, C:0.16, G:0.32, T:0.21
Consensus pattern (27 bp):
GGTTGCTGAAAAGTAAACGTGACCACG
Found at i:22994324 original size:11 final size:11
Alignment explanation
Indices: 22994310--22994353 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
22994300 AGATAAATAT
22994310 TATTTTATTAA
1 TATTTTATTAA
*
22994321 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
22994334 TATTTTATTAT
1 TATTTTATTAA
22994345 TATTTTATT
1 TATTTTATT
22994354 TAGTATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 15 0.54
12 6 0.21
13 7 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:22994521 original size:13 final size:13
Alignment explanation
Indices: 22994503--22994529 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22994493 AAAAGAATTT
22994503 CCATAGCTACCAA
1 CCATAGCTACCAA
22994516 CCATAGCTACCAA
1 CCATAGCTACCAA
22994529 C
1 C
22994530 AGTGTAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.41, G:0.07, T:0.15
Consensus pattern (13 bp):
CCATAGCTACCAA
Found at i:22994850 original size:21 final size:20
Alignment explanation
Indices: 22994812--22994874 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
22994802 ATTCAATTTC
22994812 TCAATCC-AAT-ATA-CATT
1 TCAATCCAAATAATATCATT
22994829 TCAATACCACAATAAT-TCATT
1 TCAAT-CCA-AATAATATCATT
*
22994850 T-AATTCAAATAATATCATT
1 TCAATCCAAATAATATCATT
22994869 TGCAAT
1 T-CAAT
22994875 TTCCATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 5 0.14
18 8 0.22
19 8 0.22
20 6 0.16
21 10 0.27
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAATCCAAATAATATCATT
Found at i:22994921 original size:16 final size:18
Alignment explanation
Indices: 22994884--22994921 Score: 55
Period size: 15 Copynumber: 2.3 Consensus size: 18
22994874 TTTCCATTTA
22994884 ATTCATGTACAGTTCAAT
1 ATTCATGTACAGTTCAAT
22994902 -TTCAT-TA-AGTTCAAT
1 ATTCATGTACAGTTCAAT
22994917 ATTCA
1 ATTCA
22994922 ATTCAATTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.42
16 6 0.32
17 5 0.26
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTCATGTACAGTTCAAT
Found at i:22995096 original size:51 final size:50
Alignment explanation
Indices: 22995036--22995173 Score: 154
Period size: 50 Copynumber: 2.7 Consensus size: 50
22995026 ATGTTCGGTT
*
22995036 CACATAGTAGCCTGCACATAGTACTACACACGTGA-TTGAA-ACTATCAGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCT-AACA-T-TCAGGTA
* * * * * * *
22995087 CGCATAGTAGCCTGCACATAGTTCTACAAATGCGACCTATCATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAACATTCAGGTA
*
22995137 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACC
22995174 ATCACTTTCA
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
50 37 0.52
51 32 0.45
52 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAACATTCAGGTA
Found at i:22999291 original size:13 final size:13
Alignment explanation
Indices: 22999273--22999310 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
22999263 TGCAAATGAA
22999273 TCATTTCTCATTT
1 TCATTTCTCATTT
22999286 TCATTTCT-ATTT
1 TCATTTCTCATTT
*
22999298 CCATTTC-CATTT
1 TCATTTCTCATTT
22999310 T
1 T
22999311 GAGAAAACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 14 0.64
13 8 0.36
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (13 bp):
TCATTTCTCATTT
Found at i:22999362 original size:45 final size:46
Alignment explanation
Indices: 22999311--22999400 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 46
22999301 TTTCCATTTT
* *
22999311 GAGAAAACCACATTTATTTTCAAAT-TATTTCATTTCTCTATTTCG
1 GAGAAAACCACAATCATTTTCAAATGTATTTCATTTCTCTATTTCG
* * *
22999356 GAGAAAACCATAATCATTTTTAAATGTTTTTCATTTCTCTATTTC
1 GAGAAAACCACAATCATTTTCAAATGTATTTCATTTCTCTATTTC
22999401 TATTCATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 21 0.54
46 18 0.46
ACGTcount: A:0.31, C:0.17, G:0.07, T:0.46
Consensus pattern (46 bp):
GAGAAAACCACAATCATTTTCAAATGTATTTCATTTCTCTATTTCG
Found at i:23002310 original size:20 final size:20
Alignment explanation
Indices: 23002285--23002325 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
23002275 TAAGGTATAT
23002285 GTGTATGAAAACTAGTGAAA
1 GTGTATGAAAACTAGTGAAA
23002305 GTGTATGAAAACTAGTGAAA
1 GTGTATGAAAACTAGTGAAA
23002325 G
1 G
23002326 CATTTGGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.05, G:0.27, T:0.24
Consensus pattern (20 bp):
GTGTATGAAAACTAGTGAAA
Found at i:23003608 original size:18 final size:18
Alignment explanation
Indices: 23003581--23003622 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23003571 ATACTTTATA
* *
23003581 ATTTTTTTTTGAAGTATT
1 ATTTTATTTTGAAGAATT
*
23003599 ATTTTATTTTTAAGAATT
1 ATTTTATTTTGAAGAATT
23003617 -TTTTAT
1 ATTTTAT
23003623 ATTTTTATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (18 bp):
ATTTTATTTTGAAGAATT
Found at i:23004219 original size:22 final size:22
Alignment explanation
Indices: 23004175--23004214 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
23004165 ATAATTTAAA
23004175 ATATAAAATTTTATTAATATGT
1 ATATAAAATTTTATTAATATGT
23004197 ATAT-AAA-TTTATTAATAT
1 ATATAAAATTTTATTAATAT
23004215 ATGTAAAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 3 0.17
22 4 0.22
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (22 bp):
ATATAAAATTTTATTAATATGT
Found at i:23004350 original size:19 final size:20
Alignment explanation
Indices: 23004312--23004351 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
23004302 AAATATTTTT
* *
23004312 AGTAAATTATTTTTTAAAAA
1 AGTAAATCATTTTCTAAAAA
23004332 AGTAAATCATTTTCTAAAAA
1 AGTAAATCATTTTCTAAAAA
23004352 TTATTTTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (20 bp):
AGTAAATCATTTTCTAAAAA
Found at i:23010079 original size:40 final size:41
Alignment explanation
Indices: 23010026--23010172 Score: 161
Period size: 44 Copynumber: 3.5 Consensus size: 41
23010016 ACTCTACTGT
** * * * * *
23010026 AACTTCAAAGAGATAAGATC-ATTTTGATCCGCTCTACTGC
1 AACTTCAGGGAGATAGGATCTATTTTAATCCGCTCCAATAC
*
23010066 AACTTCAGGGAGATAGGATCTATTACTTCAATCCGCTCCAATAT
1 AACTTCAGGGAGATAGGATCTATT--TT-AATCCGCTCCAATAC
23010110 AACTTCAGGGAGATAGGATCTATTAGTTTAATCCGCTCCAATAC
1 AACTTCAGGGAGATAGGATCTA-T--TTTAATCCGCTCCAATAC
23010154 AACTTCAGGGAGATAGGAT
1 AACTTCAGGGAGATAGGAT
23010173 TATCGGCTTC
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
40 17 0.19
41 3 0.03
43 2 0.02
44 65 0.71
45 3 0.03
47 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (41 bp):
AACTTCAGGGAGATAGGATCTATTTTAATCCGCTCCAATAC
Found at i:23010114 original size:44 final size:44
Alignment explanation
Indices: 23010065--23010212 Score: 190
Period size: 44 Copynumber: 3.4 Consensus size: 44
23010055 CGCTCTACTG
23010065 CAACTTCAGGGAGATAGGATCTATTACTTCAATCCGCTCCAATA
1 CAACTTCAGGGAGATAGGATCTATTACTTCAATCCGCTCCAATA
* * *
23010109 TAACTTCAGGGAGATAGGATCTATTAGTTTAATCCGCTCCAATA
1 CAACTTCAGGGAGATAGGATCTATTACTTCAATCCGCTCCAATA
** ** * *
23010153 CAACTTCAGGGAGATAGGAT-TATCGGCTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAGGATCTAT-TACTTCAATCCGCTCCAATA
*
23010197 CAACCTCAGGGAGATA
1 CAACTTCAGGGAGATA
23010213 AGATTTGCCA
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 3 0.03
44 87 0.97
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAGGATCTATTACTTCAATCCGCTCCAATA
Found at i:23025747 original size:28 final size:27
Alignment explanation
Indices: 23025704--23025760 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
23025694 TAGTTCATGT
23025704 CTTCTCCAACAATCAAACAGTGGGAGGC
1 CTTCTCCAACAATCAAACA-TGGGAGGC
* *
23025732 CTTCTCCAACAGTCAAACATTGGAGGC
1 CTTCTCCAACAATCAAACATGGGAGGC
23025759 CT
1 CT
23025761 CGAAAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.21
Consensus pattern (27 bp):
CTTCTCCAACAATCAAACATGGGAGGC
Found at i:23040665 original size:60 final size:59
Alignment explanation
Indices: 23040548--23040665 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
23040538 TGTACTAGTA
*
23040548 GTCACTCAACTATTAGTAAATTTCTTTTTTGACACTCAATTATGAAAAGTTACAAAATG
1 GTCACCCAACTATTAGTAAATTTCTTTTTTGACACTCAATTATGAAAAGTTACAAAATG
* * * *
23040607 GTCACCCAATTATTAGTAAATTTCTTTTTTAGTCACTCAATTATTAAAAGTTATAAAAT
1 GTCACCCAACTATTAGTAAATTTCTTTTTT-GACACTCAATTATGAAAAGTTACAAAAT
23040666 TTTTACTCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
59 28 0.53
60 25 0.47
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.40
Consensus pattern (59 bp):
GTCACCCAACTATTAGTAAATTTCTTTTTTGACACTCAATTATGAAAAGTTACAAAATG
Found at i:23043604 original size:38 final size:38
Alignment explanation
Indices: 23043561--23043636 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
23043551 TGGCGACATT
* * *
23043561 ATGAAAGTGGTTATTTACAGGCTCTACGAAGCGACACC
1 ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
* *
23043599 ATGAAAATGGTTATCTATAGGCTCTACGGAGCAACACC
1 ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
23043637 TTGGAAGAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (38 bp):
ATGAAAATGGTTATCTACAGGCTCTACGAAGCAACACC
Found at i:23054422 original size:12 final size:13
Alignment explanation
Indices: 23054405--23054433 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
23054395 TTTCACATTT
23054405 TTTTATTTTCA-A
1 TTTTATTTTCACA
23054417 TTTTATTTTCACA
1 TTTTATTTTCACA
23054430 TTTT
1 TTTT
23054434 TCTGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.21, C:0.10, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTTTCACA
Found at i:23064491 original size:15 final size:15
Alignment explanation
Indices: 23064471--23064501 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
23064461 CTTGAATTAA
23064471 TATGTCATAATATAG
1 TATGTCATAATATAG
23064486 TATGTCATAATATAG
1 TATGTCATAATATAG
23064501 T
1 T
23064502 TCTCAATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (15 bp):
TATGTCATAATATAG
Found at i:23070208 original size:99 final size:99
Alignment explanation
Indices: 23070007--23070249 Score: 339
Period size: 99 Copynumber: 2.5 Consensus size: 99
23069997 ATCTGTTTAA
* * * *
23070007 AATGTCAGGGAAGCGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGTACCTGCTTAGGAATA
1 AATGTCAGGGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCTACTTAGGAATA
* * *
23070072 AGATTTGCCGTTGTGGCCTCAATCTTTTAATTGC
66 AGATCTGCCGTCGTGGCCTCAATCTTTTAATTAC
* * *
23070106 AATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCA-TTACTT-GGAAGT
1 AATGTCAGGGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCTACTTAGGAA-T
23070169 AAGATCTGCCGTCGTGGCCTCAATCTTTTAAATTAC
65 AAGATCTGCCGTCGTGGCCTCAATCTTTT-AATTAC
*
23070205 AATGTC-GAGGGAGTGAGATCCGCCATTGTAGCTTCAATCTGTTCC
1 AATGTCAG-GGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCC
23070250 TCTAGATCGC
Statistics
Matches: 129, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
97 4 0.03
98 33 0.26
99 92 0.71
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.32
Consensus pattern (99 bp):
AATGTCAGGGGAGTGAGATTCGCCATTGTAGCTTCAATCTGTTCCACTGCACCTACTTAGGAATA
AGATCTGCCGTCGTGGCCTCAATCTTTTAATTAC
Found at i:23070388 original size:166 final size:165
Alignment explanation
Indices: 23070100--23070413 Score: 488
Period size: 166 Copynumber: 1.9 Consensus size: 165
23070090 TCAATCTTTT
*
23070100 AATTGCAATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTACTTGG
1 AATTGCAATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTACTAGG
* *
23070165 AAGTAAGATCTGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGGAGTGAGATCCGCCA
66 AAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGGAGTGAGATCCACCA
23070230 TTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGA
131 TTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGA
* * * *
23070265 AATTGCAATGTC-GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTGCATTGCTAA
1 AATTGCAATGTCAGGGG-AGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTACT-A
* * *
23070329 GTAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCG-GGGAAGTGAGATTCA
64 GGAAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGG-AGTGAGATCCA
*
23070393 CCGTTGTAGCTTCAATCTGTT
128 CCATTGTAGCTTCAATCTGTT
23070414 TTGCTACATT
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
164 4 0.03
165 56 0.41
166 75 0.56
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (165 bp):
AATTGCAATGTCAGGGGAGTAAGATTCGCCATTGTAGCTTCAATCTGTTCCGCTGCATTACTAGG
AAGTAAGATCCGCCGTCGTGGCCTCAATCTTTTAAATTACAATGTCGAGGGAGTGAGATCCACCA
TTGTAGCTTCAATCTGTTCCTCTAGATCGCTTGGA
Found at i:23070524 original size:96 final size:96
Alignment explanation
Indices: 23070277--23071542 Score: 1633
Period size: 96 Copynumber: 13.0 Consensus size: 96
23070267 TTGCAATGTC
* * * * *
23070277 GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTGCATTG-CTAAGTAAGTAAGATC
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCT--GAAAGTAAGATT
* * * *
23070341 CGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGT
64 CGCCGTTGTGGCTTCGATCTTTTTAATTGCAA--T
* * ** * * *
23070376 CGGGGAAGTGAGATTCACCGTTGTAGCTTCAATCTGTTTTGCTACATTGCCTGAAAGTAAGATTT
1 -GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTC
* *
23070441 TCCATTGTGGCTTCGATCTTTTTAATTGCAAT
65 GCCGTTGTGGCTTCGATCTTTTTAATTGCAAT
*
23070473 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
23070538 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
* * * * * *
23070569 GTTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAATG-ATGTGAG
1 G---GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGAAAGTAAG
* * * * * * *
23070633 ACTCGCTGTTGTAGCTTCAATCTATTTGACTGCAATGTT
61 ATTCGCCGTTGTGGCTTCGATCTTTTTAATTGCAA---T
* * *** *
23070672 GGGGAAGTGAGACTTGCTGTTGTAGCTTCAATCTGTTCTATTGCGTCGCCT-AGAAGTAAGATTC
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGA-AAGTAAGATTC
23070736 GCCGTTGTGGCTTCGATC-TTTTAGATTGCAAT
65 GCCGTTGTGGCTTCGATCTTTTTA-ATTGCAAT
* **
23070768 GGGGAAGTGAGACTCACCGTTGTAGCTTCAATCTGTTATGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
23070833 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
* * * * * * *
23070864 GTTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGTTGTATCGCCAATG-ATGTGAG
1 G---GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TGAAAGTAAG
* * * * * * *
23070928 ACTCGCTGTTGTAGCTTCAATCTATTTGACTGCAATGTT
61 ATTCGCCGTTGTGGCTTCGATCTTTTTAATTGCAA---T
* * * *
23070967 GGGGAAGTGAGACTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCGTCGCCTGGAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
*
23071032 CCGTTGTGGCTTCGATCTTTTAAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
23071063 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
* *
23071128 CCGTTGTGGCTTCAATCTTTTAAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
* * *
23071159 GGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCTGGAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
* *
23071224 CCGTTGTGGCTTCGATCTTTTAAATTGTAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
23071255 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
* *
23071320 CCGTTATGGCTTCGATCTTTTAAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
* *
23071351 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGTCTGAAAGTAAGATTTG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
* *
23071416 CTGTTGTGGCTTCGATCTTTTAAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
23071447 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
1 GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
23071512 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
66 CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
23071543 CTATGGTTAC
Statistics
Matches: 1033, Mismatches: 110, Indels: 50
0.87 0.09 0.04
Matches are distributed among these distances:
96 630 0.61
97 7 0.01
98 6 0.01
99 181 0.18
100 199 0.19
101 6 0.01
103 4 0.00
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (96 bp):
GGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCG
CCGTTGTGGCTTCGATCTTTTTAATTGCAAT
Found at i:23070795 original size:295 final size:293
Alignment explanation
Indices: 23070264--23071542 Score: 1749
Period size: 295 Copynumber: 4.4 Consensus size: 293
23070254 GATCGCTTGG
* * * *
23070264 AAATTGCAATGTCGGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTTCGCTGCATTGCTAA
1 AAATTGCAATGT--GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAA
* * * * * *
23070329 -GTAAGTAAGA-TCCGCCGTCGTGGCCTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTC
64 TG-AAGTAAGACT-CGCCGTTGTAGCTTCAATCTTTTAAACTGCAATGTTGGGGAAGTGAGACTC
* ** * * ** *
23070392 ACCGTTGTAGCTTCAATCTGTTTTGCTACATTGCCTGAAAGTAAGATTTTCCATTGTGGCTTCGA
127 GCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGA
* *
23070457 TCTTTTTAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCTGCTGCATCGC
192 TCTTTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGC
23070522 CTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
257 CTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
* * *
23070559 TAATTGCAATGTTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAA
1 AAATTGCAATG-T-GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAA
* * * * *
23070624 TGATGTGAGACTCGCTGTTGTAGCTTCAATCTATTT-GACTGCAATGTTGGGGAAGTGAGACTTG
64 TGAAGTAAGACTCGCCGTTGTAGCTTCAATCT-TTTAAACTGCAATGTTGGGGAAGTGAGACTCG
* *** *
23070688 CTGTTGTAGCTTCAATCTGTTCTATTGCGTCGCCT-AGAAGTAAGATTCGCCGTTGTGGCTTCGA
128 CCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGA-AAGTAAGATTCGCCGTTGTGGCTTCGA
* * **
23070752 TCTTTTAGATTGCAATGGGGAAGTGAGACTCACCGTTGTAGCTTCAATCTGTTATGCTGCATCGC
192 TCTTTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGC
23070817 CTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
257 CTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
* * * *
23070854 TAATTGCAATGTTAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTGTTCCGTTGTATCGCCAA
1 AAATTGCAATG-T-GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAA
* * * *
23070919 TGATGTGAGACTCGCTGTTGTAGCTTCAATCTATTT-GACTGCAATGTTGGGGAAGTGAGACTCG
64 TGAAGTAAGACTCGCCGTTGTAGCTTCAATCT-TTTAAACTGCAATGTTGGGGAAGTGAGACTCG
* * * *
23070983 CTGTTGTAGCTTCAATCTGTTCCGTTGCGTCGCCTGGAAGTAAGATTCGCCGTTGTGGCTTCGAT
128 CCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGAT
23071048 CTTTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
193 CTTTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC
*
23071113 TGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTT
258 TGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
23071149 AAATTGCAATG-GGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCC--TG
1 AAATTGCAATGTGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAAT-
* * * * *
23071211 GAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTAAATTGTAA---TGGGGAAGTGAGACTCGCC
65 GAAGTAAGACTCGCCGTTGTAGCTTCAATCTTTTAAACTGCAATGTTGGGGAAGTGAGACTCGCC
*
23071273 GTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTATGGCTTCGATCT
130 GTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCT
*
23071338 TTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGTCTG
195 TTTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTG
* *
23071403 AAAGTAAGATTTGCTGTTGTGGCTTCGATCTTTT
260 AAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
* *
23071437 AAATTGCAATG-GGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCC--TG
1 AAATTGCAATGTGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAATG
* * * * *
23071499 AAAGTAAGATTCGCCGTTGTGGCTTCGATCTTTTTAATTGCAAT
66 -AAGTAAGACTCGCCGTTGTAGCTTCAATCTTTTAAACTGCAAT
23071543 CTATGGTTAC
Statistics
Matches: 904, Mismatches: 70, Indels: 26
0.90 0.07 0.03
Matches are distributed among these distances:
287 1 0.00
288 273 0.30
290 4 0.00
291 30 0.03
292 46 0.05
294 1 0.00
295 543 0.60
296 6 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (293 bp):
AAATTGCAATGTGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGTTCCGTTGCATCGCCAATG
AAGTAAGACTCGCCGTTGTAGCTTCAATCTTTTAAACTGCAATGTTGGGGAAGTGAGACTCGCCG
TTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGAAAGTAAGATTCGCCGTTGTGGCTTCGATCTT
TTAAATTGCAATGGGGAAGTGAGACTCGCCGTTGTAGCTTCAATCTGTTCCGCTGCATCGCCTGA
AAGTAAGATTCGCCGTTGTGGCTTCGATCTTTT
Found at i:23085581 original size:14 final size:15
Alignment explanation
Indices: 23085549--23085584 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23085539 TTTTATAAAA
*
23085549 TTGGGCTTGGGTGTT
1 TTGGGCTTCGGTGTT
23085564 TTGGGCTTCGGT-TT
1 TTGGGCTTCGGTGTT
23085578 TTGGGCT
1 TTGGGCT
23085585 GTATTTGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.00, C:0.11, G:0.42, T:0.47
Consensus pattern (15 bp):
TTGGGCTTCGGTGTT
Found at i:23085984 original size:23 final size:20
Alignment explanation
Indices: 23085957--23086009 Score: 52
Period size: 23 Copynumber: 2.5 Consensus size: 20
23085947 TTTAAAAAGA
23085957 ACAATATTAAGGTTTATTTATT
1 ACAATATTAA-GTTTA-TTATT
* *
23085979 GACAATAATAATTTTATTATT
1 -ACAATATTAAGTTTATTATT
*
23086000 AAAATATTAA
1 ACAATATTAA
23086010 TGTAAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 8 0.31
21 5 0.19
22 4 0.15
23 9 0.35
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (20 bp):
ACAATATTAAGTTTATTATT
Found at i:23086326 original size:13 final size:13
Alignment explanation
Indices: 23086304--23086333 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23086294 AAAAATAAAA
23086304 AAAATATTATTTT
1 AAAATATTATTTT
*
23086317 AAAATTTTATTTT
1 AAAATATTATTTT
23086330 AAAA
1 AAAA
23086334 ATCACATCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AAAATATTATTTT
Found at i:23086469 original size:10 final size:10
Alignment explanation
Indices: 23086456--23086532 Score: 52
Period size: 10 Copynumber: 7.5 Consensus size: 10
23086446 TATTAAAATT
23086456 AAAATTAATA
1 AAAATTAATA
*
23086466 AAAAATAATTA
1 AAAATTAA-TA
23086477 TAAGAAGTT-ATA
1 -AA-AA-TTAATA
* *
23086489 AAAACTAATT
1 AAAATTAATA
23086499 AAAATTAATA
1 AAAATTAATA
23086509 AAATATT--TA
1 AAA-ATTAATA
*
23086518 AAAATTATTA
1 AAAATTAATA
23086528 AAAAT
1 AAAAT
23086533 CACGCTTGGA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.06
9 6 0.11
10 29 0.55
11 7 0.13
12 4 0.08
13 3 0.06
14 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (10 bp):
AAAATTAATA
Found at i:23091289 original size:8 final size:9
Alignment explanation
Indices: 23091266--23091292 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
23091256 ATTTCCCTTG
23091266 GATTTTTGT
1 GATTTTTGT
23091275 GATTTTTGT
1 GATTTTTGT
23091284 GATTTTTGT
1 GATTTTTGT
23091293 CTTAAACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.22, T:0.67
Consensus pattern (9 bp):
GATTTTTGT
Found at i:23091823 original size:46 final size:46
Alignment explanation
Indices: 23091731--23091830 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 46
23091721 GGCGGTTTAT
* * *
23091731 CCACAT-T-TTTGTCTGGTAGCTTAATTGCAATTATAGTGGCTTGA
1 CCACATATATTTGTCTGGCAGCTTAACTGCAATTACAGTGGCTTGA
*
23091775 CCACATATATTTGTTCTGGCAGCTTACCTGCAA-TACAGTGG-TTCGA
1 CCACATATATTTG-TCTGGCAGCTTAACTGCAATTACAGTGGCTT-GA
*
23091821 CCACACATAT
1 CCACATATAT
23091831 ATTATGATCT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
44 6 0.13
45 3 0.06
46 22 0.47
47 16 0.34
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (46 bp):
CCACATATATTTGTCTGGCAGCTTAACTGCAATTACAGTGGCTTGA
Found at i:23094030 original size:18 final size:17
Alignment explanation
Indices: 23093997--23094035 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23093987 TTTTATAAAT
23093997 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23094015 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23094032 TGTG
1 TGTG
23094036 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23094288 original size:23 final size:23
Alignment explanation
Indices: 23094253--23094328 Score: 75
Period size: 23 Copynumber: 3.3 Consensus size: 23
23094243 AATGTTGTTG
*
23094253 ATCAATGGTAGCTTTAGCTACAT
1 ATCAGTGGTAGCTTTAGCTACAT
*
23094276 TTCAGTGGTAGC--TACGACTACAT
1 ATCAGTGGTAGCTTTA-G-CTACAT
* **
23094299 ATCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTTAGCTACAT
23094322 ATCAGTG
1 ATCAGTG
23094329 TGGCACTTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
21 2 0.05
22 1 0.02
23 39 0.91
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTTAGCTACAT
Found at i:23101447 original size:18 final size:17
Alignment explanation
Indices: 23101414--23101452 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
23101404 TTTTATAAAT
23101414 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
23101432 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
23101449 TGTG
1 TGTG
23101453 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:23101704 original size:23 final size:23
Alignment explanation
Indices: 23101671--23101746 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
23101661 AGTGTTGTTG
23101671 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * ** *
23101694 TTGAGTGGTAGCTAGGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
23101717 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
23101740 ATCAGTG
1 ATCAGTG
23101747 TGGCACTTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:23103483 original size:23 final size:23
Alignment explanation
Indices: 23103457--23103532 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
23103447 ATAAGTGTCA
* *
23103457 CACTGATATATAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23103480 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23103503 CACTG-TAATGTAGCCGTAGCTAC
1 CACTGAT-ATGTAGCCGAAGCTAC
23103526 CACTGAT
1 CACTGAT
23103533 CAATAACACT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
22 1 0.02
23 46 0.96
24 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:23106371 original size:16 final size:16
Alignment explanation
Indices: 23106338--23106378 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
23106328 CGTGGTTAAA
*
23106338 TATTATTATTATTCTT
1 TATTATTATTATTATT
23106354 TATTATTATT-TCTATT
1 TATTATTATTAT-TATT
23106370 TATT-TTATT
1 TATTATTATT
23106379 GTTCGTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTATTATTATTATT
Found at i:23118787 original size:87 final size:87
Alignment explanation
Indices: 23118685--23118860 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
23118675 AGAGAAGTCG
* *
23118685 GATCATGACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAATGAGACTTTTCTTT
1 GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
23118750 TAAACTAAGAGAAAATGCCCTA
66 TAAACTAAGAGAAAATGCCCTA
* *
23118772 GATCATAACAGCTAACACAAATGCCGAATCACATTGTCGATGGTGAATAAAGGGGACTTTTCTTT
1 GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
23118837 TAAACTAAGAGAAAATGCCCTA
66 TAAACTAAGAGAAAATGCCCTA
23118859 GA
1 GA
23118861 CAAATATGAC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (87 bp):
GATCATAACAGCTAACACAAAGGCCGAATCACATTGTCGATGGTGAATAAAGGAGACTTTTCTTT
TAAACTAAGAGAAAATGCCCTA
Found at i:23118983 original size:16 final size:16
Alignment explanation
Indices: 23118957--23118996 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
23118947 GGTTTGGGTG
*
23118957 GATTATTTCGAGTT-T
1 GATTTTTTCGAGTTAT
23118972 GAGTTTTTTCGAGTTAT
1 GA-TTTTTTCGAGTTAT
23118989 GATTTTTT
1 GATTTTTT
23118997 TAGGTTCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.17, C:0.05, G:0.20, T:0.57
Consensus pattern (16 bp):
GATTTTTTCGAGTTAT
Found at i:23127134 original size:6 final size:6
Alignment explanation
Indices: 23127123--23127152 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
23127113 TAGAAACATA
23127123 AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT
23127153 TTAGAAGGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:23145526 original size:46 final size:45
Alignment explanation
Indices: 23145474--23145561 Score: 110
Period size: 46 Copynumber: 1.9 Consensus size: 45
23145464 GACTCCATGG
23145474 ATTTTGA-AA-TTATA-TATTTTAACATGATTTTTAATATTTTTTAATA
1 ATTTTGATAATTTATACTATTTTAA-AT--TTTTTAA-ATTTTTTAATA
23145520 ATTTTGATAATTTATATCTATTTTAAATTTTTTAAATTTTTT
1 ATTTTGATAATTTATA-CTATTTTAAATTTTTTAAATTTTTT
23145562 TAGAATTATT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
46 14 0.37
47 9 0.24
48 5 0.13
49 2 0.05
50 8 0.21
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.60
Consensus pattern (45 bp):
ATTTTGATAATTTATACTATTTTAAATTTTTTAAATTTTTTAATA
Found at i:23146472 original size:28 final size:28
Alignment explanation
Indices: 23146419--23146474 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
23146409 GGCATAAGTG
* * *
23146419 TATATATTATGAATTTTTAAAGTTAAAA
1 TATATATTATGAATATTAAAAATTAAAA
23146447 TATATATTAT-AATATTAAAATATTAAAA
1 TATATATTATGAATATTAAAA-ATTAAAA
23146475 GTTAAAAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.33
28 16 0.67
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (28 bp):
TATATATTATGAATATTAAAAATTAAAA
Found at i:23146498 original size:5 final size:5
Alignment explanation
Indices: 23146490--23146518 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23146480 AAGTTAAGTA
23146490 TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATA
23146519 ATAATTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:23147295 original size:24 final size:24
Alignment explanation
Indices: 23147268--23147314 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23147258 ATTGAAATGG
23147268 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGACTGAATTT
23147292 ATTGAATTTATATTGACTGAATT
1 ATTGAATTTATATTGACTGAATT
23147315 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 13 0.62
25 5 0.24
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.49
Consensus pattern (24 bp):
ATTGAATTTATATTGACTGAATTT
Found at i:23147891 original size:31 final size:33
Alignment explanation
Indices: 23147856--23147923 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
23147846 CAAATGATGA
* *
23147856 GAATTGAGTATGGAATGAATGATGT-ATT-TAT
1 GAATTGAATATGGAATGAATAATGTCATTGTAT
* *
23147887 GAATTGAATATTGAATGACTAATGTCATTGTAT
1 GAATTGAATATGGAATGAATAATGTCATTGTAT
23147920 GAAT
1 GAAT
23147924 AAATGTGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 21 0.68
32 3 0.10
33 7 0.23
ACGTcount: A:0.37, C:0.03, G:0.22, T:0.38
Consensus pattern (33 bp):
GAATTGAATATGGAATGAATAATGTCATTGTAT
Found at i:23149099 original size:26 final size:26
Alignment explanation
Indices: 23149063--23149115 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
23149053 AGTATTTACT
*
23149063 TAAAGAGGCTATATGATTGAGGGTGG
1 TAAAGAGGCTATATGATTGAAGGTGG
23149089 TAAAGAGGCTATATGATTGAAGGTGG
1 TAAAGAGGCTATATGATTGAAGGTGG
23149115 T
1 T
23149116 GAATGAATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.32, C:0.04, G:0.36, T:0.28
Consensus pattern (26 bp):
TAAAGAGGCTATATGATTGAAGGTGG
Found at i:23149649 original size:6 final size:6
Alignment explanation
Indices: 23149635--23149667 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
23149625 CTTAAAACAC
23149635 AAAAA- AAAAAG AAAAAG AAAAAG AAAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG -AAAAAG AAA
23149668 CACTTTTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 15 0.58
7 6 0.23
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:23149800 original size:21 final size:21
Alignment explanation
Indices: 23149767--23149836 Score: 99
Period size: 20 Copynumber: 3.4 Consensus size: 21
23149757 GTTTCTTTTG
*
23149767 AATCGATTTTTTGTTGTCTTA
1 AATCGATTCTTTGTTGTCTTA
*
23149788 AATTGATTCTTTGTTGT-TTA
1 AATCGATTCTTTGTTGTCTTA
23149808 AATCGATTCTTTGTTG-CTTA
1 AATCGATTCTTTGTTGTCTTA
*
23149828 ACTCGATTC
1 AATCGATTC
23149837 AAACGTCAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.66
21 15 0.34
ACGTcount: A:0.20, C:0.13, G:0.14, T:0.53
Consensus pattern (21 bp):
AATCGATTCTTTGTTGTCTTA
Found at i:23160718 original size:30 final size:30
Alignment explanation
Indices: 23160682--23160743 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
23160672 AAATTATGAG
23160682 TTAGTGGGAAGAGATGGAACAAACATTGAC
1 TTAGTGGGAAGAGATGGAACAAACATTGAC
23160712 TTAGTGGGAAGAGATGGAACAAACATTGAC
1 TTAGTGGGAAGAGATGGAACAAACATTGAC
23160742 TT
1 TT
23160744 CTTTTTCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.10, G:0.29, T:0.23
Consensus pattern (30 bp):
TTAGTGGGAAGAGATGGAACAAACATTGAC
Found at i:23165423 original size:13 final size:13
Alignment explanation
Indices: 23165407--23165448 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
23165397 AAATGGACTA
*
23165407 TTTTTTATTTGTT
1 TTTTTTATTTATT
23165420 TTTTTTATTATATT
1 TTTTTTATT-TATT
23165434 TTTGTTTATTTATT
1 TTT-TTTATTTATT
23165448 T
1 T
23165449 CTGATTTGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (13 bp):
TTTTTTATTTATT
Found at i:23167219 original size:48 final size:48
Alignment explanation
Indices: 23167143--23167299 Score: 219
Period size: 48 Copynumber: 3.3 Consensus size: 48
23167133 TGATGATAAG
* *
23167143 ATGCTGTCCAAATTGGTGCTTAATTGCTGTCCATTTTTTAGCATACTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
* * * *
23167191 ATTCTGTCTAAATTAGTGCTTAAATGCTGTCCATTTTTTGGCATATTA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
*
23167239 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTTA-CA-AATCA
1 ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCA-TTTTTTAGCATACT-A
23167287 ATGCTGTCCAAAT
1 ATGCTGTCCAAAT
23167300 GTTGTTACTG
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
47 2 0.02
48 89 0.92
49 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (48 bp):
ATGCTGTCCAAATTAGTGCTTAAATGCTGTCCATTTTTTAGCATACTA
Found at i:23167270 original size:23 final size:23
Alignment explanation
Indices: 23167143--23167271 Score: 82
Period size: 23 Copynumber: 5.4 Consensus size: 23
23167133 TGATGATAAG
*
23167143 ATGCTGTCCAAATTGGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* * ** *
23167166 TTGCTGTCC-ATTTTTTAGCATACTA
1 ATGCTGTCCAAATTAGT-GCTTA--A
* *
23167191 ATTCTGTCTAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
* ** *
23167214 ATGCTGTCC-ATTTTTTGGCATATTA
1 ATGCTGTCCAAATTAGT-GC-T-TAA
23167239 ATGCTGTCCAAATTAGTGCTTAA
1 ATGCTGTCCAAATTAGTGCTTAA
23167262 ATGCTGTCCA
1 ATGCTGTCCA
23167272 TTTTTTTACA
Statistics
Matches: 76, Mismatches: 22, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
22 8 0.11
23 34 0.45
24 2 0.03
25 24 0.32
26 8 0.11
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (23 bp):
ATGCTGTCCAAATTAGTGCTTAA
Found at i:23170448 original size:16 final size:17
Alignment explanation
Indices: 23170427--23170459 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23170417 AAAACTAAAA
23170427 AAATA-TTACACTTTCC
1 AAATATTTACACTTTCC
*
23170443 AAATATTTACATTTTCC
1 AAATATTTACACTTTCC
23170460 TATTTTCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATATTTACACTTTCC
Found at i:23180561 original size:3 final size:3
Alignment explanation
Indices: 23180553--23180594 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
23180543 GAGTATTTGT
* * *
23180553 CTG CTG CTG CTG CTG CTG TTG CTG TTG CTG TTG CTG CTG CTG
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG CTG
23180595 AATCTGGAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.26, G:0.33, T:0.40
Consensus pattern (3 bp):
CTG
Found at i:23180570 original size:12 final size:12
Alignment explanation
Indices: 23180553--23180594 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
23180543 GAGTATTTGT
*
23180553 CTGCTGCTGCTG
1 CTGCTGTTGCTG
23180565 CTGCTGTTGCTG
1 CTGCTGTTGCTG
*
23180577 TTGCTGTTGCTG
1 CTGCTGTTGCTG
23180589 CTGCTG
1 CTGCTG
23180595 AATCTGGAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.33, T:0.40
Consensus pattern (12 bp):
CTGCTGTTGCTG
Found at i:23185552 original size:6 final size:6
Alignment explanation
Indices: 23185541--23185584 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
23185531 CAAACATACA
23185541 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC AC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC AC
23185585 ATAACCGACA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (6 bp):
ACTCAC
Found at i:23191230 original size:15 final size:17
Alignment explanation
Indices: 23191202--23191238 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
23191192 TCTATTTAAC
*
23191202 ATAAAAATATACAACAA
1 ATAAAAATATACAAAAA
23191219 ATAAAAA-A-ACAAAAA
1 ATAAAAATATACAAAAA
23191234 ATAAA
1 ATAAA
23191239 TTTTTTACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 11 0.58
16 1 0.05
17 7 0.37
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (17 bp):
ATAAAAATATACAAAAA
Found at i:23191358 original size:22 final size:22
Alignment explanation
Indices: 23191333--23191379 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
23191323 TAGCCGGATT
23191333 TTCCTTC-CCCCTCCCTTCTCTC
1 TTCCTTCTCCCCTCCC-TCTCTC
* *
23191355 TTCCTTCTCTCTTCCCTCTCTC
1 TTCCTTCTCCCCTCCCTCTCTC
23191377 TTC
1 TTC
23191380 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (22 bp):
TTCCTTCTCCCCTCCCTCTCTC
Done.