Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009266.1 Hibiscus syriacus cultivar Beakdansim tig00112921_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1543912
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 7
Found at i:914390 original size:22 final size:23
Alignment explanation
Indices: 914351--914411 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
914341 TTCCCCTGTG
914351 GGGGGAATCGGTTCCCCTTCA-AA
1 GGGGGAATCGGTT-CCCTTCATAA
*
914374 GGGGGAATCGGTTCCC-TCATGA
1 GGGGGAATCGGTTCCCTTCATAA
*
914396 GGGGG-ATCGATTCCCT
1 GGGGGAATCGGTTCCCT
914412 CTGCACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 12 0.35
22 9 0.26
23 13 0.38
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (23 bp):
GGGGGAATCGGTTCCCTTCATAA
Found at i:914404 original size:21 final size:21
Alignment explanation
Indices: 914351--914412 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
914341 TTCCCCTGTG
914351 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
*
914374 GGGGGAATCGGTTCCCTCATGA
1 GGGGGAATCGGTTCCCTCA-AA
*
914396 GGGGG-ATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
914413 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.39
22 9 0.25
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:930498 original size:22 final size:21
Alignment explanation
Indices: 930456--930508 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
930446 ATTCTAACTA
930456 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* *
930477 TCGCGTTGCGATTTTCCTAAA-
1 TCGCATTGCGA-TTTCCCAAAT
*
930498 TCGCAATGCGA
1 TCGCATTGCGA
930509 ATCTGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:930533 original size:20 final size:20
Alignment explanation
Indices: 930494--930533 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
930484 GCGATTTTCC
* *
930494 TAAATCGCAATGCGAATCTG
1 TAAATCGCAACGAGAATCTG
*
930514 TAAATCGCAACGAGATTCTG
1 TAAATCGCAACGAGAATCTG
930534 ACTATCGCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (20 bp):
TAAATCGCAACGAGAATCTG
Found at i:931417 original size:24 final size:24
Alignment explanation
Indices: 931385--931438 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
931375 GTATTCGAAA
*
931385 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
931409 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
931433 TTTGAT
1 TTTGAT
931439 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:933892 original size:20 final size:20
Alignment explanation
Indices: 933867--933955 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
933857 CAACGAGGAA
933867 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
933887 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
933907 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
933927 ATCGCAACGCAGAAATGACT
1 ATCGCAACGCGGAAATGACT
933947 ATCGCAACG
1 ATCGCAACG
933956 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:934015 original size:34 final size:33
Alignment explanation
Indices: 933927--934022 Score: 111
Period size: 33 Copynumber: 2.8 Consensus size: 33
933917 GGAATTGACT
* **
933927 ATCGCAACGCAGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
933961 ATCGCAATGCGAAATGAAAATTGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
933994 ATCGTAATTCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
934023 CGAAATTAGT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
33 28 0.53
34 25 0.47
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:934057 original size:20 final size:19
Alignment explanation
Indices: 934032--934118 Score: 76
Period size: 20 Copynumber: 4.7 Consensus size: 19
934022 GCGAAATTAG
934032 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
934051 TTTTCGCATTGCGA--TTCA
1 -TTTCGCGTTGCGATTTTCA
*
934069 ---CTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
* **
934085 TTTCGCATTGCGATAGTCA
1 TTTCGCGTTGCGATTTTCA
934104 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
934119 AATCTGTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
14 8 0.15
16 4 0.08
18 4 0.08
19 15 0.28
20 22 0.42
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:934119 original size:20 final size:19
Alignment explanation
Indices: 934071--934119 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
934061 GCGATTCACT
**
934071 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
934090 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
934110 CGTTGCGATA
1 CGTTGCGATA
934120 ATCTGTTTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.39
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:934321 original size:33 final size:34
Alignment explanation
Indices: 934260--934331 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
934250 ATTAGTTTCG
*
934260 CGTTGCGATTTTCATTTTTGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
*
934294 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
934327 CGTTG
1 CGTTG
934332 TGATAGTCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 22 0.61
34 14 0.39
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.46
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:934438 original size:217 final size:220
Alignment explanation
Indices: 934002--934443 Score: 782
Period size: 217 Copynumber: 2.0 Consensus size: 220
933992 GAATCGTAAT
934002 TCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATT
1 TCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATT
934067 CACTCGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCGCGTTGCGATAATCTGTTTTGCA
66 CACTCGTTGCGATTTTCATTTCGCATTGCGATA-TC--TTCCGCGTTGCGATAATCTGTTTTGCA
* *
934132 TTCAACATAATGCAGATTGAAATCAACAAATCAACTATTACATTTCAATCAATTAAACAAGCACA
128 TTCAACATAATGCAGATTGAAATCAACAAATAAACCATTACATTTCAATCAATTAAACAAGCACA
934197 AATATTATGTACACATCAATTAAACAAA
193 AATATTATGTACACATCAATTAAACAAA
*
934225 TCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTTGCATTGCGATT
1 TCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATT
* * *
934290 CACTCGTTGCGATTTTCATTTCGCATTGCGAT-TC-T-CTCGTTGTGATAGTCTGTTTTGCATTC
66 CACTCGTTGCGATTTTCATTTCGCATTGCGATATCTTCCGCGTTGCGATAATCTGTTTTGCATTC
934352 AACATAATGCAGATTGAAATCAACAAATAAACCATTACATTTCAATCAATTAAACAAGCACAAAT
131 AACATAATGCAGATTGAAATCAACAAATAAACCATTACATTTCAATCAATTAAACAAGCACAAAT
934417 ATTATGTACACATCAATTAAACAAA
196 ATTATGTACACATCAATTAAACAAA
934442 TC
1 TC
934444 AACATTTACA
Statistics
Matches: 213, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
217 114 0.54
218 1 0.00
221 2 0.01
223 96 0.45
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (220 bp):
TCGAAAATGAAAATCGCAACGCGAAATTAGTTTCGCGTTGCGATTTTCATTTTCGCATTGCGATT
CACTCGTTGCGATTTTCATTTCGCATTGCGATATCTTCCGCGTTGCGATAATCTGTTTTGCATTC
AACATAATGCAGATTGAAATCAACAAATAAACCATTACATTTCAATCAATTAAACAAGCACAAAT
ATTATGTACACATCAATTAAACAAA
Found at i:935885 original size:42 final size:42
Alignment explanation
Indices: 935829--935936 Score: 98
Period size: 42 Copynumber: 2.6 Consensus size: 42
935819 TCTAGAATGT
*
935829 TGGGAGGGACCTCTTCAACGATGA-ATGTGGCCTCTTGAACGG
1 TGGGAGGGACCTCTTCAACGATGATA-GGGGCCTCTTGAACGG
* ** *
935871 TGGGAGGGGA-CTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGA-GGGACCTCTTCAACGATGATAGGGGCCTCTTGAACGG
*
935913 TAGGG-GAGG-CCTCTTGAACGATGA
1 T-GGGAG-GGACCTCTTCAACGATGA
935937 CAGGTGAGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
41 1 0.02
42 45 0.83
43 8 0.15
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (42 bp):
TGGGAGGGACCTCTTCAACGATGATAGGGGCCTCTTGAACGG
Found at i:936443 original size:20 final size:20
Alignment explanation
Indices: 936420--936488 Score: 120
Period size: 20 Copynumber: 3.5 Consensus size: 20
936410 GAAACTTAAA
936420 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
936440 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
936460 ATCGCAATGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
936480 ATCGCAACG
1 ATCGCAACG
936489 AGAGAATCGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:936503 original size:34 final size:37
Alignment explanation
Indices: 936419--936505 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 37
936409 TGAAACTTAA
*
936419 AATCGCAACGCGAAAATGACTATCGCAATGCGAAAATG
1 AATCGCAATGCGAAAATGACTATCGCAA-GCGAAAATG
*
936457 ACTATCGCAATGCGAAAATGACTATCGCAA-CG-AGA-G
1 A--ATCGCAATGCGAAAATGACTATCGCAAGCGAAAATG
936493 AATCGCAATGCGA
1 AATCGCAATGCGA
936506 TTTTCATTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
34 12 0.27
36 2 0.04
37 2 0.04
38 3 0.07
40 26 0.58
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (37 bp):
AATCGCAATGCGAAAATGACTATCGCAAGCGAAAATG
Found at i:936558 original size:20 final size:20
Alignment explanation
Indices: 936533--936656 Score: 161
Period size: 20 Copynumber: 6.5 Consensus size: 20
936523 GATTCTTTCG
**
936533 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
936553 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
*
936573 TTGCGATAGTCATTTTTGCA
1 TTGCGATAGTCATTTTCGCA
936593 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
936613 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
936627 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
936647 TTGCGATAGT
1 TTGCGATAGT
936657 AAACTATTCT
Statistics
Matches: 92, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.08
16 6 0.07
18 6 0.07
20 73 0.79
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:938549 original size:20 final size:20
Alignment explanation
Indices: 938526--938580 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
938516 CTGAAACTTT
938526 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
938546 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
** *
938566 CTATCGCAACGCGAA
1 AAATCGCAACACGAA
938581 TTTGACTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:938586 original size:20 final size:20
Alignment explanation
Indices: 938528--938597 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
938518 GAAACTTTAA
* **
938528 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
938548 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
938568 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
*
938588 ATTGCAACGC
1 ATCGCAACGC
938598 AAGAATCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:938666 original size:20 final size:20
Alignment explanation
Indices: 938641--938687 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
938631 GATTCTCTCG
*
938641 TTGCGATAGTCAAATTCGCA
1 TTGCGATAATCAAATTCGCA
** *
938661 TTGCGATAATCATTTTCGCG
1 TTGCGATAATCAAATTCGCA
938681 TTGCGAT
1 TTGCGAT
938688 TCACTCGTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAATCAAATTCGCA
Found at i:939298 original size:20 final size:20
Alignment explanation
Indices: 939277--939391 Score: 194
Period size: 20 Copynumber: 5.8 Consensus size: 20
939267 ATAGTCAGAT
* *
939277 TCGCATTACGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
939297 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
*
939317 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
939337 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
939357 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
*
939377 TCGCATTACGATTTA
1 TCGCATTGCGATTTA
939392 GGAAAATCGC
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 90 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:949182 original size:17 final size:18
Alignment explanation
Indices: 949154--949187 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
949144 ATATCAATAG
949154 CCCTCTTCAAACCAGATT
1 CCCTCTTCAAACCAGATT
*
949172 CCCTC-TCAAACTAGAT
1 CCCTCTTCAAACCAGAT
949188 AAAACCGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.38, G:0.06, T:0.26
Consensus pattern (18 bp):
CCCTCTTCAAACCAGATT
Found at i:952425 original size:22 final size:23
Alignment explanation
Indices: 952394--952437 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
952384 TCTCGATCGA
952394 GTCATGAGAGAAAGGGAGAGAGT
1 GTCATGAGAGAAAGGGAGAGAGT
952417 GTCA-GAGAGAAAGGGAGAGAG
1 GTCATGAGAGAAAGGGAGAGAG
952438 AGAGAGAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.41, C:0.05, G:0.45, T:0.09
Consensus pattern (23 bp):
GTCATGAGAGAAAGGGAGAGAGT
Found at i:952445 original size:22 final size:22
Alignment explanation
Indices: 952399--952445 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
952389 ATCGAGTCAT
* *
952399 GAGAGAAAGGGAGAGAGTGTCA
1 GAGAGAAAGGGAGAGAGAGACA
*
952421 GAGAGAAAGGGAGAGAGAGAGA
1 GAGAGAAAGGGAGAGAGAGACA
952443 GAG
1 GAG
952446 TGCCATAGGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.49, T:0.04
Consensus pattern (22 bp):
GAGAGAAAGGGAGAGAGAGACA
Found at i:964228 original size:55 final size:55
Alignment explanation
Indices: 964162--964524 Score: 222
Period size: 55 Copynumber: 6.7 Consensus size: 55
964152 TCAAATAACG
* * *
964162 GGTCTGCTCCCTTTTCTTTCAAGGAGTATAAGACTCGAACAATCCTT-GGCAAAC
1 GGTCTGCTCCCTATTCGTTCAAGGAGTATAAGACTCGAACAATCCTTCGACAAAC
*
964216 GTGTCTGCTCCCTATTCGTTCAAGGAGTATAAGACTCGAATAAT-CTTCGACAAAC
1 G-GTCTGCTCCCTATTCGTTCAAGGAGTATAAGACTCGAACAATCCTTCGACAAAC
* * * *
964271 AGGTCCGCTCCCTATCCGTTCAAGGAGTAT-AGAACTCGAACAAT-CTTCAATAAAAC
1 -GGTCTGCTCCCTATTCGTTCAAGGAGTATAAG-ACTCGAACAATCCTTCGA-CAAAC
* * * * * * *
964327 GGGTCCGTTCTCTATTCCTTC-AGAGAGTAT-AGAACTCGAAAAAT-CTTCAATAAAC
1 -GGTCTGCTCCCTATTCGTTCAAG-GAGTATAAG-ACTCGAACAATCCTTCGACAAAC
* * * * **
964382 AGGTCCGCTCCCTATTCTTTC-AGAGAGTATAGGACT----CAGT-CTTTAACAAAC
1 -GGTCTGCTCCCTATTCGTTCAAG-GAGTATAAGACTCGAACAATCCTTCGACAAAC
* * *
964433 GTGT-TCGCTCCCTATCCGTTCAGGGAGTAT-AGAACTCGAA-AAT-CTTCAACAAAAC
1 G-GTCT-GCTCCCTATTCGTTCAAGGAGTATAAG-ACTCGAACAATCCTTCGAC-AAAC
* * *
964488 GGGTCTGCTCTCTATTCCTTC-AGAGAGTATAGGACTC
1 -GGTCTGCTCCCTATTCGTTCAAG-GAGTATAAGACTC
964525 AATCTTCAAT
Statistics
Matches: 252, Mismatches: 37, Indels: 39
0.77 0.11 0.12
Matches are distributed among these distances:
50 2 0.01
51 35 0.14
52 1 0.00
54 15 0.06
55 149 0.59
56 50 0.20
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (55 bp):
GGTCTGCTCCCTATTCGTTCAAGGAGTATAAGACTCGAACAATCCTTCGACAAAC
Found at i:964455 original size:51 final size:50
Alignment explanation
Indices: 964211--964742 Score: 492
Period size: 51 Copynumber: 10.1 Consensus size: 50
964201 CAATCCTTGG
* * * *
964211 CAAACGTGTCTGCTCCCTATTCGTTCA-AGGAGTATAAGACTCGAATAATCTTCGA
1 CAAACTTGTCCGCTCCCTATTC-TTCAGA-GAGTATAGGACTC----AATCTTCAA
** * *
964266 CAAACAGGTCCGCTCCCTATCCGTTCA-AGGAGTATAGAACTCGAACAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTC-TTCAGA-GAGTATAGGACT----CAATCTTCAA
* ** * * *
964321 TAAAACGGGTCCGTTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAA
1 -CAAACTTGTCCGCTCCCTATT-CTTCAGAGAGTATAGGACTC----AATCTTCAA
* ** * *
964377 TAAACAGGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAGTCTTTAA
1 CAAACTTGTCCGCTCCCTATTC-TTCAGAGAGTATAGGACTCAATCTTCAA
* * * * *
964428 CAAACGTGTTCGCTCCCTATCCGTTCAGGGAGTATAGAACTCGAAAATCTTCAA
1 CAAACTTGTCCGCTCCCTATTC-TTCAGAGAGTATAGGACTC---AATCTTCAA
** * *
964482 CAAAACGGGTCTGCTCTCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 C-AAACTTGTCCGCTCCCTATT-CTTCAGAGAGTATAGGACTCAATCTTCAA
** *
964534 TGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCGA
1 CAAACTTGTCCGCTCCCTATTC-TTCAGAGAGTATAGGACTCAATCTTCAA
964585 CAAACTTGTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTATT-CTTCAGAGAGTATAGGACTCAATCTTCAA
*
964636 CGAACTTGTCCGCTCCCTATTTCTTCAGAGAGTATAGGACTCAATCTTCAA
1 CAAACTTGTCCGCTCCCTA-TTCTTCAGAGAGTATAGGACTCAATCTTCAA
*
964687 CAAACTTGTCCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAG
1 CAAACTTGTCCGCTCCCTATTC-TTCAGAGAGTATAGGACTCAATCTTCAA
964738 CAAAC
1 CAAAC
964743 GAATTTGCTT
Statistics
Matches: 407, Mismatches: 49, Indels: 46
0.81 0.10 0.09
Matches are distributed among these distances:
50 4 0.01
51 226 0.56
52 13 0.03
54 9 0.02
55 110 0.27
56 42 0.10
57 2 0.00
59 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (50 bp):
CAAACTTGTCCGCTCCCTATTCTTCAGAGAGTATAGGACTCAATCTTCAA
Found at i:964631 original size:102 final size:103
Alignment explanation
Indices: 964211--964743 Score: 556
Period size: 102 Copynumber: 5.1 Consensus size: 103
964201 CAATCCTTGG
* * *
964211 CAAACGTGTCTGCTCCCTATTCGTTCA-AGGAGTATAAGACTCGAATAATCTTCGACAAACAGGT
1 CAAACGTGTCCGCTCCCTATTCGTTCAGA-GAGTATAGGACTC--A-AATCTTCAACAAACAGGT
*
964275 CCGCTCCCTA-TCCGTTCA-AGGAGTATAGAACTCGAACAATCTTCAA
62 CCGCTCCCTATTCC-TTCAGA-GAGTATAGGACT----CAATCTTCAA
* * * * * * *
964321 TAAAACGGGTCCGTTCTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGT
1 -CAAACGTGTCCGCTCCCTATTCGTTCAGAGAGTATAGGACTC---AAATCTTCAACAAACAGGT
* * *
964386 CCGCTCCCTATTCTTTCAGAGAGTATAGGACTCAGTCTTTAA
62 CCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
* * * * *
964428 CAAACGTGTTCGCTCCCTATCCGTTCAGGGAGTATAGAACTCGAAAATCTTCAACAAAACGGGTC
1 CAAACGTGTCCGCTCCCTATTCGTTCAGAGAGTATAGGACTC--AAATCTTCAAC-AAACAGGTC
* *
964493 TGCTCTCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
63 CGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
** * * * **
964534 TGAACTTGTCCGCTCCCTATTCATTCAGAGAGTATAGGACTC-AATCTTCGACAAACTTGTCCGC
1 CAAACGTGTCCGCTCCCTATTCGTTCAGAGAGTATAGGACTCAAATCTTCAACAAACAGGTCCGC
964598 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
66 TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
* * **
964636 CGAACTTGTCCGCTCCCTATTTC-TTCAGAGAGTATAGGACTC-AATCTTCAACAAACTTGTCCG
1 CAAACGTGTCCGCTCCCTA-TTCGTTCAGAGAGTATAGGACTCAAATCTTCAACAAACAGGTCCG
* *
964699 CTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAG
65 CTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
964738 CAAACG
1 CAAACG
964744 AATTTGCTTC
Statistics
Matches: 366, Mismatches: 50, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
102 144 0.39
103 12 0.03
105 11 0.03
106 112 0.31
107 8 0.02
111 73 0.20
112 6 0.02
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (103 bp):
CAAACGTGTCCGCTCCCTATTCGTTCAGAGAGTATAGGACTCAAATCTTCAACAAACAGGTCCGC
TCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAA
Found at i:966102 original size:16 final size:16
Alignment explanation
Indices: 966053--966095 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
966043 TGAACCCTCC
*
966053 TTTT-ATTTCTCTCTT
1 TTTTCATTTTTCTCTT
966068 TTTTCATTTTTCTCTT
1 TTTTCATTTTTCTCTT
966084 TTTTCATTTTTC
1 TTTTCATTTTTC
966096 ATTTTTTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTTCATTTTTCTCTT
Found at i:966152 original size:21 final size:18
Alignment explanation
Indices: 966126--966170 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 18
966116 CTTCTCTCTT
966126 TTTTTTCCGTTTTTTCCATCA
1 TTTTTTCC-TTTTTT-C-TCA
*
966147 TTTTTTTCTTTTTTCTCA
1 TTTTTTCCTTTTTTCTCA
966165 TTTTTT
1 TTTTTT
966171 TTCTCATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 9 0.39
19 1 0.04
20 6 0.26
21 7 0.30
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTTTTCCTTTTTTCTCA
Found at i:966159 original size:30 final size:29
Alignment explanation
Indices: 966125--966191 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
966115 TCTTCTCTCT
* *
966125 TTTTTTTCCGTTTTTTCCATCATTTTTTTC
1 TTTTTTTCAGTTTTTTCC-TCATTTATTTC
* *
966155 TTTTTTCTCATTTTTTTTCTCATTTATTTC
1 TTTTTT-TCAGTTTTTTCCTCATTTATTTC
966185 TTTTTTT
1 TTTTTTT
966192 TTTTCTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.03
30 22 0.69
31 9 0.28
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTTTTTCAGTTTTTTCCTCATTTATTTC
Found at i:966169 original size:38 final size:37
Alignment explanation
Indices: 966074--966169 Score: 88
Period size: 38 Copynumber: 2.6 Consensus size: 37
966064 TCTTTTTTCA
*
966074 TTTTTCTCTTTTT-TCATTTTTCATTTTTTCTTCCATT
1 TTTTTCT-TTTTTCTCATTTTTCATTTTTTCATCCATT
* * * ** *
966111 TTCTTCTTCTCTCTTTTTTTTCCGTTTTTTCCAT-CATT
1 TTTTTCTTTTTTCTCATTTTT-CATTTTTT-CATCCATT
966149 TTTTTCTTTTTTCTCATTTTT
1 TTTTTCTTTTTTCTCATTTTT
966170 TTTCTCATTT
Statistics
Matches: 44, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
36 3 0.07
37 12 0.27
38 27 0.61
39 2 0.05
ACGTcount: A:0.06, C:0.21, G:0.01, T:0.72
Consensus pattern (37 bp):
TTTTTCTTTTTTCTCATTTTTCATTTTTTCATCCATT
Found at i:966170 original size:12 final size:12
Alignment explanation
Indices: 966155--966208 Score: 58
Period size: 12 Copynumber: 4.7 Consensus size: 12
966145 CATTTTTTTC
966155 TTTTTTCTCATT
1 TTTTTTCTCATT
966167 TTTTTTCTCA-T
1 TTTTTTCTCATT
* **
966178 TTATTTCTTTTT
1 TTTTTTCTCATT
966190 TTTTTTCTC-TT
1 TTTTTTCTCATT
*
966201 TTATTTCT
1 TTTTTTCT
966209 TCTTCAAGCG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
11 17 0.49
12 18 0.51
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTTCTCATT
Found at i:966191 original size:23 final size:23
Alignment explanation
Indices: 966165--966209 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
966155 TTTTTTCTCA
966165 TTTTTTTTCTCATTTATTTCTTT
1 TTTTTTTTCTCATTTATTTCTTT
*
966188 TTTTTTTTCTCTTTTATTTCTT
1 TTTTTTTTCTCATTTATTTCTT
966210 CTTCAAGCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTTTTCTCATTTATTTCTTT
Found at i:989195 original size:18 final size:18
Alignment explanation
Indices: 989172--989206 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
989162 ATCAACCACC
*
989172 TCCCCAACCTGTTGGGCA
1 TCCCCAACCTGGTGGGCA
*
989190 TCCCCATCCTGGTGGGC
1 TCCCCAACCTGGTGGGC
989207 CTCCACACCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.11, C:0.40, G:0.26, T:0.23
Consensus pattern (18 bp):
TCCCCAACCTGGTGGGCA
Found at i:998285 original size:38 final size:38
Alignment explanation
Indices: 998234--998312 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
998224 TTTATTCAAT
998234 GTAATAGCCATTACAACCTCATTACTGAGGCTGTTATA
1 GTAATAGCCATTACAACCTCATTACTGAGGCTGTTATA
998272 GTAATAGCCATTACAACCTCATTACTGAGGCTGTTATA
1 GTAATAGCCATTACAACCTCATTACTGAGGCTGTTATA
998310 GTA
1 GTA
998313 TTCTTGGCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (38 bp):
GTAATAGCCATTACAACCTCATTACTGAGGCTGTTATA
Found at i:1012943 original size:20 final size:20
Alignment explanation
Indices: 1012918--1013008 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 20
1012908 TAAATTAAAT
*
1012918 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
*
1012938 ATTAGATAGAATCAGTTTTT
1 ATTAGATAGAATCAGTTTTA
* *
1012958 ATT--CT---ATTAG--TT-
1 ATTAGATAGAATCAGTTTTA
* *
1012970 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCAGTTTTA
1012990 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
1013009 TTATTCTATT
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
12 3 0.06
13 2 0.04
14 1 0.02
15 4 0.07
17 3 0.06
18 1 0.02
19 2 0.04
20 38 0.70
ACGTcount: A:0.34, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:1013033 original size:53 final size:52
Alignment explanation
Indices: 1012917--1013066 Score: 275
Period size: 53 Copynumber: 2.9 Consensus size: 52
1012907 CTAAATTAAA
*
1012917 TATTAGATAGGATCAGTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
1012969 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTTATTCTATTAGT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAG-TTTTTATTCTATTAGT
1013022 TATTAGATAGGATCATTTTTAATTAGATAGAATCA-TTTTTATTCT
1 TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCT
1013067 GTTGCTAATT
Statistics
Matches: 96, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
51 10 0.10
52 35 0.36
53 51 0.53
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (52 bp):
TATTAGATAGGATCATTTTTAATTAGATAGAATCAGTTTTTATTCTATTAGT
Found at i:1013048 original size:20 final size:20
Alignment explanation
Indices: 1013023--1013062 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1013013 TCTATTAGTT
*
1013023 ATTAGATAGGATCATTTTTA
1 ATTAGATAGAATCATTTTTA
1013043 ATTAGATAGAATCATTTTTA
1 ATTAGATAGAATCATTTTTA
1013063 TTCTGTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (20 bp):
ATTAGATAGAATCATTTTTA
Found at i:1017628 original size:20 final size:20
Alignment explanation
Indices: 1017603--1017641 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1017593 TAAATTAAAT
*
1017603 ATTAGATAGGATCAGTTTTA
1 ATTAGATAGAATCAGTTTTA
1017623 ATTAGATAGAATCAGTTTT
1 ATTAGATAGAATCAGTTTT
1017642 TTTTGTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (20 bp):
ATTAGATAGAATCAGTTTTA
Found at i:1024626 original size:17 final size:17
Alignment explanation
Indices: 1024590--1024645 Score: 76
Period size: 17 Copynumber: 3.2 Consensus size: 17
1024580 AAATTATCCT
* *
1024590 TATTATATATTTGTATAA
1 TATTATA-AATTGTAAAA
1024608 TATTATAAATTGTAAAA
1 TATTATAAATTGTAAAA
*
1024625 TATTACAAATTGTAAAA
1 TATTATAAATTGTAAAA
1024642 TATT
1 TATT
1024646 TATATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 28 0.80
18 7 0.20
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (17 bp):
TATTATAAATTGTAAAA
Found at i:1029520 original size:64 final size:64
Alignment explanation
Indices: 1029467--1029629 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
1029457 CGGTGCACCA
*
1029467 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
* * **
1029531 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * * *
1029596 AGAGTGCATCGGTGCATGGAATGCATTTGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
1029630 CAATTAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
64 40 0.47
65 46 0.53
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:1029601 original size:19 final size:19
Alignment explanation
Indices: 1029577--1029615 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1029567 GAAAATATTC
1029577 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1029596 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1029615 A
1 A
1029616 ATGCATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1029669 original size:65 final size:64
Alignment explanation
Indices: 1029471--1029678 Score: 185
Period size: 65 Copynumber: 3.2 Consensus size: 64
1029461 GCACCAAGTG
* * * **
1029471 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAA-ATAGC-CTGGTGCATCGATGCATGGATT
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATAT-TCAC-AATGCATCGATGCATGGA-T
1029534 G-
63 GA
* * * * *
1029535 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA-GA
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCACAATGCATCGATGCATGGATGA
* * *
1029599 GTGCATCGGTGCATGGAATGCATTTGATG-TTC-AATTAATTCATCAATGCATCGATGCATGGAC
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA-CAATGCATCGATGCATGGA-
1029662 TGA
62 TGA
1029665 TGCATCGGTGCATG
1 TGCATCGGTGCATG
1029679 CCTTTGAATA
Statistics
Matches: 123, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
62 3 0.02
63 8 0.07
64 44 0.36
65 64 0.52
66 4 0.03
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.30
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCACAATGCATCGATGCATGGATGA
Found at i:1037070 original size:64 final size:64
Alignment explanation
Indices: 1037017--1037180 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 64
1037007 CGGTGCACCA
*
1037017 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
* * **
1037081 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
1037146 AGAGTGCATCGGTGCATGGAATGCATTCGATGTTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTT
1037181 AATTAATTCA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 41 0.47
65 47 0.53
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:1037151 original size:19 final size:19
Alignment explanation
Indices: 1037127--1037177 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
1037117 GAAAATATTC
1037127 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
1037146 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
1037165 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
1037178 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:1037221 original size:65 final size:63
Alignment explanation
Indices: 1037021--1037228 Score: 226
Period size: 65 Copynumber: 3.2 Consensus size: 63
1037011 GCACCAAGTG
* * *
1037021 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTGGTGCATCGATGCATGGATTG-
1 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAT-TCATGATGCATCGATGCATGGA-TGA
*
1037085 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCA-GAGTGCATCGATGCATGGA-G
1 TGCATCGATGCATGAAATGCATTCGATG-TTTGAAAA-ATTCATGA-TGCATCGATGCATGGATG
1037148 A
63 A
* * *
1037149 GTGCATCGGTGCATGGAATGCATTCGATGTTT-AATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAATTCAT-GATGCATCGATGCATGGA-T
1037213 GA
62 GA
* *
1037215 TTCATCGGTGCATG
1 TGCATCGATGCATG
1037229 CCTTTGAATA
Statistics
Matches: 125, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
63 8 0.06
64 48 0.38
65 65 0.52
66 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (63 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATTCATGATGCATCGATGCATGGATGA
Found at i:1039923 original size:35 final size:34
Alignment explanation
Indices: 1039838--1039924 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1039828 ATTTGGTATT
*
1039838 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1039872 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1039910 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1039925 ACTGAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1040175 original size:18 final size:18
Alignment explanation
Indices: 1040138--1040176 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
1040128 ACTCCTCGCT
* * *
1040138 GTCATCATCGTCGTCGTC
1 GTCACCATCGTCATCATC
1040156 GTCACCATCGTCATCATC
1 GTCACCATCGTCATCATC
1040174 GTC
1 GTC
1040177 GTCCTGAGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.15, C:0.36, G:0.18, T:0.31
Consensus pattern (18 bp):
GTCACCATCGTCATCATC
Found at i:1042145 original size:111 final size:111
Alignment explanation
Indices: 1042001--1042333 Score: 603
Period size: 111 Copynumber: 3.0 Consensus size: 111
1041991 ATTACAAAAA
* *
1042001 TTAATTTTTACTCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1042066 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
*
1042112 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTCAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1042177 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
* *
1042223 TTAATTCTTAATCTAATAATCATGTATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
1042288 AATTAAAACGTTAAAATGTTACCATATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
1042334 ATGATTTTCA
Statistics
Matches: 214, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
111 214 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
Found at i:1042800 original size:29 final size:29
Alignment explanation
Indices: 1042758--1042836 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
1042748 TACTACTACG
*
1042758 GGTGTTAGATCGAGAAATATAATCTGATC
1 GGTGTTAGATCGAGAAATATAATCTGACC
1042787 GGTGTTAGATCGAGAAATATAATCTGACC
1 GGTGTTAGATCGAGAAATATAATCTGACC
* * *
1042816 GGTATTAAATCGATAAATATA
1 GGTGTTAGATCGAGAAATATA
1042837 CCGATCACCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.30
Consensus pattern (29 bp):
GGTGTTAGATCGAGAAATATAATCTGACC
Found at i:1048917 original size:14 final size:13
Alignment explanation
Indices: 1048894--1048923 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
1048884 TAAAGTTTGA
1048894 TTTATTATTATAT
1 TTTATTATTATAT
1048907 TTTATTTATTATAT
1 TTTA-TTATTATAT
1048921 TTT
1 TTT
1048924 CTACTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTATTATAT
Found at i:1049587 original size:16 final size:16
Alignment explanation
Indices: 1049566--1049597 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1049556 ACCCCCATCT
1049566 GAGAGAGAGAGAAAGC
1 GAGAGAGAGAGAAAGC
1049582 GAGAGAGAGAGAAAGC
1 GAGAGAGAGAGAAAGC
1049598 ATGTCGCCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.06, G:0.44, T:0.00
Consensus pattern (16 bp):
GAGAGAGAGAGAAAGC
Found at i:1069241 original size:24 final size:26
Alignment explanation
Indices: 1069214--1069270 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 26
1069204 TTATATATAT
*
1069214 ATAATATTAATA-A-ATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
1069238 ATAA-A-AAATATATATTTAATTTAA
1 ATAATATAAATATATATTTAATTTAA
1069262 ATATATATA
1 ATA-ATATA
1069271 TACCCGGCCC
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
22 4 0.15
23 2 0.07
24 18 0.67
25 1 0.04
26 1 0.04
27 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (26 bp):
ATAATATAAATATATATTTAATTTAA
Found at i:1069256 original size:19 final size:19
Alignment explanation
Indices: 1069232--1069271 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1069222 AATAAATTTA
1069232 ATTTAAATAAAAAATATAT
1 ATTTAAATAAAAAATATAT
* * *
1069251 ATTTAATTTAAATATATAT
1 ATTTAAATAAAAAATATAT
1069270 AT
1 AT
1069272 ACCCGGCCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATAAAAAATATAT
Found at i:1069318 original size:12 final size:12
Alignment explanation
Indices: 1069270--1069323 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
1069260 AAATATATAT
*
1069270 ATACCCGGCCCG
1 ATACCCGGCCCA
* *
1069282 ATTCTCGGCCCA
1 ATACCCGGCCCA
*
1069294 ATA-CCGACCCA
1 ATACCCGGCCCA
1069305 ATACCCGGCCCA
1 ATACCCGGCCCA
1069317 ATACCCG
1 ATACCCG
1069324 TTTAAATAAC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 25 0.74
ACGTcount: A:0.24, C:0.46, G:0.17, T:0.13
Consensus pattern (12 bp):
ATACCCGGCCCA
Found at i:1073887 original size:38 final size:37
Alignment explanation
Indices: 1073805--1073883 Score: 97
Period size: 38 Copynumber: 2.1 Consensus size: 37
1073795 GATATATATA
* *
1073805 TATTTAAATTAAATATATAAATATTATATATTTTTTT
1 TATTTAAATTAAATATATAAATATTATATATTATTAT
* * *
1073842 TAATTTAAATTAAATTTATTAATATTATATA-TATAAT
1 T-ATTTAAATTAAATATATAAATATTATATATTATTAT
1073879 TATTT
1 TATTT
1073884 TTAATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 4 0.11
37 5 0.14
38 27 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (37 bp):
TATTTAAATTAAATATATAAATATTATATATTATTAT
Found at i:1074287 original size:30 final size:30
Alignment explanation
Indices: 1074251--1074308 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
1074241 TATTATGTGG
*
1074251 AAGTCATTAGGAA-TACACAACGATTTTTAA
1 AAGTCATCA-GAACTACACAACGATTTTTAA
1074281 AAGTCATCAGAACTACACAACGATTTTT
1 AAGTCATCAGAACTACACAACGATTTTT
1074309 TTATATATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.41, C:0.17, G:0.12, T:0.29
Consensus pattern (30 bp):
AAGTCATCAGAACTACACAACGATTTTTAA
Found at i:1078420 original size:60 final size:60
Alignment explanation
Indices: 1078346--1078480 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 60
1078336 GTATCATATG
* * * * *
1078346 TCCTCAAAGTATGACTTTAATTTTAAATTGGTCCCTAAACAATTAAACATTTCAATTTTAT
1 TCCT-AAACTATGACTATAATTCTAAATTAGTCCCTAAACAATTAAACATTTCAATTTCAT
* * * ** *
1078407 TCCTAAACTATGACTATCATTCTAAATTAGTCCTTATACTTTTGAACATTTCAATTTCAT
1 TCCTAAACTATGACTATAATTCTAAATTAGTCCCTAAACAATTAAACATTTCAATTTCAT
* *
1078467 CCCCAAACTATGAC
1 TCCTAAACTATGAC
1078481 ATTCTAAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
60 57 0.93
61 4 0.07
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (60 bp):
TCCTAAACTATGACTATAATTCTAAATTAGTCCCTAAACAATTAAACATTTCAATTTCAT
Found at i:1082107 original size:63 final size:63
Alignment explanation
Indices: 1081981--1082119 Score: 154
Period size: 63 Copynumber: 2.2 Consensus size: 63
1081971 TTATATTTTA
* * * * *
1081981 ACTTTCTAGAAATTTATAACTTAATCTTAATTTTTTTAGGTGAAACGGCTTGGAAAATACTTGT
1 ACTTT-TAAAAATTTATAACTTAATCTAAATTTTTTAAGGTGAAACGGCTAGGAAAACACTTGT
* * * * *
1082045 ACTTTTAAAAATTTATAATTTAATCTAAATTTTTTAAGGTGAAAGGGC-AGGTGAAGCCCTTGT
1 ACTTTTAAAAATTTATAACTTAATCTAAATTTTTTAAGGTGAAACGGCTAGG-AAAACACTTGT
1082108 ACTTTTTAAAAA
1 AC-TTTTAAAAA
1082120 AATTAATATG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
62 2 0.03
63 47 0.75
64 14 0.22
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (63 bp):
ACTTTTAAAAATTTATAACTTAATCTAAATTTTTTAAGGTGAAACGGCTAGGAAAACACTTGT
Found at i:1083925 original size:25 final size:23
Alignment explanation
Indices: 1083897--1083945 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 23
1083887 CATTTCGTAG
*
1083897 TCAAATTAGAGCAAAACAATTCATT
1 TCAAATCAGAG-AAAACAA-TCATT
*
1083922 TCAAATCAGAGAAAATAATCATT
1 TCAAATCAGAGAAAACAATCATT
1083945 T
1 T
1083946 GCACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 6 0.27
25 10 0.45
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (23 bp):
TCAAATCAGAGAAAACAATCATT
Found at i:1085673 original size:21 final size:22
Alignment explanation
Indices: 1085647--1085689 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1085637 TGCAAATGAA
* *
1085647 AAATAA-AATATTTACACCATG
1 AAATAATAACATTTACAACATG
1085668 AAATAATAACATTTACAACATG
1 AAATAATAACATTTACAACATG
1085690 TACATACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.28
Consensus pattern (22 bp):
AAATAATAACATTTACAACATG
Found at i:1085806 original size:30 final size:30
Alignment explanation
Indices: 1085766--1086035 Score: 242
Period size: 30 Copynumber: 8.9 Consensus size: 30
1085756 TAAGTATTTG
* * * *
1085766 AACTTAAAAGGACCAAAATAGCAAAAATATA
1 AACTT-AAAGGACTAAAATAACAAAAACAGA
* * *
1085797 AACTCAAAGGACTAAAATAACAATAACAAA
1 AACTTAAAGGACTAAAATAACAAAAACAGA
* * *
1085827 AAGTTAAAGTG-CAAAAATAACAAAAATAGA
1 AACTTAAAG-GACTAAAATAACAAAAACAGA
*
1085857 AACTTAAAGTG-CTAAAATAACAAAAAAATAGA
1 AACTTAAAG-GACTAAAATAAC--AAAAACAGA
* *
1085889 AACTTAAAGGACTAAAAGAACAAAAAACATA
1 AACTTAAAGGACTAAAATAAC-AAAAACAGA
* *
1085920 AACTTAAAGGACTAAAATAGCTAAAACAGA
1 AACTTAAAGGACTAAAATAACAAAAACAGA
* *
1085950 AAATTAAAGGACTAAAATAACAAATACAGA
1 AACTTAAAGGACTAAAATAACAAAAACAGA
* * *
1085980 AACTTAAAGAACCTAAAA-AATATAAACATG-
1 AACTTAAAGGA-CTAAAATAACAAAAACA-GA
* *
1086010 AATTTAAAGGACTAAAATAATAAAAA
1 AACTTAAAGGACTAAAATAACAAAAA
1086036 TAGACATTTG
Statistics
Matches: 199, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
29 6 0.03
30 126 0.63
31 40 0.20
32 27 0.14
ACGTcount: A:0.62, C:0.11, G:0.10, T:0.17
Consensus pattern (30 bp):
AACTTAAAGGACTAAAATAACAAAAACAGA
Found at i:1085957 original size:123 final size:123
Alignment explanation
Indices: 1085766--1085988 Score: 301
Period size: 123 Copynumber: 1.8 Consensus size: 123
1085756 TAAGTATTTG
* * *
1085766 AACTTAAAAGGACCAAAATAGCAAAAATATAAACTCAAAGGACTAAAATAACAATAACAAAAAGT
1 AACTTAAAAGGACCAAAAGAACAAAAACATAAACTCAAAGGACTAAAATAACAATAACAAAAAGT
*
1085831 TAAAGTG-CAAAAATAACAAAAATAGAAACTTAAAGTGCTAAAATAACAAAAAAATAGA
66 TAAAG-GACAAAAATAACAAAAACAGAAACTTAAAGTGCTAAAATAACAAAAAAATAGA
* * *
1085889 AACTT-AAAGGACTAAAAGAACAAAAAACATAAACTTAAAGGACTAAAATAGCTAA-AACAGAAA
1 AACTTAAAAGGACCAAAAGAAC-AAAAACATAAACTCAAAGGACTAAAATAAC-AATAACA-AAA
* *
1085952 A-TTAAAGGACTAAAATAACAAATACAGAAACTTAAAG
63 AGTTAAAGGACAAAAATAACAAAAACAGAAACTTAAAG
1085989 AACCTAAAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
122 14 0.16
123 67 0.77
124 6 0.07
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (123 bp):
AACTTAAAAGGACCAAAAGAACAAAAACATAAACTCAAAGGACTAAAATAACAATAACAAAAAGT
TAAAGGACAAAAATAACAAAAACAGAAACTTAAAGTGCTAAAATAACAAAAAAATAGA
Found at i:1086055 original size:30 final size:27
Alignment explanation
Indices: 1085996--1086055 Score: 66
Period size: 30 Copynumber: 2.1 Consensus size: 27
1085986 AAGAACCTAA
*
1085996 AAAATATAAACATGAATTTAAAGGACT
1 AAAATATAAAAATGAATTTAAAGGACT
* *
1086023 AAAATAATAAAAATAGACATTTGAAGGTCT
1 AAAAT-ATAAAAAT-GA-ATTTAAAGGACT
1086053 AAA
1 AAA
1086056 CAGTAATTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 5 0.19
28 7 0.26
29 2 0.07
30 13 0.48
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.25
Consensus pattern (27 bp):
AAAATATAAAAATGAATTTAAAGGACT
Found at i:1087456 original size:3 final size:3
Alignment explanation
Indices: 1087448--1087486 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
1087438 GATATTGTAT
1087448 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1087487 TAAATAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1087955 original size:132 final size:133
Alignment explanation
Indices: 1087760--1088135 Score: 398
Period size: 132 Copynumber: 2.8 Consensus size: 133
1087750 AGAGTTCTTG
* * * * * **
1087760 GCCATCTTTAGGAAGGGTGATAACTCGGTTCCCACGCGATGAGGACGACAT-GTTATCTGGGGTG
1 GCCATCTTTAGGAATGGAGATAACACGGTTCCTACGTGATGAGGACGAC-TGGTTATCAAGGGTG
* * * *
1087824 ACACGGCTCCTACATGATGAGGAGGTTTGGTCGGGGGATGACACAGTTCCTACTCGATGA-GACG
65 ACACGGCTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGCAATGAGGAAG
1087888 ACAT
130 ACAT
* ** * *
1087892 GCCATCTTTAGGAATGGCGATAACACGGTTCCTACGTGATGAACAGGGCTGGTTATCAAGGGTGA
1 GCCATCTTTAGGAATGGAGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAGGGTGA
* * * * * * *
1087957 AATGGTTACTACTTGATGAGGAGGTCTGGTCGGGGGATGACACGGTTCTTACGCAATGAGGAAGA
66 CACGGCTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGCAATGAGGAAGA
1088022 CAT
131 CAT
** * * *
1088025 GCCATCTTTATTAATAAGGTAGATAACATGGTTCCTACGTGATGAGGACGTCTGATTATCTAAGG
1 GCCATCTTTAGGAAT--GG-AGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATC-AAGG
* ** *
1088090 GTGACACGGCTCTTATGTGATGATGAGGTCTGGTC-GGGGATGACAC
62 GTGACACGGCTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACAC
1088136 GATTTACGTG
Statistics
Matches: 199, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
131 1 0.01
132 101 0.51
133 20 0.10
135 2 0.01
136 44 0.22
137 31 0.16
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (133 bp):
GCCATCTTTAGGAATGGAGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCAAGGGTGA
CACGGCTCCTACATGATGAGGAGGTCTGGTCGGGGGATGACACAGTTCCTACGCAATGAGGAAGA
CAT
Found at i:1088496 original size:34 final size:33
Alignment explanation
Indices: 1088444--1088513 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
1088434 GCTGAATCCC
1088444 CAAAGATGCCCCAATGTTCGA-TGTTGATTGCTT
1 CAAAGATGCCCCAATGTTC-ATTGTTGATTGCTT
* **
1088477 CAAAGATGCCCCCATTGTTCATTGTTTCTTGCTT
1 CAAAGATG-CCCCAATGTTCATTGTTGATTGCTT
1088511 CAA
1 CAA
1088514 CACTGATCCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (33 bp):
CAAAGATGCCCCAATGTTCATTGTTGATTGCTT
Found at i:1089583 original size:16 final size:17
Alignment explanation
Indices: 1089562--1089628 Score: 70
Period size: 16 Copynumber: 4.1 Consensus size: 17
1089552 CTTTACTTTG
*
1089562 TTTTTT-TTCTTTGCTC
1 TTTTTTGTTCTTTTCTC
1089578 TTTTTTGTT-TTTTCT-
1 TTTTTTGTTCTTTTCTC
*
1089593 TTCTTTGCTTCTTTTCTC
1 TTTTTTG-TTCTTTTCTC
*
1089611 TTTGTT-TTCTTTTCTC
1 TTTTTTGTTCTTTTCTC
1089627 TT
1 TT
1089629 CGCTTTGATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
15 6 0.14
16 25 0.58
17 8 0.19
18 4 0.09
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTGTTCTTTTCTC
Found at i:1089595 original size:25 final size:24
Alignment explanation
Indices: 1089558--1089622 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 24
1089548 TACTCTTTAC
1089558 TTTGTTTTTTTTCTTTGC-TCTTT
1 TTTGTTTTTTTTCTTTGCTTCTTT
1089581 TTTGTTTTTTCTTTCTTTGCTTCTTT
1 TTTG-TTTTT-TTTCTTTGCTTCTTT
* * *
1089607 TCTCTTTGTTTTCTTT
1 TTTGTTTTTTTTCTTT
1089623 TCTCTTCGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 4 0.11
24 12 0.33
25 13 0.36
26 7 0.19
ACGTcount: A:0.00, C:0.15, G:0.08, T:0.77
Consensus pattern (24 bp):
TTTGTTTTTTTTCTTTGCTTCTTT
Found at i:1093022 original size:30 final size:30
Alignment explanation
Indices: 1092923--1093056 Score: 97
Period size: 30 Copynumber: 4.4 Consensus size: 30
1092913 TTGAACATAC
* * * * * *
1092923 AAGGACCAAAATATCGAAAATATAAACTCA
1 AAGGACTAAAATAACAAAAACAGAAACTTA
* * * * *
1092953 AAGGGCTAAAATAGCAATAACAAAAAGTTA
1 AAGGACTAAAATAACAAAAACAGAAACTTA
** *
1092983 AAGTTCTAAAATAACAAAAACAGAAATTTA
1 AAGGACTAAAATAACAAAAACAGAAACTTA
* * *
1093013 AAGGACTAAAAGAATAAAAAATAGAAACTTA
1 AAGGACTAAAATAA-CAAAAACAGAAACTTA
*
1093044 AAGGACCAAAATA
1 AAGGACTAAAATA
1093057 GTAATTATAA
Statistics
Matches: 80, Mismatches: 23, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
30 56 0.70
31 24 0.30
ACGTcount: A:0.60, C:0.11, G:0.12, T:0.17
Consensus pattern (30 bp):
AAGGACTAAAATAACAAAAACAGAAACTTA
Found at i:1095374 original size:3 final size:3
Alignment explanation
Indices: 1095366--1095425 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
1095356 AATTTTGTTT
**
1095366 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1095414 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1095426 GTTTTAAAGC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1095744 original size:128 final size:127
Alignment explanation
Indices: 1095506--1095815 Score: 329
Period size: 128 Copynumber: 2.4 Consensus size: 127
1095496 CATCTTTAGG
** * * *
1095506 AAGGATGATAACACGGTTCCTAAGTGATGAGGACGACTGATTATCTAGGTTGACATAGCTCCTAC
1 AAGG-TGATAACACGACTCCTACGTGATGAGGACGGCTGGTTATCT-GGTTGACATAGCTCCTAC
* ** ** * * *
1095571 ATAATGAGGAAATCTAGTCGGGTGATGGCATGGTTCCTACCTGATGAGGACG-ACAGGGC-ATCT
64 ATAATGAGGAAATCTAGTCAGGTGATGAAACAGCTCATACCTGATGAAGA-GTAC-GGGCAATCT
1095634 A
127 A
* * *
1095635 AGGGTGATAGCACGACTCCTACGTGATAAGGACGGCTGGTTATCTGGGTTGACATAGCTCCTACA
1 AAGGTGATAACACGACTCCTACGTGATGAGGACGGCTGGTTATCT-GGTTGACATAGCTCCTACA
* * * * * *
1095700 TAATGAGGAGATCTGGTCAGTTGATGAAACAGCTCATACGTGATGAAGAGTTCTGGCAATCTA
65 TAATGAGGAAATCTAGTCAGGTGATGAAACAGCTCATACCTGATGAAGAGTACGGGCAATCTA
**
1095763 AAGGTGATAACACGGTTCCTACGTGATGA-GAGCGGCTGGTTATCTGGTTGACA
1 AAGGTGATAACACGACTCCTACGTGATGAGGA-CGGCTGGTTATCTGGTTGACA
1095816 CGGTTCCTAC
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
127 14 0.09
128 133 0.89
129 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (127 bp):
AAGGTGATAACACGACTCCTACGTGATGAGGACGGCTGGTTATCTGGTTGACATAGCTCCTACAT
AATGAGGAAATCTAGTCAGGTGATGAAACAGCTCATACCTGATGAAGAGTACGGGCAATCTA
Found at i:1101224 original size:12 final size:13
Alignment explanation
Indices: 1101193--1101233 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
1101183 GTCAAATACC
* *
1101193 TAAAAACATCTTT
1 TAAAAAAATCATT
1101206 TAAAAAAAATCATT
1 T-AAAAAAATCATT
1101220 TAAAAAAATCATT
1 TAAAAAAATCATT
1101233 T
1 T
1101234 TTAAGACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (13 bp):
TAAAAAAATCATT
Found at i:1102810 original size:18 final size:18
Alignment explanation
Indices: 1102787--1102821 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1102777 TTGTAATTTT
1102787 ATTTTAATAATAATAATA
1 ATTTTAATAATAATAATA
1102805 ATTTTAATAATAATAAT
1 ATTTTAATAATAATAAT
1102822 TTTTAAAGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTTTAATAATAATAATA
Found at i:1102814 original size:15 final size:15
Alignment explanation
Indices: 1102794--1102824 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
1102784 TTTATTTTAA
1102794 TAATAATAATAATTT
1 TAATAATAATAATTT
1102809 TAATAATAATAATTT
1 TAATAATAATAATTT
1102824 T
1 T
1102825 TAAAGCCCGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATAATAATAATTT
Found at i:1107846 original size:59 final size:59
Alignment explanation
Indices: 1107711--1107847 Score: 179
Period size: 59 Copynumber: 2.3 Consensus size: 59
1107701 TAGCAAGCTG
* ** * *
1107711 CATATTCGGGAATA-CACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGG-ATAGTACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* *
1107770 CATATTCGGGACT-GTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATTTGT
1 CATATTCGGGA-TAGTACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1107829 CATATTCGGGATAGTACTA
1 CATATTCGGGATAGTACTA
1107848 CGGTGCTTAT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
58 2 0.03
59 65 0.97
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (59 bp):
CATATTCGGGATAGTACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:1108041 original size:47 final size:45
Alignment explanation
Indices: 1107947--1108072 Score: 182
Period size: 47 Copynumber: 2.8 Consensus size: 45
1107937 GTAAGCATAC
* *
1107947 AAATAAGCTTACGAGCTTTTGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
* *
1107991 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATGGGTA
*
1108038 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAG
1108073 GGATTTTATA
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
44 23 0.31
45 11 0.15
46 1 0.01
47 39 0.53
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATGGGTA
Found at i:1109959 original size:2 final size:2
Alignment explanation
Indices: 1109952--1109995 Score: 54
Period size: 2 Copynumber: 21.5 Consensus size: 2
1109942 AATATGTATG
*
1109952 TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA -A GTCA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA TA
1109995 T
1 T
1109996 TCGAATATGC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
1 1 0.03
2 34 0.92
3 1 0.03
4 1 0.03
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1110955 original size:3 final size:3
Alignment explanation
Indices: 1110947--1110983 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
1110937 AATTTTGTTT
**
1110947 TAA TAA TAA TAA TAA TAA TTT TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1110984 TTTTAAAGCC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1110973 original size:18 final size:18
Alignment explanation
Indices: 1110950--1110986 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1110940 TTTGTTTTAA
1110950 TAATAATAATAATAATTT
1 TAATAATAATAATAATTT
1110968 TAATAATAATAATAATTT
1 TAATAATAATAATAATTT
1110986 T
1 T
1110987 TAAAGCCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATAATAATAATAATTT
Found at i:1115715 original size:2 final size:2
Alignment explanation
Indices: 1115708--1115755 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1115698 GAGCATCCCC
1115708 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1115750 AT AT AT
1 AT AT AT
1115756 GAACATGAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1117446 original size:29 final size:29
Alignment explanation
Indices: 1117351--1117448 Score: 90
Period size: 29 Copynumber: 3.3 Consensus size: 29
1117341 TAAATTGCTC
1117351 CCCCAAACTTTTAAACATTCCAAATTCAT
1 CCCCAAACTTTTAAACATTCCAAATTCAT
* * * ** *
1117380 CCGCAAACTATGATCCTTATTCTAAATT-AGT
1 CCCCAAACTTTTAAAC--ATTCCAAATTCA-T
*
1117411 CCCCAAACTTTTAAACAATCCAAATTCAT
1 CCCCAAACTTTTAAACATTCCAAATTCAT
*
1117440 CCTCAAACT
1 CCCCAAACT
1117449 ATGACTCTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
29 28 0.55
30 2 0.04
31 21 0.41
ACGTcount: A:0.37, C:0.30, G:0.03, T:0.31
Consensus pattern (29 bp):
CCCCAAACTTTTAAACATTCCAAATTCAT
Found at i:1117447 original size:60 final size:59
Alignment explanation
Indices: 1117256--1117490 Score: 276
Period size: 60 Copynumber: 3.9 Consensus size: 59
1117246 TTGCAGCATA
* * * * ** *
1117256 CATCTCCAAACTATGACTCTTATTCTATATTGGTCCCTAAACTTTTGAACATTTTAATTT
1 CATC-CCAAACTATGACTCTTATTCTAAATTAGTCCCCAAACTTTTAAACATTCCAAATT
* *
1117316 CATCCCTAAACTATGATTCTCATTCTAAATT-GCTCCCCCAAACTTTTAAACATTCCAAATT
1 CATCCC-AAACTATGACTCTTATTCTAAATTAG-T-CCCCAAACTTTTAAACATTCCAAATT
*
1117377 CATCCGCAAACTATGA-TCCTTATTCTAAATTAGTCCCCAAACTTTTAAACAATCCAAATT
1 CATCC-CAAACTATGACT-CTTATTCTAAATTAGTCCCCAAACTTTTAAACATTCCAAATT
** *
1117437 CATCCTCAAACTATGACTCTTATTCTAAATTAGTCCATAAACTTTTGAACATTC
1 CATCC-CAAACTATGACTCTTATTCTAAATTAGTCCCCAAACTTTTAAACATTC
1117491 TAATAATATC
Statistics
Matches: 153, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
59 3 0.02
60 99 0.65
61 49 0.32
62 2 0.01
ACGTcount: A:0.33, C:0.26, G:0.05, T:0.37
Consensus pattern (59 bp):
CATCCCAAACTATGACTCTTATTCTAAATTAGTCCCCAAACTTTTAAACATTCCAAATT
Found at i:1122277 original size:2 final size:2
Alignment explanation
Indices: 1122270--1122366 Score: 96
Period size: 2 Copynumber: 51.0 Consensus size: 2
1122260 AATTAAAAAT
* * * * * *
1122270 TA TA TA TA TA TA TA TA TA T- TA AA T- TA TT TG TA TA CA AA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1122310 T- TA T- TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1122350 TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA
1122367 AATTATAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
1 5 0.06
2 74 0.94
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1122373 original size:16 final size:17
Alignment explanation
Indices: 1122314--1122390 Score: 72
Period size: 16 Copynumber: 4.6 Consensus size: 17
1122304 CAAATGTTAT
1122314 TAAA-TATATATATATA
1 TAAATTATATATATATA
*
1122330 TATA-TATATATATATA
1 TAAATTATATATATATA
*
1122346 TATATATATATATATATTA
1 TAAAT-TATATATATA-TA
1122365 TAAATTATA-A-ATAGTA
1 TAAATTATATATATA-TA
*
1122381 GAAATTATAT
1 TAAATTATAT
1122391 TAAGTTATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
16 32 0.60
17 1 0.02
18 14 0.26
19 6 0.11
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATTATATATATATA
Found at i:1122631 original size:15 final size:15
Alignment explanation
Indices: 1122611--1122643 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1122601 TTTTTTAAAC
1122611 ACCCCTACTACTCAT
1 ACCCCTACTACTCAT
1122626 ACCCCTACTACTCAT
1 ACCCCTACTACTCAT
1122641 ACC
1 ACC
1122644 GAAAATCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.48, G:0.00, T:0.24
Consensus pattern (15 bp):
ACCCCTACTACTCAT
Found at i:1123823 original size:20 final size:19
Alignment explanation
Indices: 1123794--1123834 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1123784 TAGTAAAAAC
* *
1123794 AACAGCCAAACGGTCGAAG
1 AACAGCCAAAAGGTAGAAG
1123813 AACATGCCAAAAGGTAGAAG
1 AACA-GCCAAAAGGTAGAAG
1123833 AA
1 AA
1123835 AATGTGTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.49, C:0.20, G:0.24, T:0.07
Consensus pattern (19 bp):
AACAGCCAAAAGGTAGAAG
Found at i:1127468 original size:131 final size:130
Alignment explanation
Indices: 1127234--1127497 Score: 510
Period size: 131 Copynumber: 2.0 Consensus size: 130
1127224 TGTTCTGGTC
1127234 AAAAACACAGAGCTCGGGCCTTTTAGGGTTTTTGGGATTCTTAGATATACATGATATACTGTATA
1 AAAAACACAGAGCTCGGGCCTTTTAGGGTTTTTGGGATTCTTAGATATACATGATATACTGTATA
1127299 GAACATTAGAATTTAAGATTTGTTTGGTGAAATTGTCTACTGCTATTGGTTCCAATATTTTTTTT
66 GAACATTAGAATTTAAGATTTGTTTGGTGAAATTGTCTACTGCTATTGGTTCCAATA-TTTTTTT
1127364 A
130 A
1127365 AAAAACACAGAGCTCGGGCCTTTTAGGGTTTTTGGGATTCTTAGATATACATGATATACTGTATA
1 AAAAACACAGAGCTCGGGCCTTTTAGGGTTTTTGGGATTCTTAGATATACATGATATACTGTATA
*
1127430 GAACATTAGAATTTAAGATTTGTTTGTTGAAATTGTCTACTGCTATTGGTTCCAATATTTTTTTA
66 GAACATTAGAATTTAAGATTTGTTTGGTGAAATTGTCTACTGCTATTGGTTCCAATATTTTTTTA
1127495 AAA
1 AAA
1127498 TAATGCAGAT
Statistics
Matches: 132, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
130 11 0.08
131 121 0.92
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (130 bp):
AAAAACACAGAGCTCGGGCCTTTTAGGGTTTTTGGGATTCTTAGATATACATGATATACTGTATA
GAACATTAGAATTTAAGATTTGTTTGGTGAAATTGTCTACTGCTATTGGTTCCAATATTTTTTTA
Found at i:1129911 original size:57 final size:57
Alignment explanation
Indices: 1129823--1129936 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
1129813 TTACCTTGCC
1129823 ACCTGCCTATGAAGGTGTTACAACGTTGGCCTCTGACTCTAATGTGTCGAAACGATT
1 ACCTGCCTATGAAGGTGTTACAACGTTGGCCTCTGACTCTAATGTGTCGAAACGATT
1129880 ACCTGCCTATGAAGGTGTTACAACGTTGGCCTCTGACTCTAATGTGTCGAAACGATT
1 ACCTGCCTATGAAGGTGTTACAACGTTGGCCTCTGACTCTAATGTGTCGAAACGATT
1129937 TTTCCTTAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (57 bp):
ACCTGCCTATGAAGGTGTTACAACGTTGGCCTCTGACTCTAATGTGTCGAAACGATT
Found at i:1142065 original size:45 final size:47
Alignment explanation
Indices: 1141997--1142085 Score: 146
Period size: 45 Copynumber: 1.9 Consensus size: 47
1141987 TGCTTTGTTA
*
1141997 TTCACAAAAATAAATCTTAACCGCATGATATCTAATTCGCATGCTTG
1 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
*
1142044 TTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
1142086 ATTTATTCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 27 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.29
Consensus pattern (47 bp):
TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
Found at i:1152624 original size:99 final size:99
Alignment explanation
Indices: 1152448--1152891 Score: 443
Period size: 99 Copynumber: 4.3 Consensus size: 99
1152438 TTTACAGATG
* * ** * * *
1152448 ACCCGGAGGTTTTATAAATCACCTAGAGGTTTTAATTTTCTTGAAAATTAAATGAGAAACTTTGA
1 ACCCTGAGGTTTTATAAATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGG
* *
1152513 AAATCGCTTTCTCATTTTCATGTGAAAACATCCT
66 TAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* *
1152547 ACCCTGAGGTTTTATAGATGACCCGGAGGATTTACTTTTCTTGAACATTAAATGAGAAACTTTGG
1 ACCCTGAGGTTTTATAAATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGG
1152612 TAATCGCTTTCTCATTTTCATGCGAAAACATCCT
66 TAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * ** * **
1152646 ACCCTGAGGTTTTATAGATGACCCAGAGGATTTATAAATTACCCGGAGGTTTTAATTTTCTAGAA
1 ACCCTGAGGTTTTATAAATGACCCGGAGGA-TT-T-AATT-TTC------TTGAA-CAT-T--AA
*
1152711 CATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCT
52 ------ATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * *
1152765 ACCCTGAGGTTTTATATATGACCTGGAGGATTTAATTTTTTTAGAACA-T---T---AAACTTTG
1 ACCCTGAGGTTTTATAAATGACCCGGAGGATTTAATTTTCTT-GAACATTAAATGAGAAACTTTG
*
1152823 GTAATCGCTTTCTCATTTTCATGCGAAAATATCCT
65 GTAATCGCTTTCTCATTTTCATGCGAAAACATCCT
1152858 ACCCTGAGGTTTTATAAATGACCCGGAGGATTTA
1 ACCCTGAGGTTTTATAAATGACCCGGAGGATTTA
1152892 CAAATTACCC
Statistics
Matches: 292, Mismatches: 32, Indels: 48
0.78 0.09 0.13
Matches are distributed among these distances:
93 73 0.25
96 1 0.00
99 117 0.40
100 2 0.01
101 1 0.00
102 3 0.01
103 1 0.00
107 1 0.00
109 6 0.02
110 3 0.01
111 1 0.00
113 2 0.01
116 4 0.01
117 1 0.00
118 2 0.01
119 74 0.25
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (99 bp):
ACCCTGAGGTTTTATAAATGACCCGGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGG
TAATCGCTTTCTCATTTTCATGCGAAAACATCCT
Found at i:1152674 original size:20 final size:20
Alignment explanation
Indices: 1152646--1152699 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
1152636 AAAACATCCT
* *
1152646 ACCCTGAGGTTTTATAGATG
1 ACCCAGAGGTTTTATAAATG
* *
1152666 ACCCAGAGGATTTATAAATT
1 ACCCAGAGGTTTTATAAATG
*
1152686 ACCCGGAGGTTTTA
1 ACCCAGAGGTTTTA
1152700 ATTTTCTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (20 bp):
ACCCAGAGGTTTTATAAATG
Found at i:1152768 original size:119 final size:119
Alignment explanation
Indices: 1152547--1152798 Score: 405
Period size: 119 Copynumber: 2.1 Consensus size: 119
1152537 AAAACATCCT
* * * * *
1152547 ACCCTGAGGTTTTATAGATGACCCGGAGGATTTACTTTTCTTGAACATTAAATGAGAAACTTTGG
1 ACCCAGAGGATTTATAAATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
*
1152612 TAATCGCTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATG
66 TAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATG
* *
1152666 ACCCAGAGGATTTATAAATTACCCGGAGGTTTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
1 ACCCAGAGGATTTATAAATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
*
1152731 TAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATATATG
66 TAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATG
**
1152785 ACCTGGAGGATTTA
1 ACCCAGAGGATTTA
1152799 ATTTTTTTAG
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
119 122 1.00
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (119 bp):
ACCCAGAGGATTTATAAATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
TAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAGATG
Found at i:1152841 original size:93 final size:93
Alignment explanation
Indices: 1152722--1152891 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
1152712 ATTAAATGAG
*
1152722 AAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATATATGAC
1 AAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAAATGAC
*
1152787 CTGGAGGATTTAATTTTTTTAGAACATT
66 CCGGAGGATTTAATTTTTTTAGAACATT
* *
1152815 AAACTTTGGTAATCGCTTTCTCATTTTCATGCGAAAATATCCTACCCTGAGGTTTTATAAATGAC
1 AAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAAATGAC
1152880 CCGGAGGATTTA
66 CCGGAGGATTTA
1152892 CAAATTACCC
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (93 bp):
AAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTATAAATGAC
CCGGAGGATTTAATTTTTTTAGAACATT
Found at i:1152886 original size:20 final size:20
Alignment explanation
Indices: 1152858--1152911 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1152848 AAAATATCCT
* *
1152858 ACCCTGAGGTTTTATAAATG
1 ACCCGGAGGTTTTACAAATG
* *
1152878 ACCCGGAGGATTTACAAATT
1 ACCCGGAGGTTTTACAAATG
1152898 ACCCGGAGGTTTTA
1 ACCCGGAGGTTTTA
1152912 ATTTTCTAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (20 bp):
ACCCGGAGGTTTTACAAATG
Found at i:1152905 original size:212 final size:214
Alignment explanation
Indices: 1152418--1152996 Score: 876
Period size: 212 Copynumber: 2.7 Consensus size: 214
1152408 AATTAAAGTA
* * * * **
1152418 AAAACATCCTACCCGGAGGTTTTACAGATGACCCGGAGGTTTTATAAATCACCTAGAGGTTTTAA
1 AAAACATCCTACCCTGAGGTTTTATAGATGACCCGGAGGATTTATAAATTACCCGGAGGTTTTAA
* * ** *
1152483 TTTTCTTGAAAATTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTCATGTGAAAACATCCTA
66 TTTTCTAGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGCGAAAACATCCTA
*
1152548 CCCTGAGGTTTTATAGATGACCCGGAGGATTTACTTTTCTTGAACATTAAATGAGAAACTTTGGT
131 CCCTGAGGTTTTATAGATGACCCGGAGGATTTAATTTTCTTGAACATT--AT--GAAACTTTGGT
1152613 AATCGCTTTCTCATTTTCATGCG
192 AATCGCTTTCTCATTTTCATGCG
*
1152636 AAAACATCCTACCCTGAGGTTTTATAGATGACCCAGAGGATTTATAAATTACCCGGAGGTTTTAA
1 AAAACATCCTACCCTGAGGTTTTATAGATGACCCGGAGGATTTATAAATTACCCGGAGGTTTTAA
*
1152701 TTTTCTAGAACATTAAATGAGAAACTTTGGTAATCACTTTCTCATTTTCATGCGAAAACATCCTA
66 TTTTCTAGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGCGAAAACATCCTA
* * *
1152766 CCCTGAGGTTTTATATATGACCTGGAGGATTTAATTTTTTTAGAACA-T-T-AAACTTTGGTAAT
131 CCCTGAGGTTTTATAGATGACCCGGAGGATTTAATTTTCTT-GAACATTATGAAACTTTGGTAAT
1152828 CGCTTTCTCATTTTCATGCG
195 CGCTTTCTCATTTTCATGCG
* * *
1152848 AAAATATCCTACCCTGAGGTTTTATAAATGACCCGGAGGATTTACAAATTACCCGGAGGTTTTAA
1 AAAACATCCTACCCTGAGGTTTTATAGATGACCCGGAGGATTTATAAATTACCCGGAGGTTTTAA
* *
1152913 TTTTCTAGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTTATTTTCATGCTAAAACATCCTA
66 TTTTCTAGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGCGAAAACATCCTA
* *
1152978 CCCTGAGATTTTATGGATG
131 CCCTGAGGTTTTATAGATG
1152997 GCCCTAAAGA
Statistics
Matches: 333, Mismatches: 27, Indels: 8
0.90 0.07 0.02
Matches are distributed among these distances:
212 172 0.52
215 1 0.00
218 155 0.47
219 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (214 bp):
AAAACATCCTACCCTGAGGTTTTATAGATGACCCGGAGGATTTATAAATTACCCGGAGGTTTTAA
TTTTCTAGAACATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGCGAAAACATCCTA
CCCTGAGGTTTTATAGATGACCCGGAGGATTTAATTTTCTTGAACATTATGAAACTTTGGTAATC
GCTTTCTCATTTTCATGCG
Found at i:1153345 original size:249 final size:249
Alignment explanation
Indices: 1152969--1153676 Score: 1154
Period size: 249 Copynumber: 2.8 Consensus size: 249
1152959 TTCATGCTAA
** ** * *
1152969 AACATCCTACCCTGAGATTTTATGGATGGCCCTAAAGACTTATCATCTTGCTCGAAAGACTGACA
1 AACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
*
1153034 GAT-ATCCCGAATGTTTTAAGCATCATGCTCGAAAGACTAATAGATGACCCGAAGGATTTACAAA
66 GATGA-CCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAATAGATGACCCGAAGGATTTACAAA
*
1153098 TTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTATTTTTCAAAATTTTGATTTTTTAGAACA
130 TTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAAAATTTTGATTTTTTAGAACA
*
1153163 TTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAAAATTATATGTG
195 TTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAAAATCATATGTG
1153218 AACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
1 AACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
* * *
1153283 TATGAGCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAATAGATGACCCGAATGATTTACAAAT
66 GATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAATAGATGACCCGAAGGATTTACAAAT
* *
1153348 TTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTC-AAGTATTTGATTTTCTAGAACA
131 TTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAAAAT-TTTGATTTTTTAGAACA
* *
1153412 TTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGTGAAAATCATATGTG
195 TTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAAAATCATATGTG
1153467 AACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
1 AACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
*
1153532 GATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAAT
66 GATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAATAGATGACCCGAAGGATTTACAAAT
* * *
1153597 TTGTGGGAAATACTTTACT-GGTAATAAACTTCTTACTTTTCAAGAA-TTTCATTTTTTAAAAAA
131 TTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAA-AATTTTGATTTTTT--AGAA
*
1153660 GATTAAATGAGAAACTT
193 CATTAAATGAGAAACTT
1153677 GTTGGTTGGG
Statistics
Matches: 427, Mismatches: 26, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
248 33 0.08
249 373 0.87
250 21 0.05
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (249 bp):
AACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGACA
GATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAATAGATGACCCGAAGGATTTACAAAT
TTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAAAATTTTGATTTTTTAGAACAT
TAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAAAATCATATGTG
Found at i:1153575 original size:42 final size:42
Alignment explanation
Indices: 1153510--1153591 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
1153500 AAGGACTTAT
* * *
1153510 CATCTTGCTCGAAAGACTGACAGATGACCCGAAGGTTTTAAG
1 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAG
1153552 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTA
1 CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTA
1153592 CAAATTTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTAAG
Found at i:1156403 original size:1 final size:1
Alignment explanation
Indices: 1156399--1156469 Score: 52
Period size: 1 Copynumber: 71.0 Consensus size: 1
1156389 TTTTGTCATC
* * * * * * * * * *
1156399 TTTTTTTCTTTTCTTTTTTCTTTTTCTTTTTTCTTTTTTGTTTTTTTGTTTTTTGTTTTTTCTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1156464 TTTTTT
1 TTTTTT
1156470 CTAATGGATG
Statistics
Matches: 50, Mismatches: 20, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.10, G:0.04, T:0.86
Consensus pattern (1 bp):
T
Found at i:1156408 original size:8 final size:8
Alignment explanation
Indices: 1156397--1156471 Score: 66
Period size: 8 Copynumber: 9.4 Consensus size: 8
1156387 TTTTTTGTCA
1156397 TCTTTTTT
1 TCTTTTTT
1156405 TCTTTTCTT
1 TCTTTT-TT
*
1156414 TTTTCTTTT
1 TCTT-TTTT
1156423 TC-TTTTT
1 TCTTTTTT
1156430 TC-TTTTT
1 TCTTTTTT
*
1156437 TGTTTTTT
1 TCTTTTTT
*
1156445 TGTTTTTT
1 TCTTTTTT
*
1156453 GT-TTTTTC
1 -TCTTTTTT
1156461 TCTTTTTT
1 TCTTTTTT
1156469 TCT
1 TCT
1156472 AATGGATGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
7 13 0.23
8 33 0.58
9 9 0.16
10 2 0.04
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (8 bp):
TCTTTTTT
Found at i:1156410 original size:7 final size:7
Alignment explanation
Indices: 1156397--1156467 Score: 74
Period size: 7 Copynumber: 10.1 Consensus size: 7
1156387 TTTTTTGTCA
1156397 TCTTTTT
1 TCTTTTT
*
1156404 T-TCTTT
1 TCTTTTT
1156410 TCTTTTT
1 TCTTTTT
1156417 TC-TTTT
1 TCTTTTT
1156423 TCTTTTT
1 TCTTTTT
1156430 TCTTTTT
1 TCTTTTT
*
1156437 TGTTTTTT
1 T-CTTTTT
*
1156445 TGTTTTT
1 TCTTTTT
*
1156452 TGTTTTT
1 TCTTTTT
1156459 TCTCTTTT
1 TCT-TTTT
1156467 T
1 T
1156468 TTCTAATGGA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
6 11 0.20
7 33 0.60
8 11 0.20
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (7 bp):
TCTTTTT
Found at i:1156413 original size:13 final size:13
Alignment explanation
Indices: 1156377--1156471 Score: 70
Period size: 13 Copynumber: 7.4 Consensus size: 13
1156367 CTTGATTCAA
*
1156377 TTTCTTTTCCTTT
1 TTTCTTTTCTTTT
* **
1156390 TTTGTCATCTTTT
1 TTTCTTTTCTTTT
1156403 TTTCTTTTC-TTT
1 TTTCTTTTCTTTT
1156415 TTTCTTTTTCTTTT
1 TTTC-TTTTCTTTT
* *
1156429 TTCTTTTTTGTTTT
1 TT-TCTTTTCTTTT
* *
1156443 TTTGTTTT-TTGT
1 TTTCTTTTCTTTT
*
1156455 TTT-TTCTCTTTT
1 TTTCTTTTCTTTT
1156467 TTTCT
1 TTTCT
1156472 AATGGATGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
11 3 0.05
12 19 0.30
13 26 0.41
14 15 0.23
15 1 0.02
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.81
Consensus pattern (13 bp):
TTTCTTTTCTTTT
Found at i:1156420 original size:20 final size:19
Alignment explanation
Indices: 1156397--1156469 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 19
1156387 TTTTTTGTCA
1156397 TCTTTTTTTCTTTTCTTTTT
1 TCTTTTTTT-TTTTCTTTTT
1156417 TCTTTTTCTTTTTTCTTTTTT
1 TCTTTTT-TTTTTTC-TTTTT
* *
1156438 GTTTTTTTGTTTTTTGTTTTT
1 -TCTTTTT-TTTTTTCTTTTT
1156459 TCTCTTTTTTT
1 TCT-TTTTTTT
1156470 CTAATGGATG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
20 17 0.38
21 16 0.36
22 12 0.27
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (19 bp):
TCTTTTTTTTTTTCTTTTT
Found at i:1158907 original size:26 final size:26
Alignment explanation
Indices: 1158878--1158928 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1158868 AATGTAATTA
**
1158878 TGCAAAGATGCGAATGCGAATGCAAC
1 TGCAAAGATGCGAATGAAAATGCAAC
* *
1158904 TGCAAATATGTGAATGAAAATGCAA
1 TGCAAAGATGCGAATGAAAATGCAA
1158929 AAAATGTAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.20
Consensus pattern (26 bp):
TGCAAAGATGCGAATGAAAATGCAAC
Found at i:1167754 original size:7 final size:7
Alignment explanation
Indices: 1167737--1167779 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
1167727 TGTCAATCAT
1167737 CGTCAGTC
1 CGTC-GTC
1167745 CGTCGTC
1 CGTCGTC
*
1167752 CGTCATC
1 CGTCGTC
1167759 CGTCGTC
1 CGTCGTC
**
1167766 CACCGTC
1 CGTCGTC
1167773 CGTCGTC
1 CGTCGTC
1167780 TGCCGCCACA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
7 25 0.86
8 4 0.14
ACGTcount: A:0.07, C:0.44, G:0.23, T:0.26
Consensus pattern (7 bp):
CGTCGTC
Found at i:1176478 original size:402 final size:399
Alignment explanation
Indices: 1175536--1176724 Score: 1942
Period size: 402 Copynumber: 3.0 Consensus size: 399
1175526 AGAACCAAAA
* * * * *
1175536 AAGGCGGGAAATCGAATAAAAAAATGAACTAACCTATTTATGATCTATCAAGCTGTTAATATAAA
1 AAGGCGGGAAATCGAATAAAAAAATGAACTAGCCGATTTATGATCCATCAAGCTATTAATACAAA
1175601 TGCTCGCAAGAGATGGACGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGTGT
66 TGCTCGCAAGAGATGGACGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGTGT
*
1175666 TTTCCTTCTTCTTTTAAGAAAATTAAAAGCAGAGGAGAGGAGAGAAAGGAAAGGGATCGCTGAGA
131 TTTCCTTCTTCTTTTAAGAAAATCAAAAGCAGAGGAGAGGAGAGAAAGGAAAGGGATCGCTGAGA
1175731 GCAACACATCAATGAGAAAGACGAAGCAGGATCTCTTTTCTTCTTTTTTTTTTTTACGTTTTCAT
196 GCAACACATCAATGAGAAAGACGAAGCAGGA--TC---TCTT-TTTTTTTTTTTTACGTTTTCAT
1175796 TTTCATTTTTTT-CGTCAATAGGCAGCTATTAGCCTACACTGATTCTACATAAACGGGCCTTGGA
255 TTTCATTTTTTTCCGTCAAT-GGCAGC-ATTAGCCTACACTGATTCTACATAAACGGGCCTTGGA
1175860 TTACACCTTCTTATATTTAAAAAAATATTTTAATTTTTAATGAAATTAACATTTCTAGGTAAACT
318 TTACACCTTCTTATATTTAAAAAAATATTTTAATTTTTAATGAAATTAACATTTCTAGGTAAACT
*
1175925 AAGAGTTTAGGATAAAG
383 AGGAGTTTAGGATAAAG
1175942 AAGGCGGGAAATCGAATAAAAAAAATGAACTAGCCGATTTATGATCCATCAAGC-AGTTAATACA
1 AAGGCGGGAAATCGAAT-AAAAAAATGAACTAGCCGATTTATGATCCATCAAGCTA-TTAATACA
*
1176006 AATGCTCGCAAGAGATGGATGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGT
64 AATGCTCGCAAGAGATGGACGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGT
* *
1176071 GTTTTCCTTCTTCTTTTAAGAAAATCAAAAGCAGAGGAGAGGGGAGAAAGGAAAGGGATCGCTCA
129 GTTTTCCTTCTTCTTTTAAGAAAATCAAAAGCAGAGGAGAGGAGAGAAAGGAAAGGGATCGCTGA
1176136 GAGCAACACATCAATGAGAAAGACGAAGCAGGATCTCTTTTTTTTTTTTTTACGTTTTCATTTTC
194 GAGCAACACATCAATGAGAAAGACGAAGCAGGATCTCTTTTTTTTTTTTTTACGTTTTCATTTTC
1176201 ATTTTTTTTTCCGTCAATGGGCAGCGATTAGCCTACACTGATTCTACATAAACGGGCCTTGGATT
259 A--TTTTTTTCCGTCAAT-GGCAGC-ATTAGCCTACACTGATTCTACATAAACGGGCCTTGGATT
* *
1176266 ACACCTTCTTATATTT-AAAAAATATTTTATTTTTTAATGAAATTAACATTTCTAGATAAACTAG
320 ACACCTTCTTATATTTAAAAAAATATTTTAATTTTTAATGAAATTAACATTTCTAGGTAAACTAG
1176330 GAGTTTAGGATAAAG
385 GAGTTTAGGATAAAG
*
1176345 AAGTCGGGAAATCGAATAAAAAAATGAACTAGCCGATTTATGATCCATCAAGCTATTAATACAAA
1 AAGGCGGGAAATCGAATAAAAAAATGAACTAGCCGATTTATGATCCATCAAGCTATTAATACAAA
*
1176410 TGCTCGCAAGAGAAGGACGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGTGT
66 TGCTCGCAAGAGATGGACGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGTGT
*
1176475 TTTCCTTCTTCTTTTAAGAAAATCAAAAGCAGAGGAGAGGAGAGAAAAGAAAGGGATCGCTGAGA
131 TTTCCTTCTTCTTTTAAGAAAATCAAAAGCAGAGGAGAGGAGAGAAAGGAAAGGGATCGCTGAGA
*
1176540 GCAACACATCAATGAGAAAGACGAAACAGGATCTCTTTTCTTCTTCTTTTTTACGTTTTCATTTT
196 GCAACACATCAATGAGAAAGACGAAGCAGGATCTCTTTT-TT-TT-TTTTTTACGTTTTCATTTT
* *
1176605 AATTTTTTTCCG----T--CA--A-T-G---ACACTGATTCTACATAAACGGGCATTGGATTACA
258 CATTTTTTTCCGTCAATGGCAGCATTAGCCTACACTGATTCTACATAAACGGGCCTTGGATTACA
*
1176657 CCTTCTTATATTTAAAAAAATATTTTAATTTTTAATGAAATTAACATTTCTAGGTATACTAGGAG
323 CCTTCTTATATTTAAAAAAATATTTTAATTTTTAATGAAATTAACATTTCTAGGTAAACTAGGAG
1176722 TTT
388 TTT
1176725 TAGTATCCAA
Statistics
Matches: 747, Mismatches: 26, Indels: 37
0.92 0.03 0.05
Matches are distributed among these distances:
388 46 0.06
389 51 0.07
391 1 0.00
392 1 0.00
393 1 0.00
396 2 0.00
399 1 0.00
401 27 0.04
402 213 0.29
403 96 0.13
404 70 0.09
405 22 0.03
406 17 0.02
407 199 0.27
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (399 bp):
AAGGCGGGAAATCGAATAAAAAAATGAACTAGCCGATTTATGATCCATCAAGCTATTAATACAAA
TGCTCGCAAGAGATGGACGTGGAGAGTTAGGATAAAGAAGGCAGGAGAAATTTATTTACCTGTGT
TTTCCTTCTTCTTTTAAGAAAATCAAAAGCAGAGGAGAGGAGAGAAAGGAAAGGGATCGCTGAGA
GCAACACATCAATGAGAAAGACGAAGCAGGATCTCTTTTTTTTTTTTTTACGTTTTCATTTTCAT
TTTTTTCCGTCAATGGCAGCATTAGCCTACACTGATTCTACATAAACGGGCCTTGGATTACACCT
TCTTATATTTAAAAAAATATTTTAATTTTTAATGAAATTAACATTTCTAGGTAAACTAGGAGTTT
AGGATAAAG
Found at i:1177794 original size:8 final size:9
Alignment explanation
Indices: 1177783--1177823 Score: 54
Period size: 8 Copynumber: 5.0 Consensus size: 9
1177773 CTGAAATGGT
1177783 TAAATAA-A
1 TAAATAATA
1177791 TAAATAA-A
1 TAAATAATA
1177799 T-AATAATA
1 TAAATAATA
1177807 TAAATAATA
1 TAAATAATA
1177816 T-AATAATA
1 TAAATAATA
1177824 ATAACGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
7 5 0.16
8 18 0.58
9 8 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAAATAATA
Found at i:1177798 original size:12 final size:13
Alignment explanation
Indices: 1177783--1177820 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
1177773 CTGAAATGGT
1177783 TAAATAAATAA-A
1 TAAATAAATAATA
1177795 TAAAT-AATAATA
1 TAAATAAATAATA
1177807 TAAATAATATAATA
1 TAAATAA-ATAATA
1177821 ATAATAACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 5 0.22
12 11 0.48
13 1 0.04
14 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATAAATAATA
Found at i:1177809 original size:20 final size:20
Alignment explanation
Indices: 1177786--1177826 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1177776 AAATGGTTAA
1177786 ATAAATAA-ATAAATAATAAT
1 ATAAATAATAT-AATAATAAT
1177806 ATAAATAATATAATAATAAT
1 ATAAATAATATAATAATAAT
1177826 A
1 A
1177827 ACGAAAAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
ATAAATAATATAATAATAAT
Found at i:1177947 original size:39 final size:36
Alignment explanation
Indices: 1177844--1178104 Score: 236
Period size: 34 Copynumber: 7.1 Consensus size: 36
1177834 ACCATATAAC
*
1177844 ATATATTATA--TTTTCAAAAA-CCATTTTAAAAACT
1 ATATATTATATGTTTTCAAAAATAC-TTTTAAAAACT
* *
1177878 ATATACTATATGTTTTCAAAAATA--TTAAAAAACT
1 ATATATTATATGTTTTCAAAAATACTTTTAAAAACT
*
1177912 ATATATTATATGTTTTCAAAAATACGTTTTCAAAAATT
1 ATATATTATATGTTTTCAAAAATAC-TTTT-AAAAACT
*
1177950 ATATTATATATACGTTTTCAAAAATA-TTTT-AAAACT
1 ATA-TAT-TATATGTTTTCAAAAATACTTTTAAAAACT
*
1177986 ATATATTATATGTTTTCCAAAACCA-ATTTTTAAAAACCT
1 ATATATTATATGTTTT-CAAAA--ATACTTTTAAAAA-CT
* *
1178025 ATATATTATATTGCTTTCAAAAA-CCGTTTTCTAAAAACT
1 ATATATTATA-TGTTTTCAAAAATAC--TTT-TAAAAACT
*
1178064 ATATATTGTATGTTTTTCAAAAATA-TTTTCAAAAACT
1 ATATATTATATG-TTTTCAAAAATACTTTT-AAAAACT
1178101 ATAT
1 ATAT
1178105 TATTTCATTA
Statistics
Matches: 190, Mismatches: 15, Indels: 41
0.77 0.06 0.17
Matches are distributed among these distances:
34 50 0.26
35 8 0.04
36 20 0.11
37 22 0.12
38 19 0.10
39 43 0.23
40 28 0.15
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (36 bp):
ATATATTATATGTTTTCAAAAATACTTTTAAAAACT
Found at i:1177972 original size:74 final size:71
Alignment explanation
Indices: 1177844--1178107 Score: 261
Period size: 74 Copynumber: 3.6 Consensus size: 71
1177834 ACCATATAAC
* *
1177844 ATATATTATA--TTTTCAAAAACCATTTT-AAAAACTATA-TACTATATGTTTTCAAAAATATTA
1 ATATATTATATGTTTTCAAAAAACATTTTCAAAAACTATATTA-TATATGTTTTCAAAAATATTT
1177905 AAAAACT
65 AAAAACT
* *
1177912 ATATATTATATGTTTTCAAAAATACGTTTTCAAAAATTATATTATATATACGTTTTCAAAAATAT
1 ATATATTATATGTTTTCAAAAA-ACATTTTCAAAAACTATATTATATAT--GTTTTCAAAAATAT
*
1177977 TTTAAAACT
63 TTAAAAACT
* * * *
1177986 ATATATTATATGTTTTCCAAAACCAATTTTTAAAAACCTATA-TATTATATTGCTTTCAAAAACC
1 ATATATTATATGTTTTCAAAAAAC-ATTTTCAAAAA-CTATATTA-TATA-TGTTTTCAAAAA--
*
1178050 GTTTTCTAAAAACT
60 -TATT-TAAAAACT
* *
1178064 ATATATTGTATGTTTTTC-AAAAATATTTTCAAAAACTATATTAT
1 ATATATTATATG-TTTTCAAAAAACATTTTCAAAAACTATATTAT
1178108 TTCATTATAT
Statistics
Matches: 162, Mismatches: 17, Indels: 26
0.79 0.08 0.13
Matches are distributed among these distances:
68 10 0.06
70 10 0.06
71 5 0.03
72 14 0.09
73 3 0.02
74 63 0.39
75 8 0.05
76 7 0.04
77 15 0.09
78 22 0.14
79 5 0.03
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (71 bp):
ATATATTATATGTTTTCAAAAAACATTTTCAAAAACTATATTATATATGTTTTCAAAAATATTTA
AAAACT
Found at i:1178028 original size:37 final size:37
Alignment explanation
Indices: 1177987--1178107 Score: 97
Period size: 39 Copynumber: 3.2 Consensus size: 37
1177977 TTTAAAACTA
1177987 TATATTATATGTTTTCCAAAACCAATTTTTAAAAACC
1 TATATTATATGTTTTCCAAAACCAATTTTTAAAAACC
* * * *
1178024 TATATATTATATTGCTTTCAAAAACC-GTTTTCTAAAAACTA
1 --TATATTATA-TGTTTTCCAAAACCAATTTT-TAAAAAC-C
* * *
1178065 TATATTGTATGTTTTTCAAAA--ATATTTTCAAAAA-C
1 TATATTATATGTTTTCCAAAACCA-ATTTTTAAAAACC
1178100 TATATTAT
1 TATATTAT
1178108 TTCATTATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 14
0.71 0.13 0.15
Matches are distributed among these distances:
35 7 0.11
37 5 0.08
38 13 0.20
39 21 0.32
40 19 0.29
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (37 bp):
TATATTATATGTTTTCCAAAACCAATTTTTAAAAACC
Found at i:1178105 original size:113 final size:107
Alignment explanation
Indices: 1177854--1178107 Score: 282
Period size: 113 Copynumber: 2.3 Consensus size: 107
1177844 ATATATTATA
*
1177854 TTTTCAAAAACCATTTTAAAAACTATATACTATATGTTTTCAAAAATATTAAAAAACTATATATT
1 TTTTCAAAAA-TATTTTAAAAACTATAT--TATATGTTTTCAAAAATATTAAAAAACTATATATT
* *
1177919 ATATGTTTTCAAAAATACGTTTTCAAAAATTATATTATATATACG
63 ATATGCTTTCAAAAATACGTTTTCAAAAACTATATTATATATACG
* *
1177964 TTTTCAAAAATATTTT-AAAACTATATATTATATGTTTTCCAAAACCAATTTTTAAAAACCTATA
1 TTTTCAAAAATATTTTAAAAAC--TATATTATATGTTTT-C-AAA--AA-TATTAAAAAACTATA
* * *
1178028 TATTATATTGCTTTCAAAAA-CCGTTTTCTAAAAACTATA-TAT-TGTATG
59 TATTATA-TGCTTTCAAAAATACGTTTTC-AAAAACTATATTATATATACG
1178076 TTTTTCAAAAATATTTTCAAAAACTATATTAT
1 -TTTTCAAAAATATTTT-AAAAACTATATTAT
1178108 TTCATTATAT
Statistics
Matches: 124, Mismatches: 8, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
108 15 0.12
109 6 0.05
110 18 0.15
112 6 0.05
113 54 0.44
114 20 0.16
115 5 0.04
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (107 bp):
TTTTCAAAAATATTTTAAAAACTATATTATATGTTTTCAAAAATATTAAAAAACTATATATTATA
TGCTTTCAAAAATACGTTTTCAAAAACTATATTATATATACG
Found at i:1186992 original size:3 final size:3
Alignment explanation
Indices: 1186984--1187033 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
1186974 TGTTATATCT
1186984 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1187032 TT
1 TT
1187034 TTGAAATGGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1187828 original size:3 final size:3
Alignment explanation
Indices: 1187822--1187901 Score: 105
Period size: 3 Copynumber: 27.3 Consensus size: 3
1187812 ATTTTTTTAA
*
1187822 ATT ATT ATT ATT ATT ATA ATT -TAT ATT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
1187866 ATT ATT -TAT ATT A-T ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1187902 AATAAAATAT
Statistics
Matches: 69, Mismatches: 2, Indels: 12
0.83 0.02 0.14
Matches are distributed among these distances:
2 6 0.09
3 61 0.88
4 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1187897 original size:29 final size:29
Alignment explanation
Indices: 1187822--1187900 Score: 149
Period size: 29 Copynumber: 2.7 Consensus size: 29
1187812 ATTTTTTTAA
*
1187822 ATTATTATTATTATTATAATTTATATTAT
1 ATTATTATTATTATTATTATTTATATTAT
1187851 ATTATTATTATTATTATTATTTATATTAT
1 ATTATTATTATTATTATTATTTATATTAT
1187880 ATTATTATTATTATTATTATT
1 ATTATTATTATTATTATTATT
1187901 AAATAAAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (29 bp):
ATTATTATTATTATTATTATTTATATTAT
Found at i:1188292 original size:13 final size:13
Alignment explanation
Indices: 1188274--1188321 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
1188264 ACGGAGATAT
*
1188274 GAAAGCAATAATC
1 GAAAGCAACAATC
1188287 GAAAGCAACAATC
1 GAAAGCAACAATC
1188300 GAAAGCAACAATC
1 GAAAGCAACAATC
1188313 -AACAGCAAC
1 GAA-AGCAAC
1188322 CAAACAAAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
12 2 0.06
13 31 0.94
ACGTcount: A:0.54, C:0.23, G:0.15, T:0.08
Consensus pattern (13 bp):
GAAAGCAACAATC
Found at i:1188330 original size:26 final size:26
Alignment explanation
Indices: 1188274--1188330 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
1188264 ACGGAGATAT
* *
1188274 GAAAGCAATAATCGAAAGCAACAATC
1 GAAAGCAACAATCGAAAGCAACAAAC
1188300 GAAAGCAACAATC-AACAGCAACCAAAC
1 GAAAGCAACAATCGAA-AGCAA-CAAAC
1188327 -AAAG
1 GAAAG
1188331 AAAAAAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 2 0.07
26 21 0.78
27 4 0.15
ACGTcount: A:0.56, C:0.23, G:0.14, T:0.07
Consensus pattern (26 bp):
GAAAGCAACAATCGAAAGCAACAAAC
Found at i:1189577 original size:17 final size:18
Alignment explanation
Indices: 1189557--1189592 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1189547 TTTATAAAAA
1189557 TATAAAAAAT-ATATATT
1 TATAAAAAATAATATATT
*
1189574 TATAAAAATTAATATATT
1 TATAAAAAATAATATATT
1189592 T
1 T
1189593 TCTTGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATAAAAAATAATATATT
Found at i:1190028 original size:11 final size:11
Alignment explanation
Indices: 1190012--1190046 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
1190002 AGTAATTTTA
1190012 TTTTAAATATT
1 TTTTAAATATT
1190023 TTTT-AATATT
1 TTTTAAATATT
1190033 TTTTAAATACTT
1 TTTTAAATA-TT
1190045 TT
1 TT
1190047 AGTATTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 8 0.36
12 4 0.18
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:1192198 original size:26 final size:26
Alignment explanation
Indices: 1192162--1192216 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1192152 AAGCATAATA
1192162 ATTAGGAACAATGACTAAAATGAACT
1 ATTAGGAACAATGACTAAAATGAACT
1192188 ATTAGGAACAATGACTAAAATGAACT
1 ATTAGGAACAATGACTAAAATGAACT
1192214 ATT
1 ATT
1192217 CGAAACATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (26 bp):
ATTAGGAACAATGACTAAAATGAACT
Found at i:1192223 original size:26 final size:26
Alignment explanation
Indices: 1192162--1192223 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
1192152 AAGCATAATA
*
1192162 ATTAGGAACAATGACTAAAATGAACT
1 ATTAGAAACAATGACTAAAATGAACT
*
1192188 ATTAGGAACAATGACTAAAATGAACT
1 ATTAGAAACAATGACTAAAATGAACT
*
1192214 ATTCGAAACA
1 ATTAGAAACA
1192224 TGTATTACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.23
Consensus pattern (26 bp):
ATTAGAAACAATGACTAAAATGAACT
Done.