Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 45 of 93
Found at i:5590726 original size:2 final size:2
Alignment explanation
Indices: 5590721--5590760 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
5590711 TCTCTCCACA
*
5590721 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5590761 GTTTCATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:5590965 original size:19 final size:19
Alignment explanation
Indices: 5590945--5591009 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 19
5590935 TTAAAAAATT
*
5590945 AAAACAATCTCAAAATTTTA
1 AAAAAAATCT-AAAATTTTA
5590965 ATAAAAAATCTAAAATTTT-
1 A-AAAAAATCTAAAATTTTA
* *
5590984 CAAAAAAT-GAAAATTTTA
1 AAAAAAATCTAAAATTTTA
*
5591002 ATAAAAAT
1 AAAAAAAT
5591010 AAAAATTTCT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 8 0.21
18 13 0.34
20 9 0.24
21 8 0.21
ACGTcount: A:0.60, C:0.08, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAAAAATCTAAAATTTTA
Found at i:5590969 original size:37 final size:35
Alignment explanation
Indices: 5590928--5591014 Score: 88
Period size: 37 Copynumber: 2.4 Consensus size: 35
5590918 TTTAGAAATT
5590928 ATAAAAATTAAAAAATT-AAAACAATCTCAAAATTTTA
1 ATAAAAATTAAAAAATTCAAAA-AA--TCAAAATTTTA
** *
5590965 ATAAAAAATCTAAAATTTTCAAAAAATGAAAATTTTA
1 AT-AAAAAT-TAAAAAATTCAAAAAATCAAAATTTTA
5591002 ATAAAAA-TAAAAA
1 ATAAAAATTAAAAA
5591015 TTTCTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
34 5 0.12
36 5 0.12
37 14 0.33
38 6 0.14
39 9 0.21
40 4 0.09
ACGTcount: A:0.64, C:0.06, G:0.01, T:0.29
Consensus pattern (35 bp):
ATAAAAATTAAAAAATTCAAAAAATCAAAATTTTA
Found at i:5590996 original size:17 final size:18
Alignment explanation
Indices: 5590956--5591017 Score: 72
Period size: 18 Copynumber: 3.4 Consensus size: 18
5590946 AAACAATCTC
*
5590956 AAAATTTTAATAAAAAATCT
1 AAAATTTTAAT-AAAAAT-A
* *
5590976 AAAATTTTCA-AAAAATG
1 AAAATTTTAATAAAAATA
5590993 AAAATTTTAATAAAAATA
1 AAAATTTTAATAAAAATA
5591011 AAAATTT
1 AAAATTT
5591018 CTTAAAATTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.24
18 19 0.51
20 9 0.24
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTTTAATAAAAATA
Found at i:5591208 original size:21 final size:20
Alignment explanation
Indices: 5591183--5591225 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
5591173 AAAAAATTTT
*
5591183 AAATATATGAAATATTCTAAA
1 AAATATAT-AAAAATTCTAAA
*
5591204 AAATATATAAAAATTTTAAA
1 AAATATATAAAAATTCTAAA
5591224 AA
1 AA
5591226 TTATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (20 bp):
AAATATATAAAAATTCTAAA
Found at i:5591285 original size:26 final size:25
Alignment explanation
Indices: 5591222--5591286 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
5591212 AAAAATTTTA
5591222 AAAAT-TATCAAAAAGAAAAATTAAT
1 AAAATATAT-AAAAAGAAAAATTAAT
*
5591247 AAAA-ATCCA-AAAAACGAAAAATTCAT
1 AAAATAT--ATAAAAA-GAAAAATTAAT
5591273 AAAATATATAAAAA
1 AAAATATATAAAAA
5591287 TTTATAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
25 11 0.33
26 19 0.58
27 3 0.09
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.20
Consensus pattern (25 bp):
AAAATATATAAAAAGAAAAATTAAT
Found at i:5591355 original size:12 final size:11
Alignment explanation
Indices: 5591321--5591349 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
5591311 AAATTTTCAT
5591321 AATTTTTAACA
1 AATTTTTAACA
5591332 AATTTTTAACA
1 AATTTTTAACA
5591343 AATTTTT
1 AATTTTT
5591350 TTACAATCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTTTAACA
Found at i:5591493 original size:9 final size:9
Alignment explanation
Indices: 5591480--5591594 Score: 67
Period size: 9 Copynumber: 12.9 Consensus size: 9
5591470 CATTTTATGA
5591480 ATTTTTT-T
1 ATTTTTTAT
5591488 ATTTTTTAT
1 ATTTTTTAT
*
5591497 ATTTTTATTAA
1 A-TTTT-TTAT
5591508 ATTTTTTAT
1 ATTTTTTAT
*
5591517 ATTTTTGAT
1 ATTTTTTAT
5591526 ATTTTTTA-
1 ATTTTTTAT
** *
5591534 AGCTTTCAT
1 ATTTTTTAT
* *
5591543 AATTTTCAT
1 ATTTTTTAT
*
5591552 AATTTTTTAA
1 -ATTTTTTAT
* *
5591562 ATATTTAAT
1 ATTTTTTAT
*
5591571 A-TTTTAAT
1 ATTTTTTAT
*
5591579 ATGTTTTA-
1 ATTTTTTAT
5591587 ATTTTTTA
1 ATTTTTTA
5591595 AAAAATTTTA
Statistics
Matches: 82, Mismatches: 19, Indels: 12
0.73 0.17 0.11
Matches are distributed among these distances:
8 26 0.32
9 38 0.46
10 14 0.17
11 4 0.05
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:5591534 original size:27 final size:26
Alignment explanation
Indices: 5591479--5591594 Score: 83
Period size: 26 Copynumber: 4.3 Consensus size: 26
5591469 TCATTTTATG
*
5591479 AATTTTTT-TATTTTTTATATTTTTATT
1 AATTTTTTATATTTTTAATA-TTTT-TT
*
5591506 AAATTTTTTATATTTTTGATATTTTTT
1 -AATTTTTTATATTTTTAATATTTTTT
** * * *
5591533 AAGCTTTCATAATTTTCATAATTTTTT
1 AATTTTTTATATTTTTAAT-ATTTTTT
* * *
5591560 AAATATTTA-ATATTTTAATATGTTTT
1 AATTTTTTATAT-TTTTAATATTTTTT
5591586 AATTTTTTA
1 AATTTTTTA
5591595 AAAAATTTTA
Statistics
Matches: 70, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
26 28 0.40
27 20 0.29
28 12 0.17
29 10 0.14
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (26 bp):
AATTTTTTATATTTTTAATATTTTTT
Found at i:5591603 original size:18 final size:17
Alignment explanation
Indices: 5591551--5591622 Score: 67
Period size: 18 Copynumber: 4.2 Consensus size: 17
5591541 ATAATTTTCA
*
5591551 TAATTTTTTAAATA-TT
1 TAATTTTTTAAAAATTT
* **
5591567 TAATATTTTAATATGTTT
1 TAATTTTTTAA-AAATTT
5591585 TAATTTTTTAAAAAATTT
1 TAATTTTTT-AAAAATTT
5591603 T-ATATTTTTAAAAATTT
1 TAAT-TTTTTAAAAATTT
5591620 TAA
1 TAA
5591623 AAATTTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 10 0.22
17 13 0.28
18 21 0.46
19 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
TAATTTTTTAAAAATTT
Found at i:5591621 original size:35 final size:34
Alignment explanation
Indices: 5591551--5591622 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 34
5591541 ATAATTTTCA
* **
5591551 TAATTTTTTAAATATTTAATATTTTAATATGTTT
1 TAATTTTTTAAAAATTTAATATTTTAATAAATTT
*
5591585 TAATTTTTTAAAAAATTTTATATTTTTAA-AAATTT
1 TAATTTTTT-AAAAATTTAATA-TTTTAATAAATTT
5591620 TAA
1 TAA
5591623 AAATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 9 0.28
35 17 0.53
36 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (34 bp):
TAATTTTTTAAAAATTTAATATTTTAATAAATTT
Found at i:5593604 original size:17 final size:17
Alignment explanation
Indices: 5593584--5593618 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
5593574 TTTTTTGTTG
*
5593584 TTTTTGTTTTGG-TTTT
1 TTTTTTTTTTGGATTTT
5593600 TTTTTTTTTTGGATTTT
1 TTTTTTTTTTGGATTTT
5593617 TT
1 TT
5593619 AATTCTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.03, C:0.00, G:0.14, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTTGGATTTT
Found at i:5594050 original size:40 final size:40
Alignment explanation
Indices: 5594006--5594099 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 40
5593996 TTACAAATCG
* **
5594006 TTTGAATTTTTGCCCA-AAGTTCTTGGGAAATCATTTAAAA-
1 TTTGAAATTTTGCCCAGAAGTT-TTGAAAAATCA-TTAAAAT
* *
5594046 TTTGAAGATTTTGCCTAGAAGTTTTTAAAAATCATTAAAAT
1 TTTGAA-ATTTTGCCCAGAAGTTTTGAAAAATCATTAAAAT
5594087 TTTGAAATTTTGC
1 TTTGAAATTTTGC
5594100 TTGGATGTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
40 19 0.41
41 22 0.48
42 5 0.11
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.43
Consensus pattern (40 bp):
TTTGAAATTTTGCCCAGAAGTTTTGAAAAATCATTAAAAT
Found at i:5594058 original size:41 final size:40
Alignment explanation
Indices: 5594006--5594218 Score: 114
Period size: 40 Copynumber: 5.2 Consensus size: 40
5593996 TTACAAATCG
*
5594006 TTTGAATTTTTGCCCAAAGTTCTTGGGAAATCATTTAAAA
1 TTTGAAATTTTGCCCAAAGTTCTTGGGAAATCATTTAAAA
* ***
5594046 TTTGAAGATTTTGCCTAGAAGTT-TTTAAAAATCA-TTAAAA
1 TTTGAA-ATTTTGCCCA-AAGTTCTTGGGAAATCATTTAAAA
**** *
5594086 TTTTGAAATTTTGCTTGGA-TGTCATT-GGAAATCATTCAAAAA
1 -TTTGAAATTTTGCCCAAAGT-TC-TTGGGAAATCATT-TAAAA
* * * * * * *
5594128 TCTAAAATTTTACCCAGAGGTCTTGAG-AATTATTTAGAAA
1 TTTGAAATTTTGCCCAAAGTTCTTGGGAAATCATTTA-AAA
* * * *
5594168 TTT-AAGATTTTGCCCATAGGTCTTTGAAAATCATTTAAAA
1 TTTGAA-ATTTTGCCCAAAGTTCTTGGGAAATCATTTAAAA
5594208 TTTTGAAATTT
1 -TTTGAAATTT
5594219 ATAAAATTTT
Statistics
Matches: 130, Mismatches: 28, Indels: 29
0.70 0.15 0.16
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 58 0.45
41 55 0.42
42 11 0.08
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.40
Consensus pattern (40 bp):
TTTGAAATTTTGCCCAAAGTTCTTGGGAAATCATTTAAAA
Found at i:5594189 original size:40 final size:40
Alignment explanation
Indices: 5594033--5594369 Score: 117
Period size: 40 Copynumber: 8.1 Consensus size: 40
5594023 AGTTCTTGGG
* * * * * *
5594033 AAATCATTTAAAATTTGAAGATTTTGCCTAGAAGTTTTTAA
1 AAATCATTTAAAATTT-AAAATTTTACCCAGAGGTCTTTGA
* * *** * * *
5594074 AAATCA-TTAAAATTTTGAAATTTTGCTTGGATGTCATTGG
1 AAATCATTTAAAA-TTTAAAATTTTACCCAGAGGTCTTTGA
* *
5594114 AAATCATTCAAAAATCTAAAATTTTACCCAGAGGTC-TTGA
1 AAATCATT-TAAAATTTAAAATTTTACCCAGAGGTCTTTGA
* * * * *
5594154 GAATTATTTAGAAATTTAAGATTTTGCCCATAGGTCTTTGA
1 AAATCATTTA-AAATTTAAAATTTTACCCAGAGGTCTTTGA
* ** *
5594195 AAATCATTTAAAATTTTGAAATTTATAAAATTTTGCCTTGAGGT-TATGA
1 AAATCATTT---A-----AAA-TT-TAAAATTTTACCCAGAGGTCTTTGA
* * * * * *
5594244 AAATCATTCAAAAATCTAAAATTTTGCCTAGAAGTC-TTAA
1 AAATCATT-TAAAATTTAAAATTTTACCCAGAGGTCTTTGA
* * * * *
5594284 AAATCATTTAAGAATTTAAGATTTTGCCCAAAGGTTTTTGG
1 AAATCATTTAA-AATTTAAAATTTTACCCAGAGGTCTTTGA
* * * *
5594325 AAATCATTTAAAAAGTTGAAATTTT-CCCCGAAAGTCTTTGA
1 AAATCATTT-AAAATTTAAAATTTTACCCAG-AGGTCTTTGA
5594366 AAAT
1 AAAT
5594370 TAAAATTTTA
Statistics
Matches: 221, Mismatches: 55, Indels: 40
0.70 0.17 0.13
Matches are distributed among these distances:
39 3 0.01
40 105 0.48
41 69 0.31
42 9 0.04
44 1 0.00
47 1 0.00
48 4 0.02
49 14 0.06
50 15 0.07
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (40 bp):
AAATCATTTAAAATTTAAAATTTTACCCAGAGGTCTTTGA
Found at i:5594265 original size:130 final size:130
Alignment explanation
Indices: 5594114--5594348 Score: 355
Period size: 130 Copynumber: 1.8 Consensus size: 130
5594104 ATGTCATTGG
* * * *
5594114 AAATCATTCAAAAATCTAAAATTTTACCCAGAGGTCTTGAGAATTATTT-AGAAATTTAAGATTT
1 AAATCATTCAAAAATCTAAAATTTTACCCAGAAGTCTTAAAAATCATTTAAG-AATTTAAGATTT
* **
5594178 TGCCCATAGGTCTTTGAAAATCATTTAAAATTTTGAAATTTATAAAATTTTGCCTTGAGGTTATG
65 TGCCCAAAGGTCTTTGAAAATCATTTAAAAAGTTGAAATTTATAAAATTTTGCCTTGAGGTTATG
5594243 A
130 A
* *
5594244 AAATCATTCAAAAATCTAAAATTTTGCCTAGAAGTCTTAAAAATCATTTAAGAATTTAAGATTTT
1 AAATCATTCAAAAATCTAAAATTTTACCCAGAAGTCTTAAAAATCATTTAAGAATTTAAGATTTT
* *
5594309 GCCCAAAGGTTTTTGGAAATCATTTAAAAAGTTGAAATTT
66 GCCCAAAGGTCTTTGAAAATCATTTAAAAAGTTGAAATTT
5594349 TCCCCGAAAG
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
130 91 0.98
131 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (130 bp):
AAATCATTCAAAAATCTAAAATTTTACCCAGAAGTCTTAAAAATCATTTAAGAATTTAAGATTTT
GCCCAAAGGTCTTTGAAAATCATTTAAAAAGTTGAAATTTATAAAATTTTGCCTTGAGGTTATGA
Found at i:5594375 original size:29 final size:31
Alignment explanation
Indices: 5594343--5594411 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 31
5594333 TAAAAAGTTG
* * *
5594343 AAATTTTCCCCGAAAGTCTTTGAAA-ATT-A
1 AAATTTTACCCAAAAGTCTTGGAAACATTCA
5594372 AAATTTTACCCAAAAGTCTTGGAAATCATTCA
1 AAATTTTACCCAAAAGTCTTGGAAA-CATTCA
5594404 AAATTTTA
1 AAATTTTA
5594412 AGATTTTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 22 0.65
31 3 0.09
32 9 0.26
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (31 bp):
AAATTTTACCCAAAAGTCTTGGAAACATTCA
Found at i:5594950 original size:20 final size:20
Alignment explanation
Indices: 5594927--5594971 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
5594917 AAAAATTCTC
5594927 AAAAAGTCTAAAAT-TTTTTT
1 AAAAA-TCTAAAATATTTTTT
*
5594947 AAAAATCTGAAATATTTTTT
1 AAAAATCTAAAATATTTTTT
5594967 AAAAA
1 AAAAA
5594972 ATTATAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (20 bp):
AAAAATCTAAAATATTTTTT
Found at i:5594963 original size:21 final size:19
Alignment explanation
Indices: 5594927--5594973 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
5594917 AAAAATTCTC
*
5594927 AAAAAGTCTAAAATTTTTT
1 AAAAAATCTAAAATTTTTT
*
5594946 TAAAAATCTGAAATATTTTTT
1 AAAAAATCT-AAA-ATTTTTT
5594967 AAAAAAT
1 AAAAAAT
5594974 TATAAAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 7 0.30
20 3 0.13
21 13 0.57
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
AAAAAATCTAAAATTTTTT
Found at i:5595009 original size:19 final size:19
Alignment explanation
Indices: 5594937--5595011 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
5594927 AAAAAGTCTA
* **
5594937 AAATTTTTTTAAAAATCTG
1 AAATATTTTTAAAAATAAG
5594956 AAATATTTTTTAAAAAATTATA-
1 AAATA-TTTTT-AAAAA-TA-AG
* *
5594978 AAAGA-TTTAAAAAATAAG
1 AAATATTTTTAAAAATAAG
5594996 AAATATTTTTAAAAAT
1 AAATATTTTTAAAAAT
5595012 TAAAAAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
17 1 0.02
18 6 0.14
19 18 0.42
20 8 0.19
21 5 0.12
22 5 0.12
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (19 bp):
AAATATTTTTAAAAATAAG
Found at i:5595085 original size:17 final size:17
Alignment explanation
Indices: 5595063--5595107 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
5595053 AATTTTAATA
5595063 AAAAATATAAAACTTT-C
1 AAAAATA-AAAACTTTAC
*
5595080 AAAAATAAAAATTTTAAC
1 AAAAATAAAAACTTT-AC
5595098 AAAAATAAAA
1 AAAAATAAAA
5595108 TTTTCTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 7 0.28
17 7 0.28
18 11 0.44
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATAAAAACTTTAC
Found at i:5595100 original size:18 final size:18
Alignment explanation
Indices: 5595051--5595111 Score: 65
Period size: 17 Copynumber: 3.4 Consensus size: 18
5595041 AAGAAATCTC
*
5595051 AAAATTTTAATAAAAAATA
1 AAAATTTTAA-CAAAAATA
*
5595070 TAAAACTTT--CAAAAATA
1 -AAAATTTTAACAAAAATA
5595087 AAAATTTTAACAAAAAT-
1 AAAATTTTAACAAAAATA
5595104 AAAATTTT
1 AAAATTTT
5595112 CTTAAAATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
16 7 0.19
17 15 0.42
18 7 0.19
20 7 0.19
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTTTAACAAAAATA
Found at i:5595340 original size:11 final size:11
Alignment explanation
Indices: 5595321--5595350 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
5595311 ATTTTTAGAA
5595321 AAAATAAAAATT
1 AAAA-AAAAATT
5595333 AAAAAAAAATT
1 AAAAAAAAATT
5595344 AAAAAAA
1 AAAAAAA
5595351 TGGAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAAAATT
Found at i:5595545 original size:17 final size:18
Alignment explanation
Indices: 5595525--5595562 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
5595515 CTTTTTAAAA
5595525 TTTTAATTTTTAT-GATT
1 TTTTAATTTTTATGGATT
* *
5595542 TTTTTATTTTTTTGGATT
1 TTTTAATTTTTATGGATT
5595560 TTT
1 TTT
5595563 ATTAAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTTAATTTTTATGGATT
Found at i:5595552 original size:18 final size:18
Alignment explanation
Indices: 5595525--5595591 Score: 64
Period size: 18 Copynumber: 3.6 Consensus size: 18
5595515 CTTTTTAAAA
5595525 TTTTAATTTTTAT-GATTT
1 TTTTAATTTTT-TGGATTT
*
5595543 TTTTATTTTTTTGGATTT
1 TTTTAATTTTTTGGATTT
**
5595561 TTATTAAAATTTTGAGATTT
1 TT-TTAATTTTTTG-GATTT
*
5595581 TTCTAATTTTT
1 TTTTAATTTTT
5595592 AAAGTTTTCA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.03
18 17 0.44
19 14 0.36
20 7 0.18
ACGTcount: A:0.22, C:0.01, G:0.07, T:0.69
Consensus pattern (18 bp):
TTTTAATTTTTTGGATTT
Found at i:5595629 original size:9 final size:9
Alignment explanation
Indices: 5595607--5595675 Score: 61
Period size: 9 Copynumber: 7.7 Consensus size: 9
5595597 TTTCATATTT
*
5595607 TTTTTTATG
1 TTTTTTATA
5595616 TTTTTT-TA
1 TTTTTTATA
*
5595624 TATTTTATA
1 TTTTTTATA
*
5595633 -TTTTAATA
1 TTTTTTATA
5595641 TTTTTTAATA
1 TTTTTT-ATA
*
5595651 TTTTTTAAA
1 TTTTTTATA
*
5595660 GTTTTTTAAA
1 -TTTTTTATA
5595670 TTTTTT
1 TTTTTT
5595676 TTTATTTTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
8 12 0.24
9 20 0.40
10 18 0.36
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTTTATA
Found at i:5595667 original size:37 final size:37
Alignment explanation
Indices: 5595626--5595703 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
5595616 TTTTTTTATA
* *
5595626 TTTTATATTTTAATATT-TTTTA-ATATTTTTTAAAGTT
1 TTTTAAATTTT-ATATTATTTTACA-AATTTTTAAAGTT
* *
5595663 TTTTAAATTTTTTTTTATTTTACAAATTTTTAAAGTT
1 TTTTAAATTTTATATTATTTTACAAATTTTTAAAGTT
5595700 TTTT
1 TTTT
5595704 TTTAATTTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
36 3 0.09
37 31 0.89
38 1 0.03
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (37 bp):
TTTTAAATTTTATATTATTTTACAAATTTTTAAAGTT
Found at i:5595681 original size:29 final size:28
Alignment explanation
Indices: 5595633--5595732 Score: 87
Period size: 29 Copynumber: 3.5 Consensus size: 28
5595623 ATATTTTATA
** *
5595633 TTTTAATATTTTTTAATATTTTTTAAAGTT
1 TTTTAA-ATTTTTTTTTATTTTATAAA-TT
*
5595663 TTTTAAATTTTTTTTTATTTTACAAA-T
1 TTTTAAATTTTTTTTTATTTTATAAATT
* *
5595690 TTTTAAAGTTTTTTTTTAATTTTGTAAA-A
1 TTTTAAA-TTTTTTTTT-ATTTTATAAATT
5595719 TTTTAGAATTTTTT
1 TTTTA-AATTTTTT
5595733 AGAATTGTTC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 8 0.13
28 9 0.15
29 35 0.58
30 8 0.13
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (28 bp):
TTTTAAATTTTTTTTTATTTTATAAATT
Found at i:5595683 original size:19 final size:19
Alignment explanation
Indices: 5595633--5595693 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
5595623 ATATTTTATA
*
5595633 TTTTAATATTTTTT-AATAT
1 TTTTTATATTTTTTAAAT-T
*
5595652 TTTTTAAAGTTTTTTAAATT
1 TTTTTATA-TTTTTTAAATT
* **
5595672 TTTTTTTATTTTACAAATT
1 TTTTTATATTTTTTAAATT
5595691 TTT
1 TTT
5595694 AAAGTTTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 18 0.53
20 13 0.38
21 3 0.09
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTATATTTTTTAAATT
Found at i:5596034 original size:16 final size:16
Alignment explanation
Indices: 5596010--5596048 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
5596000 CCTTTATTTG
* *
5596010 TAATGATTTTTTTTTT
1 TAATTATTTTTTCTTT
5596026 TAATTATTTTTTCTTT
1 TAATTATTTTTTCTTT
5596042 T-ATTATT
1 TAATTATT
5596049 CTATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
TAATTATTTTTTCTTT
Found at i:5597234 original size:18 final size:18
Alignment explanation
Indices: 5597211--5597245 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
5597201 TTTCAAAAGA
5597211 TTTTTT-GAGATTTTTTAT
1 TTTTTTGGA-ATTTTTTAT
5597229 TTTTTTGGAATTTTTTA
1 TTTTTTGGAATTTTTTA
5597246 AACTTTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (18 bp):
TTTTTTGGAATTTTTTAT
Found at i:5597269 original size:17 final size:19
Alignment explanation
Indices: 5597249--5597285 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
5597239 TTTTTTAAAC
*
5597249 TTTGGTGTT-TTGTT-TTT
1 TTTGCTGTTGTTGTTGTTT
5597266 TTTGCTGTTGTTGTTGTTT
1 TTTGCTGTTGTTGTTGTTT
5597285 T
1 T
5597286 CTTTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.00, C:0.03, G:0.24, T:0.73
Consensus pattern (19 bp):
TTTGCTGTTGTTGTTGTTT
Found at i:5597876 original size:41 final size:40
Alignment explanation
Indices: 5597805--5597936 Score: 124
Period size: 41 Copynumber: 3.2 Consensus size: 40
5597795 TATGAATCAT
* *
5597805 TTGAATTTTTGCCTAAAA-TTCTTGAGAAATCATTCAAAAA
1 TTGAAATTTTGCCTAAAAGTTTTTGA-AAATCATTCAAAAA
* *
5597845 TTGAAGATTTTGCCCAAAAGTTTTTGAAAATCATT-AAAATT
1 TTGAA-ATTTTGCCTAAAAGTTTTTGAAAATCATTCAAAA-A
* ** * *
5597886 TTGAAATTTTGCTTGGAGGTCTTTGAAAATCATTCAAAAA
1 TTGAAATTTTGCCTAAAAGTTTTTGAAAATCATTCAAAAA
*
5597926 TCTAAAATTTT
1 T-TGAAATTTT
5597937 ACTTAAAGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
40 33 0.44
41 36 0.48
42 6 0.08
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (40 bp):
TTGAAATTTTGCCTAAAAGTTTTTGAAAATCATTCAAAAA
Found at i:5597911 original size:40 final size:40
Alignment explanation
Indices: 5597867--5598247 Score: 182
Period size: 41 Copynumber: 9.2 Consensus size: 40
5597857 CCCAAAAGTT
*
5597867 TTTGAAAATCATTAAAATTTTGAAATTTTGCTTGGAGGTC
1 TTTGAAAATCATTAAAAATTTGAAATTTTGCTTGGAGGTC
* * * **
5597907 TTTGAAAATCATTCAAAAATCTAAAATTTTACTTAAAGGTC
1 TTTGAAAATCATT-AAAAATTTGAAATTTTGCTTGGAGGTC
* * *
5597948 -TTGGAAATTATTTAAAAATTT-AAGATTTTGCTTGTAGGTC
1 TTTGAAAATCA-TTAAAAATTTGAA-ATTTTGCTTGGAGGTC
* * ** *
5597988 TTTGGAAATCATTTAAAATTTTGAAATTTCTAAAATTTTACCCAGAGGTC
1 TTTGAAAATCA-TTAAAAATTTGAAATTT-T----GCTT----GGAGGTC
* * * * * *
5598038 TATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTA
1 TTTGAAAATCATT-AAAAATTTGAAATTTTGCTTGGAGGTC
* *
5598079 TTTG-AAATCATTTAAAAATTTGAAATTTTACCTGGAGGTC
1 TTTGAAAATCA-TTAAAAATTTGAAATTTTGCTTGGAGGTC
** * **** *
5598119 TTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATC
1 TTTGAAAATCATT-AAAAATTTGAAATTTTGCTTGGAGGTC
* * **
5598160 -TTGGAAATTATTTAAAAATTT-AAGATTTTG-TCTAAAGGTC
1 TTTGAAAATCA-TTAAAAATTTGAA-ATTTTGCT-TGGAGGTC
* * **
5598200 TTT-AGAAATCATTTAAAATTTTGAAAATTTGCTTATAGGTC
1 TTTGA-AAATCA-TTAAAAATTTGAAATTTTGCTTGGAGGTC
5598241 TTTGAAA
1 TTTGAAA
5598248 GTTTAAAATT
Statistics
Matches: 259, Mismatches: 56, Indels: 51
0.71 0.15 0.14
Matches are distributed among these distances:
39 4 0.02
40 100 0.39
41 116 0.45
42 7 0.03
45 1 0.00
46 2 0.01
49 3 0.01
50 26 0.10
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.39
Consensus pattern (40 bp):
TTTGAAAATCATTAAAAATTTGAAATTTTGCTTGGAGGTC
Found at i:5597947 original size:41 final size:41
Alignment explanation
Indices: 5597826--5598247 Score: 232
Period size: 40 Copynumber: 10.1 Consensus size: 41
5597816 CCTAAAATTC
* ** * *
5597826 TTGAGAAATCATTCAAAAAT-TGAAGATTTTGCCCAAAAGTTT
1 TTGA-AAATCATTCAAAAATCT-AAAATTTTGCCTGAAGGTCT
* * * * *
5597868 TTGAAAATCATT-AAAATTTTGAAATTTTGCTTGGAGGTCT
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* * *
5597908 TTGAAAATCATTCAAAAATCTAAAATTTTACTTAAAGGTC-
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* * * * * * *
5597948 TTGGAAATTATTTAAAAATTTAAGATTTTGCTTGTAGGTCT
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* * * *
5597989 TTGGAAATCATTTAAAATTTTGAAATTTCTAAAATTTTACC-CAGAGGTCT
1 TTGAAAATCA-TT-CAA-----AAA--TCTAAAATTTTGCCTGA-AGGTCT
* *
5598039 ATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTAT
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* * * * *
5598080 TTG-AAATCATTTAAAAATTTGAAATTTTACCTGGAGGTCT
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* ** *
5598120 TTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATC-
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* * * * * * *
5598160 TTGGAAATTATTTAAAAATTTAAGATTTTGTCTAAAGGTCT
1 TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
* * * *
5598201 TT-AGAAATCATTTAAAATTTTGAAAA-TTTG-CTTATAGGTCT
1 TTGA-AAATCATTCAAAAATCT-AAAATTTTGCCTGA-AGGTCT
5598242 TTGAAA
1 TTGAAA
5598248 GTTTAAAATT
Statistics
Matches: 292, Mismatches: 68, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
40 128 0.44
41 117 0.40
42 11 0.04
43 5 0.02
48 5 0.02
49 2 0.01
50 24 0.08
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (41 bp):
TTGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTCT
Found at i:5598037 original size:90 final size:90
Alignment explanation
Indices: 5597926--5598106 Score: 238
Period size: 90 Copynumber: 2.0 Consensus size: 90
5597916 CATTCAAAAA
** * * * * * * * *
5597926 TCTAAAATTTTACTTAAAGGTCT-TGGAAATTATTTAAAAATTTAAGATTTTGCTTGTAGGTCTT
1 TCTAAAATTTTACCCAAAGGTCTATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTATT
*
5597990 TGGAAATCATTTAAAATTTTGAAATT
66 T-GAAATCATTTAAAAATTTGAAATT
*
5598016 TCTAAAATTTTACCCAGAGGTCTATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTATT
1 TCTAAAATTTTACCCAAAGGTCTATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTATT
5598081 TGAAATCATTTAAAAATTTGAAATT
66 TGAAATCATTTAAAAATTTGAAATT
5598106 T
1 T
5598107 TACCTGGAGG
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
90 44 0.56
91 34 0.44
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Consensus pattern (90 bp):
TCTAAAATTTTACCCAAAGGTCTATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTATT
TGAAATCATTTAAAAATTTGAAATT
Found at i:5598167 original size:81 final size:80
Alignment explanation
Indices: 5598020--5598188 Score: 230
Period size: 81 Copynumber: 2.1 Consensus size: 80
5598010 GAAATTTCTA
* ** * *
5598020 AAATTTTACCCAGAGGTCTATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTATTTGAA
1 AAATTTTACCCAGAGGTCTATGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATATTGGAA
5598085 ATCATTTAAAAATTT
66 ATCATTTAAAAATTT
** * *
5598100 GAAATTTTACCTGGAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATCTTGGA
1 -AAATTTTACCCAGAGGTCTATGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATATTGGA
*
5598165 AATTATTTAAAAATTT
65 AATCATTTAAAAATTT
5598181 AAGATTTT
1 AA-ATTTT
5598189 GTCTAAAGGT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 2 0.03
81 75 0.97
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (80 bp):
AAATTTTACCCAGAGGTCTATGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATATTGGAA
ATCATTTAAAAATTT
Found at i:5598199 original size:81 final size:81
Alignment explanation
Indices: 5598020--5598217 Score: 229
Period size: 81 Copynumber: 2.4 Consensus size: 81
5598010 GAAATTTCTA
* * * * ** * *
5598020 AAATTTTACCCAGAGGTCTATGAAAATCATTCAAAAATCTAAAATTTTGCCTGAAGGTATTTGAA
1 AAATTTTACCTAAAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATATTGGAA
5598085 ATCATTTAAAAATTTG
66 ATCATTTAAAAATTTG
** *
5598101 AAATTTTACCTGGAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATCTTGGAA
1 AAATTTTACCTAAAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATATTGGAA
*
5598166 ATTATTTAAAAATTT-
66 ATCATTTAAAAATTTG
** *
5598181 AAGATTTTGTCTAAAGGTCTTT-AGAAATCATTTAAAA
1 AA-ATTTTACCTAAAGGTCTTTGA-AAATCATTCAAAA
5598218 TTTTGAAAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 3 0.03
81 97 0.97
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (81 bp):
AAATTTTACCTAAAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATATTGGAA
ATCATTTAAAAATTTG
Found at i:5598201 original size:212 final size:212
Alignment explanation
Indices: 5597831--5598225 Score: 589
Period size: 212 Copynumber: 1.9 Consensus size: 212
5597821 AATTCTTGAG
* * *
5597831 AAATCATTCAAAAATTGAAGATTTTGCCCAAAAGTTTTTGAAAATCATTAAAATTTTGAAATTTT
1 AAATCATTCAAAAATTGAAAATTTTGCCCAAAAGTATTTGAAAATCATTAAAAATTTGAAATTTT
* * * ** *
5597896 GCTTGGAGGTCTTTGAAAATCATTCAAAAATCTAAAATTTTACTTAAAGGTCTTGGAAATTATTT
66 ACCTGGAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTACCCAAAGATCTTGGAAATTATTT
** *
5597961 AAAAATTTAAGATTTTGCTTGTAGGTCTTTGGAAATCATTTAAAATTTTGAAATTTCTAAAATTT
131 AAAAATTTAAGATTTTGCTTAAAGGTCTTTAGAAATCATTTAAAATTTTGAAATTTCTAAAATTT
5598026 TACCCAGAGGTCTATGA
196 TACCCAGAGGTCTATGA
** *
5598043 AAATCATTCAAAAATCT-AAAATTTTGCCTGAAGGTATTTG-AAATCATTTAAAAATTTGAAATT
1 AAATCATTCAAAAAT-TGAAAATTTTGCCCAAAAGTATTTGAAAATCA-TTAAAAATTTGAAATT
* *
5598106 TTACCTGGAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTGCCCCAAGATCTTGGAAATTAT
64 TTACCTGGAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTACCCAAAGATCTTGGAAATTAT
5598171 TTAAAAATTTAAGATTTTG-TCTAAAGGTCTTTAGAAATCATTTAAAATTTTGAAA
129 TTAAAAATTTAAGATTTTGCT-TAAAGGTCTTTAGAAATCATTTAAAATTTTGAAA
5598226 ATTTGCTTAT
Statistics
Matches: 163, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 7 0.04
212 155 0.95
213 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.38
Consensus pattern (212 bp):
AAATCATTCAAAAATTGAAAATTTTGCCCAAAAGTATTTGAAAATCATTAAAAATTTGAAATTTT
ACCTGGAGGTCTTTGAAAATCATTCAAAAAACTAAAATTTTACCCAAAGATCTTGGAAATTATTT
AAAAATTTAAGATTTTGCTTAAAGGTCTTTAGAAATCATTTAAAATTTTGAAATTTCTAAAATTT
TACCCAGAGGTCTATGA
Found at i:5599640 original size:20 final size:19
Alignment explanation
Indices: 5599594--5599641 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
5599584 TAAAAAATTC
*
5599594 TAAAAAATTTTAAAATTTTT
1 TAAAAAA-TCTAAAATTTTT
*
5599614 TTAAAAATCTAAAATATTTT
1 TAAAAAATCTAAAAT-TTTT
5599634 TAAAAAAT
1 TAAAAAAT
5599642 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAAATCTAAAATTTTT
Found at i:5599647 original size:20 final size:19
Alignment explanation
Indices: 5599605--5599649 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
5599595 AAAAAATTTT
* **
5599605 AAAATTTTTTTAAAAATCT
1 AAAATTTTTTAAAAAATAA
5599624 AAAATATTTTTAAAAAATAA
1 AAAAT-TTTTTAAAAAATAA
5599644 AAAATT
1 AAAATT
5599650 ATGAAAACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTTTTTAAAAAATAA
Found at i:5599688 original size:19 final size:19
Alignment explanation
Indices: 5599672--5599728 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 19
5599662 AAAATTAAAG
5599672 AAATCTCAAAATTTTAATAA
1 AAATCT-AAAATTTTAATAA
*
5599692 AAATCTAAAATTTT--CAA
1 AAATCTAAAATTTTAATAA
*
5599709 AAAT-AAAAATTTTAATAA
1 AAATCTAAAATTTTAATAA
5599727 AA
1 AA
5599729 TTAAAAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
16 8 0.25
17 6 0.19
18 4 0.12
19 8 0.25
20 6 0.19
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATCTAAAATTTTAATAA
Found at i:5599712 original size:17 final size:16
Alignment explanation
Indices: 5599690--5599751 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
5599680 AAATTTTAAT
5599690 AAAAATCTAAAATTTTC
1 AAAAAT-TAAAATTTTC
* *
5599707 AAAAATAAAAATTTTA
1 AAAAATTAAAATTTTC
*
5599723 ATAAAATTAAAAATTTC
1 A-AAAATTAAAATTTTC
*
5599740 TTAAAATTAAAA
1 -AAAAATTAAAA
5599752 AAAAAATTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
16 9 0.24
17 28 0.76
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAATTAAAATTTTC
Found at i:5599728 original size:18 final size:18
Alignment explanation
Indices: 5599679--5599738 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
5599669 AAGAAATCTC
*
5599679 AAAATTTTAATAAAAATCT
1 AAAATTTTAATAAAAAT-A
*
5599698 AAAATTTT--CAAAAATA
1 AAAATTTTAATAAAAATA
*
5599714 AAAATTTTAATAAAATTA
1 AAAATTTTAATAAAAATA
5599732 AAAATTT
1 AAAATTT
5599739 CTTAAAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 8 0.23
17 6 0.17
18 13 0.37
19 8 0.23
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (18 bp):
AAAATTTTAATAAAAATA
Found at i:5599736 original size:34 final size:36
Alignment explanation
Indices: 5599679--5599752 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
5599669 AAGAAATCTC
5599679 AAAATTTTAATAAAAATCTAAAATTT-TCAAAAATA
1 AAAATTTTAATAAAAATCTAAAATTTCTCAAAAATA
* *
5599714 AAAATTTTAAT-AAAAT-TAAAAATTTCTTAAAATTA
1 AAAATTTTAATAAAAATCT-AAAATTTCTCAAAAATA
5599749 AAAA
1 AAAA
5599753 AAAAATTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 1 0.03
34 12 0.34
35 22 0.63
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (36 bp):
AAAATTTTAATAAAAATCTAAAATTTCTCAAAAATA
Found at i:5599752 original size:17 final size:16
Alignment explanation
Indices: 5599698--5599752 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 16
5599688 ATAAAAATCT
* *
5599698 AAAATTTTCAAAAATA
1 AAAATTTTTAAAATTA
5599714 AAAATTTTAATAAAATTA
1 AAAATTTT--TAAAATTA
5599732 AAAATTTCTTAAAATTA
1 AAAATTT-TTAAAATTA
5599749 AAAA
1 AAAA
5599753 AAAAATTCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 8 0.24
17 12 0.35
18 13 0.38
19 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTTTTAAAATTA
Found at i:5600243 original size:17 final size:16
Alignment explanation
Indices: 5600223--5600279 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
5600213 TTTTTGAAAA
*
5600223 TTTTAAGTTTTCATAATT
1 TTTTAA-TTTTTATAA-T
*
5600241 TTTTAATTTTTTTAAT
1 TTTTAATTTTTATAAT
*
5600257 ATTTAATATTTTATAAT
1 TTTTAAT-TTTTATAAT
5600274 TTTTAA
1 TTTTAA
5600280 AAATATTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
16 7 0.21
17 20 0.61
18 6 0.18
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTAATTTTTATAAT
Found at i:5600300 original size:19 final size:20
Alignment explanation
Indices: 5600261--5600300 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
5600251 TTTAATATTT
*
5600261 AATATTTTATAATTTTTAAA
1 AATATTTTATAATTATTAAA
*
5600281 AATATTTTA-CATTATTAAA
1 AATATTTTATAATTATTAAA
5600300 A
1 A
5600301 TTTTTTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
AATATTTTATAATTATTAAA
Found at i:5600303 original size:28 final size:28
Alignment explanation
Indices: 5600254--5600311 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
5600244 TAATTTTTTT
* *
5600254 AATATTTAATATTTTATAA-TTTTTAAA
1 AATATTTAACATTTTAAAATTTTTTAAA
*
5600281 AATATTTTACATTATTAAAATTTTTTAAA
1 AATATTTAACATT-TTAAAATTTTTTAAA
5600310 AA
1 AA
5600312 AAATTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 11 0.42
28 5 0.19
29 10 0.38
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
AATATTTAACATTTTAAAATTTTTTAAA
Found at i:5600663 original size:29 final size:31
Alignment explanation
Indices: 5600610--5600679 Score: 90
Period size: 29 Copynumber: 2.3 Consensus size: 31
5600600 TATTTAACCT
*
5600610 TTTAAATTATAATATAATATTTAATGTGATA
1 TTTAAATTATAATATAATATCTAATGTGATA
*
5600641 TTTAAATTTTAA-A-AATATCTAATGTGATA
1 TTTAAATTATAATATAATATCTAATGTGATA
* *
5600670 CTTGAATTAT
1 TTTAAATTAT
5600680 GAAATTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 22 0.65
30 1 0.03
31 11 0.32
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.47
Consensus pattern (31 bp):
TTTAAATTATAATATAATATCTAATGTGATA
Found at i:5601317 original size:16 final size:16
Alignment explanation
Indices: 5601296--5601331 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
5601286 TGGAGAAAAA
5601296 TTTATTTATTAATTTG
1 TTTATTTATTAATTTG
* *
5601312 TTTATTTTTTAATTTT
1 TTTATTTATTAATTTG
5601328 TTTA
1 TTTA
5601332 AAAAATGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTATTTATTAATTTG
Found at i:5602600 original size:22 final size:24
Alignment explanation
Indices: 5602557--5602600 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
5602547 AGATTTTCCT
**
5602557 TTTTTTTGTATTTTTCTATGGTTA
1 TTTTTTTGTATTTGGCTATGGTTA
5602581 TTTTTTTGT-TTTGGCT-TGGT
1 TTTTTTTGTATTTGGCTATGGT
5602601 GGCGCTGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 5 0.28
24 9 0.50
ACGTcount: A:0.07, C:0.05, G:0.18, T:0.70
Consensus pattern (24 bp):
TTTTTTTGTATTTGGCTATGGTTA
Found at i:5603919 original size:17 final size:17
Alignment explanation
Indices: 5603887--5603918 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5603877 TTTTCTTCTT
5603887 TTTTAGAAATTTTTTTA
1 TTTTAGAAATTTTTTTA
5603904 TTTTAG-AATTTTTTT
1 TTTTAGAAATTTTTTT
5603919 TGTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (17 bp):
TTTTAGAAATTTTTTTA
Found at i:5603954 original size:15 final size:15
Alignment explanation
Indices: 5603936--5603971 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
5603926 TTTGTTTATC
5603936 TTTTTTTTT-TGGGG
1 TTTTTTTTTATGGGG
*
5603950 TTTTTTCTTATGGGG
1 TTTTTTTTTATGGGG
5603965 TTTTTTT
1 TTTTTTT
5603972 AGATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.03, C:0.03, G:0.22, T:0.72
Consensus pattern (15 bp):
TTTTTTTTTATGGGG
Found at i:5604545 original size:40 final size:40
Alignment explanation
Indices: 5604481--5605006 Score: 306
Period size: 40 Copynumber: 13.0 Consensus size: 40
5604471 AATTCTTGAA
* * *
5604481 AAATCATTTAAAAA-TTAAAGATTTTGCCCAAAGATCTTTGG
1 AAATCA-TTAAAAATTTGAA-ATTTTGCCTAAAGGTCTTTGG
* * * **
5604522 AAATCATTAAAATTTTGAAATTTTGCATAGATTTCTTTGG
1 AAATCATTAAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
* * * *
5604562 AAATCATTAGAAAATATAAAATTTTG-TTAGAAGAT-TTTGG
1 AAATCATTA-AAAATTTGAAATTTTGCCTA-AAGGTCTTTGG
* * * * * *
5604602 AAATTATTTAGAAATTT-AAGATTCTGCTTGAAGGTTTTTGG
1 AAATCA-TTAAAAATTTGAA-ATTTTGCCTAAAGGTCTTTGG
* * ** ** *
5604643 AAATTATGTAAAATTTTGAAATTTCACCCGAAGGTCTTTGA
1 AAATCAT-TAAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
* *
5604684 AAATCATTCAAAAATCT-AAAATTTGCCTAAAGGT-TTTGG
1 AAATCATT-AAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
* * * *
5604723 GAATTATTTAAAAATTTAAAATTTTGCCTAGAA-GTCTTTGA
1 AAATCA-TTAAAAATTTGAAATTTTGCCTA-AAGGTCTTTGG
* *
5604764 AAATCACTTAAAATTTTGAAATTTTG-CTCAAAGGTCTTTGA
1 AAATCA-TTAAAAATTTGAAATTTTGCCT-AAAGGTCTTTGG
* * * * * *
5604805 AAATCATTCAAAATCTAAAATTTTGCCCAGAGGT-GTTGG
1 AAATCATTAAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
* * *
5604844 AAATTATTTAAAAATTT-ATGA-TTTGCCTGAAA-ATCTTTGG
1 AAATCA-TTAAAAATTTGA-AATTTTGCCT-AAAGGTCTTTGG
* * * *
5604884 AAATCACTTAAAAATTTGAAATTTTTCTTAGAGGTCTTTGA
1 AAATCA-TTAAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
* * *
5604925 AAATCTTTCAAAAATTTAAAATTTTGCCTAGAGGTC-TTGG
1 AAATCATT-AAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
* * * *
5604965 GAATCATTCAAAAATTTGATATTTTATCC-AGAGGTCTTTGG
1 AAATCATT-AAAAATTTGAAATTTT-GCCTAAAGGTCTTTGG
5605006 A
1 A
5605007 GATTTTGAGA
Statistics
Matches: 375, Mismatches: 83, Indels: 54
0.73 0.16 0.11
Matches are distributed among these distances:
39 33 0.09
40 176 0.47
41 164 0.44
42 2 0.01
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (40 bp):
AAATCATTAAAAATTTGAAATTTTGCCTAAAGGTCTTTGG
Found at i:5604798 original size:121 final size:121
Alignment explanation
Indices: 5604481--5604981 Score: 500
Period size: 121 Copynumber: 4.1 Consensus size: 121
5604471 AATTCTTGAA
* *
5604481 AAATCATTTAAAAA-TTAAAGATTTTGCCCA-AAGATCTTTGGAAATCATTAAAATTTTGAAATT
1 AAATTATTTAAAAATTTAAA-ATTTTGCCTAGAAG-TCTTTGGAAATCATTAAAATTTTGAAATT
* ** * * * *
5604544 TTGCAT-AGATTTCTTTGGAAATCATT-AGAAAATATAAAATTTTG-TTAGAAGATTTTGG
64 TTGC-TCAAAGGTCTTTGAAAATCATTCA-AAAATCTAAAATTTTGCCTA-AAGGTTTTGG
* * * * * *
5604602 AAATTATTTAGAAATTTAAGATTCTG-CTTGAAGGTTTTTGGAAATTATGTAAAATTTTGAAATT
1 AAATTATTTAAAAATTTAAAATTTTGCCTAGAA-GTCTTTGGAAATCAT-TAAAATTTTGAAATT
** * *
5604666 TCACCCGAAGGTCTTTGAAAATCATTCAAAAATCTAAAA-TTTGCCTAAAGGTTTTGG
64 TTGCTCAAAGGTCTTTGAAAATCATTCAAAAATCTAAAATTTTGCCTAAAGGTTTTGG
* *
5604723 GAATTATTTAAAAATTTAAAATTTTGCCTAGAAGTCTTTGAAAATCACTTAAAATTTTGAAATTT
1 AAATTATTTAAAAATTTAAAATTTTGCCTAGAAGTCTTTGGAAATCA-TTAAAATTTTGAAATTT
* * *
5604788 TGCTCAAAGGTCTTTGAAAATCATTC-AAAATCTAAAATTTTGCCCAGAGGTGTTGG
65 TGCTCAAAGGTCTTTGAAAATCATTCAAAAATCTAAAATTTTGCCTAAAGGTTTTGG
** * *
5604844 AAATTATTTAAAAATTTATGA-TTTGCCT-GAAAATCTTTGGAAATCACTTAAAAATTTGAAATT
1 AAATTATTTAAAAATTTAAAATTTTGCCTAG-AAGTCTTTGGAAATCA-TTAAAATTTTGAAATT
* * * * * * *
5604907 TTTCTTAGAGGTCTTTGAAAATCTTTCAAAAATTTAAAATTTTGCCTAGAGGTCTTGG
64 TTGCTCAAAGGTCTTTGAAAATCATTCAAAAATCTAAAATTTTGCCTAAAGGTTTTGG
* * *
5604965 GAATCATTCAAAAATTT
1 AAATTATTTAAAAATTT
5604982 GATATTTTAT
Statistics
Matches: 318, Mismatches: 50, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
119 1 0.00
120 72 0.23
121 189 0.59
122 55 0.17
123 1 0.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.39
Consensus pattern (121 bp):
AAATTATTTAAAAATTTAAAATTTTGCCTAGAAGTCTTTGGAAATCATTAAAATTTTGAAATTTT
GCTCAAAGGTCTTTGAAAATCATTCAAAAATCTAAAATTTTGCCTAAAGGTTTTGG
Found at i:5604982 original size:81 final size:80
Alignment explanation
Indices: 5604481--5605004 Score: 316
Period size: 81 Copynumber: 6.5 Consensus size: 80
5604471 AATTCTTGAA
* * * * * * *
5604481 AAATCATTTAAAAA-TTAAAGATTTTGCCCAAAGATCTTTGGAAATCATTAAAATTTTGAAATTT
1 AAATCATTCAAAAATTTAAA-ATTTTGCCCAGAGGTCTTTGAAAATCTTTAAAAATTT-AAAATT
* * **
5604545 TGCATAGATTTCTTTGG
64 TGCCTAAAGGTCTTTGG
* ** * * * * *
5604562 AAATCATT-AGAAAATATAAAATTTTG-TTAGAAGAT-TTTGGAAATTATTTAGAAATTTAAGAT
1 AAATCATTCA-AAAATTTAAAATTTTGCCCAG-AGGTCTTT-GAAAATCTTTAAAAATTTAAAAT
* * *
5604624 TCTGCTTGAAGGTTTTTGG
63 T-TGCCTAAAGGTCTTTGG
* * * ** * *
5604643 AAATTATGT-AAAATTTTGAAATTTCACCC-GAAGGTCTTTGAAAATCATTCAAAAATCTAAAAT
1 AAATCAT-TCAAAAATTTAAAATTTTGCCCAG-AGGTCTTTGAAAATC-TTTAAAAATTTAAAAT
5604706 TTGCCTAAAGGT-TTTGG
63 TTGCCTAAAGGTCTTTGG
* * * * * * * *
5604723 GAATTATTTAAAAATTTAAAATTTTGCCTAGAAGTCTTTGAAAATCACTTAAAATTTTGAAATTT
1 AAATCATTCAAAAATTTAAAATTTTGCCCAGAGGTCTTTGAAAATC-TTTAAAAATTT-AAAATT
*
5604788 TG-CTCAAAGGTCTTTGA
64 TGCCT-AAAGGTCTTTGG
* * * * * **
5604805 AAATCATTC-AAAATCTAAAATTTTGCCCAGAGGTGTTGGAAATTATTTAAAAATTTATGATTTG
1 AAATCATTCAAAAATTTAAAATTTTGCCCAGAGGTCTTTGAAAATCTTTAAAAATTTAAAATTTG
*
5604869 CCTGAAA-ATCTTTGG
66 CCT-AAAGGTCTTTGG
* * **
5604884 AAATCACTT-AAAAATTTGAAATTTTTCTTAGAGGTCTTTGAAAATCTTTCAAAAATTTAAAATT
1 AAATCA-TTCAAAAATTTAAAATTTTGCCCAGAGGTCTTTGAAAATCTTT-AAAAATTTAAAA-T
*
5604948 TTGCCTAGAGGTC-TTGG
63 TTGCCTAAAGGTCTTTGG
* * * **
5604965 GAATCATTCAAAAATTTGATATTTTATCCAGAGGTCTTTG
1 AAATCATTCAAAAATTTAAAATTTTGCCCAGAGGTCTTTG
5605005 GAGATTTTGA
Statistics
Matches: 337, Mismatches: 85, Indels: 42
0.73 0.18 0.09
Matches are distributed among these distances:
79 18 0.05
80 107 0.32
81 171 0.51
82 41 0.12
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (80 bp):
AAATCATTCAAAAATTTAAAATTTTGCCCAGAGGTCTTTGAAAATCTTTAAAAATTTAAAATTTG
CCTAAAGGTCTTTGG
Found at i:5608813 original size:125 final size:125
Alignment explanation
Indices: 5608586--5609204 Score: 665
Period size: 125 Copynumber: 5.0 Consensus size: 125
5608576 TGCAAATTTA
* * * * * * * *
5608586 ATGAAATTGACACCATCATTCAGATATTTGTGCATTAAATGAAA-TTTATATACAACCTTATTAT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAAT-AAAGTGTATGTACAATCTTATTAT
* ** * * * *
5608650 TTTTAAATATGATAAATAATGAAATCCAAAAGGCACAATAACATTCAAAATAAAAATTCTT
65 TTTCAAATACAAAAAATAATGAAATGCAAAAGGTACAATAACATTCAAAATCAAAATTCTT
*
5608711 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATGAAGTGTATGTACAATCTTATTATT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAGTGTATGTACAATCTTATTATT
* * * *** * *
5608776 TTTAAATGCAAAAAATAATGAAGTGTGGAAGGTACAATAACATTCAAAACCAAAATTTTT
66 TTCAAATACAAAAAATAATGAAATGCAAAAGGTACAATAACATTCAAAATCAAAATTCTT
* * * * *
5608836 GTGAAATTGACACTACCATTCAAATATTTATACATGAAATAAAATGTATGTACAATTTTATTACT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAGTGTATGTACAATCTTATTATT
** * * * *
5608901 TTCAAATATGAAAAATAATGAAATACGAAAGGTATAGTAACATTCAAAATCAAAATTCTT
66 TTCAAATACAAAAAATAATGAAATGCAAAAGGTACAATAACATTCAAAATCAAAATTCTT
* * * *
5608961 ATGAAATTGACACTACCATTCAAATATTTATACA-CAGAATAAAGTGTATGTACAACCTTAGTAT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGA-AATAAAGTGTATGTACAATCTTATTAT
* * * * * *
5609025 TTCCAAATGCAAAAAATAAT-AAAGTGCAAAAGCTATAATAACATTCAAAATTAAAATTTTT
65 TTTCAAATACAAAAAATAATGAAA-TGCAAAAGGTACAATAACATTCAAAATCAAAATTCTT
* * *
5609086 ACGAAATTGACACTACCATTAAAATATTTGTACATGAAATAAAGTGTATGTACAATTTTATTATT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAGTGTATGTACAATCTTATTATT
* ** * * * * *
5609151 TCCAAATATGAAAAACAATGAAATACGAAAGGT---ATAACATTGAAAATCTAAATT
66 TTCAAATACAAAAAATAATGAAATGCAAAAGGTACAATAACATTCAAAATCAAAATT
5609205 TTTCCTTTCT
Statistics
Matches: 415, Mismatches: 74, Indels: 13
0.83 0.15 0.03
Matches are distributed among these distances:
122 18 0.04
124 6 0.01
125 387 0.93
126 4 0.01
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (125 bp):
ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAGTGTATGTACAATCTTATTATT
TTCAAATACAAAAAATAATGAAATGCAAAAGGTACAATAACATTCAAAATCAAAATTCTT
Found at i:5609035 original size:250 final size:249
Alignment explanation
Indices: 5608586--5609187 Score: 810
Period size: 250 Copynumber: 2.4 Consensus size: 249
5608576 TGCAAATTTA
* * * * * * * * **
5608586 ATGAAATTGACACCATCATTCAGATATTTGTGCATTAAATGAAATTTATATACAACCTTATTATT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAATGTATGTACAATTTTATTA-T
* * * * * *
5608651 TTTAAATATGATAAATAATGAAATCCAAAAGGCACAATAACATTCAAAATAAAAATTCTTATGAA
65 TTCAAATATGAAAAATAATGAAATACGAAAGGTATAATAACATTCAAAATAAAAATTCTTATGAA
* * * * * **
5608716 ATTGACACTACCATTCAAATATTTGTACATGAAATGAAGTGTATGTACAATCTTATTATTTTTAA
130 ATTGACACTACCATTCAAATATTTATACAAGAAATAAAGTGTATGTACAACCTTAGTATTTCCAA
* *** *
5608781 ATGCAAAAAATAATGAAGTGTGGAAGGTACAATAACATTCAAAACCAAAATTTTT
195 ATGCAAAAAATAATAAAGTGCAAAAGCTACAATAACATTCAAAACCAAAATTTTT
* *
5608836 GTGAAATTGACACTACCATTCAAATATTTATACATGAAATAAAATGTATGTACAATTTTATTACT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAATGTATGTACAATTTTATTA-T
* *
5608901 TTCAAATATGAAAAATAATGAAATACGAAAGGTATAGTAACATTCAAAATCAAAATTCTTATGAA
65 TTCAAATATGAAAAATAATGAAATACGAAAGGTATAATAACATTCAAAATAAAAATTCTTATGAA
5608966 ATTGACACTACCATTCAAATATTTATACACAG-AATAAAGTGTATGTACAACCTTAGTATTTCCA
130 ATTGACACTACCATTCAAATATTTATACA-AGAAATAAAGTGTATGTACAACCTTAGTATTTCCA
* **
5609030 AATGCAAAAAATAATAAAGTGCAAAAGCTATAATAACATTCAAAATTAAAATTTTT
194 AATGCAAAAAATAATAAAGTGCAAAAGCTACAATAACATTCAAAACCAAAATTTTT
* * *
5609086 ACGAAATTGACACTACCATTAAAATATTTGTACATGAAATAAAGTGTATGTACAATTTTATTATT
1 ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAATGTATGTACAATTTTATTATT
*
5609151 TCCAAATATGAAAAACAATGAAATACGAAAGGTATAA
66 T-CAAATATGAAAAATAATGAAATACGAAAGGTATAA
5609188 CATTGAAAAT
Statistics
Matches: 307, Mismatches: 43, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
249 3 0.01
250 303 0.99
251 1 0.00
ACGTcount: A:0.46, C:0.12, G:0.10, T:0.32
Consensus pattern (249 bp):
ATGAAATTGACACTACCATTCAAATATTTGTACATGAAATAAAATGTATGTACAATTTTATTATT
TCAAATATGAAAAATAATGAAATACGAAAGGTATAATAACATTCAAAATAAAAATTCTTATGAAA
TTGACACTACCATTCAAATATTTATACAAGAAATAAAGTGTATGTACAACCTTAGTATTTCCAAA
TGCAAAAAATAATAAAGTGCAAAAGCTACAATAACATTCAAAACCAAAATTTTT
Found at i:5609361 original size:18 final size:20
Alignment explanation
Indices: 5609340--5609381 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5609330 TTAGCCAATA
5609340 AAAAATT-TCC-CTTTTTTG
1 AAAAATTCTCCTCTTTTTTG
*
5609358 AAAAATTCTCCTTTTTTTTG
1 AAAAATTCTCCTCTTTTTTG
5609378 AAAA
1 AAAA
5609382 TTTTTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.48
Consensus pattern (20 bp):
AAAAATTCTCCTCTTTTTTG
Found at i:5610590 original size:20 final size:20
Alignment explanation
Indices: 5610549--5610590 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5610539 TGATTTTGTT
* *
5610549 TTGTTTTTTTTTTAATTTTA
1 TTGTTTTTTTATTAATTCTA
5610569 TTGTTTCTTTTATT-ATTCTA
1 TTGTTT-TTTTATTAATTCTA
5610589 TT
1 TT
5610591 TTATTCGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.76
Consensus pattern (20 bp):
TTGTTTTTTTATTAATTCTA
Found at i:5613492 original size:3 final size:3
Alignment explanation
Indices: 5613486--5613515 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
5613476 GTTGTTGTTG
5613486 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5613516 ACCTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5614345 original size:10 final size:10
Alignment explanation
Indices: 5614330--5614372 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
5614320 AGGTTTTTCC
5614330 TTTTATTTTT
1 TTTTATTTTT
5614340 TTTTATTTTT
1 TTTTATTTTT
*
5614350 TGTTGATTTTT
1 T-TTTATTTTT
*
5614361 ATATTATTTTT
1 -TTTTATTTTT
5614372 T
1 T
5614373 GTGTTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 15 0.54
12 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.05, T:0.81
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:5614360 original size:22 final size:20
Alignment explanation
Indices: 5614335--5614383 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
5614325 TTTCCTTTTA
5614335 TTTTTTTTTATTTTTTGTTGAT
1 TTTTTTTTTATTTTTTG-TG-T
* *
5614357 TTTTATATTATTTTTTGTGT
1 TTTTTTTTTATTTTTTGTGT
5614377 TTTTTTT
1 TTTTTTT
5614384 AATGATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 2 0.09
22 15 0.65
ACGTcount: A:0.10, C:0.00, G:0.08, T:0.82
Consensus pattern (20 bp):
TTTTTTTTTATTTTTTGTGT
Found at i:5615199 original size:51 final size:51
Alignment explanation
Indices: 5615103--5615199 Score: 115
Period size: 52 Copynumber: 1.9 Consensus size: 51
5615093 GGAATGATCC
* ** *
5615103 TAAAACTTGTTTAAAATTTTTAAGATTTCATCGAAGAGTCGAGGATAATCT
1 TAAAACTTGTTTAAAAATTTTAAGAACTCACCGAAGAGTCGAGGATAATCT
* * *
5615154 TAAAATTTGTTTAATAAATTTTAAGAACTCACCTAAGATTC-AGGAT
1 TAAAACTTGTTTAA-AAATTTTAAGAACTCACCGAAGAGTCGAGGAT
5615200 GTTCCTAAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
51 18 0.47
52 20 0.53
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (51 bp):
TAAAACTTGTTTAAAAATTTTAAGAACTCACCGAAGAGTCGAGGATAATCT
Found at i:5615209 original size:51 final size:51
Alignment explanation
Indices: 5615099--5615210 Score: 118
Period size: 51 Copynumber: 2.2 Consensus size: 51
5615089 AGTTGGAATG
* * ** *
5615099 ATCCTAAAACTTGTTTAAAATTTTTAAGATTTCATCGAAGAGTCGAGGATA
1 ATCCTAAAATTTGTTTAAAAATTTTAAGAACTCACCGAAGAGTCGAGGATA
* * * *
5615150 ATCTTAAAATTTGTTTAATAAATTTTAAGAACTCACCTAAGATTC-AGGATG
1 ATCCTAAAATTTGTTTAA-AAATTTTAAGAACTCACCGAAGAGTCGAGGATA
*
5615201 TTCCTAAAAT
1 ATCCTAAAAT
5615211 CATTTTGTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
51 29 0.59
52 20 0.41
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (51 bp):
ATCCTAAAATTTGTTTAAAAATTTTAAGAACTCACCGAAGAGTCGAGGATA
Found at i:5626073 original size:39 final size:39
Alignment explanation
Indices: 5625968--5626144 Score: 210
Period size: 39 Copynumber: 4.5 Consensus size: 39
5625958 ATTGCTTCTC
* * *
5625968 AGCTTTTTGAATTTAAAGTTTGTTACCTCTAGTGAGAGC
1 AGCTTTTTGAATTTAAAGTTCGTTGCCTCTAGTGAGAGG
* * **
5626007 AGTTTTTTAATATTTAAAGTTTATTGCCTCTAGTGAGAGG
1 AGCTTTTTGA-ATTTAAAGTTCGTTGCCTCTAGTGAGAGG
* * * *
5626047 AGCTTTCTAAATTTAAAGTGCGTTGCCTCTAATGAGAGG
1 AGCTTTTTGAATTTAAAGTTCGTTGCCTCTAGTGAGAGG
* * * *
5626086 AGCCTTTTGAATTTAAAGTCCGCTGCCTCTAGTCAGAGG
1 AGCTTTTTGAATTTAAAGTTCGTTGCCTCTAGTGAGAGG
5626125 AGCTTTTTGAATTTAAAGTT
1 AGCTTTTTGAATTTAAAGTT
5626145 TCATAGCCTC
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
39 83 0.71
40 34 0.29
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.39
Consensus pattern (39 bp):
AGCTTTTTGAATTTAAAGTTCGTTGCCTCTAGTGAGAGG
Found at i:5626342 original size:3 final size:3
Alignment explanation
Indices: 5626334--5626384 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
5626324 ATAATTTTGT
5626334 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
5626382 TTA
1 TTA
5626385 ACCTTTAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5627262 original size:22 final size:22
Alignment explanation
Indices: 5627233--5627289 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
5627223 TGTTTTGATT
5627233 TTGA-TTTTTAT-TTATTTTATG
1 TTGATTTTTTATATT-TTTTATG
*
5627254 TTGATTTTTATAGTATTTTTTGTG
1 TTGATTTTT-TA-TATTTTTTATG
*
5627278 TTGTTTTTTTAT
1 TTGATTTTTTAT
5627290 GATATTATTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 4 0.13
24 15 0.50
25 2 0.07
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (22 bp):
TTGATTTTTTATATTTTTTATG
Found at i:5630517 original size:18 final size:19
Alignment explanation
Indices: 5630494--5630536 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
5630484 TGACCAACTC
**
5630494 TTAAATGAATT-ATGCAAA
1 TTAAATGAATTCAAACAAA
5630512 TTAAATGAATTCAAACAAA
1 TTAAATGAATTCAAACAAA
5630531 TTAAAT
1 TTAAAT
5630537 AAAGAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (19 bp):
TTAAATGAATTCAAACAAA
Found at i:5635853 original size:14 final size:14
Alignment explanation
Indices: 5635793--5635859 Score: 52
Period size: 13 Copynumber: 5.0 Consensus size: 14
5635783 CAAATTTAAA
5635793 TTAAAAATAATATTT
1 TTAAAAATAAT-TTT
*
5635808 TTAATAAT-ATTTT
1 TTAAAAATAATTTT
**
5635821 TT-ATTA-AATTTT
1 TTAAAAATAATTTT
* *
5635833 AT-GAAATAATTTT
1 TTAAAAATAATTTT
5635846 TTAAAAATAATTTT
1 TTAAAAATAATTTT
5635860 ACAAATTTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
12 10 0.24
13 12 0.29
14 12 0.29
15 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (14 bp):
TTAAAAATAATTTT
Found at i:5646023 original size:1 final size:1
Alignment explanation
Indices: 5646017--5646044 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
5646007 GATCTGTCAT
5646017 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
5646045 TCCAGTGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5647707 original size:62 final size:62
Alignment explanation
Indices: 5647615--5647734 Score: 206
Period size: 62 Copynumber: 1.9 Consensus size: 62
5647605 TTGAAAATGT
5647615 AAAAAAAATTCATTAAAGATTTCTTATTAAAATTAGAGAATGTAAAATACTTTGATTTGTAA
1 AAAAAAAATTCATTAAAGATTTCTTATTAAAATTAGAGAATGTAAAATACTTTGATTTGTAA
* *
5647677 AAAAAAAATTTATTAAAGACTTT-TTATTAAAATTAGAGAATGTAAAGTACTTTGATTT
1 AAAAAAAATTCATTAAAGA-TTTCTTATTAAAATTAGAGAATGTAAAATACTTTGATTT
5647735 ATAATTTCGC
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
62 52 0.95
63 3 0.05
ACGTcount: A:0.47, C:0.04, G:0.10, T:0.38
Consensus pattern (62 bp):
AAAAAAAATTCATTAAAGATTTCTTATTAAAATTAGAGAATGTAAAATACTTTGATTTGTAA
Found at i:5652277 original size:31 final size:31
Alignment explanation
Indices: 5652242--5652306 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
5652232 TAAACACTTA
*
5652242 AATTAACTAGTTTTTTCATCATATACGACCT
1 AATTAACTAGCTTTTTCATCATATACGACCT
* * *
5652273 AATTAATTAGCTTTTTCATCATGTACGACTT
1 AATTAACTAGCTTTTTCATCATATACGACCT
5652304 AAT
1 AAT
5652307 AATCTCATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.43
Consensus pattern (31 bp):
AATTAACTAGCTTTTTCATCATATACGACCT
Found at i:5652923 original size:25 final size:24
Alignment explanation
Indices: 5652880--5652935 Score: 76
Period size: 25 Copynumber: 2.3 Consensus size: 24
5652870 ATTTTCATTA
*
5652880 AATTTTTTCAATCATAATTATAAT
1 AATTTTTTCAATCACAATTATAAT
*
5652904 AATTTATTTCAATTACAATTATAAT
1 AATTT-TTTCAATCACAATTATAAT
*
5652929 AAATTTT
1 AATTTTT
5652936 ATTACTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (24 bp):
AATTTTTTCAATCACAATTATAAT
Found at i:5659782 original size:2 final size:2
Alignment explanation
Indices: 5659777--5659811 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
5659767 AAAAAAAAAA
5659777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5659812 AGAGAAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5665708 original size:16 final size:17
Alignment explanation
Indices: 5665677--5665710 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
5665667 GGATAGATGT
*
5665677 AATTTTTGAAACTTTAA
1 AATTTTTGAAAATTTAA
5665694 AATTTTT-AAAATTTAA
1 AATTTTTGAAAATTTAA
5665710 A
1 A
5665711 TAATTGATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (17 bp):
AATTTTTGAAAATTTAA
Found at i:5670639 original size:2 final size:2
Alignment explanation
Indices: 5670632--5670687 Score: 76
Period size: 2 Copynumber: 28.0 Consensus size: 2
5670622 AAAATAGGTG
* * * *
5670632 TA TA TA TA TA TA TA CA TA CA TA TA TA TA TA CA TA CA 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
5670674 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
5670688 GATAGATAGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:5670656 original size:16 final size:16
Alignment explanation
Indices: 5670635--5670687 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
5670625 ATAGGTGTAT
5670635 ATATATATATACATAC
1 ATATATATATACATAC
5670651 ATATATATATACATAC
1 ATATATATATACATAC
* *
5670667 ATATATATATATATAT
1 ATATATATATACATAC
5670683 ATATA
1 ATATA
5670688 GATAGATAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATATATACATAC
Found at i:5675289 original size:5 final size:5
Alignment explanation
Indices: 5675279--5675321 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
5675269 AATGAGTTAG
*
5675279 AAATA AAATA AAATA AAATA AAAT- CAA-A AAATA AAATGA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAAT-A AAAT
5675322 GGAAAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
4 4 0.12
5 24 0.73
6 5 0.15
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:5675735 original size:21 final size:21
Alignment explanation
Indices: 5675704--5675752 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
5675694 CCAAACCCAG
* *
5675704 AAAAATCT-AAAAAAATTCAGA
1 AAAAATTTAAAAAAAATCCA-A
5675725 AAAAATTTAAAAAAAATCCAA
1 AAAAATTTAAAAAAAATCCAA
5675746 AAAAATT
1 AAAAATT
5675753 CTCAGATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.20
Consensus pattern (21 bp):
AAAAATTTAAAAAAAATCCAA
Found at i:5675747 original size:20 final size:20
Alignment explanation
Indices: 5675682--5675749 Score: 57
Period size: 21 Copynumber: 3.4 Consensus size: 20
5675672 CATACTTCGT
** *
5675682 CAAAAAATTT-AACCAAACC
1 CAAAAAATTTAAAAAAAATC
* *
5675701 CAGAAAAATCTAAAAAAATTC
1 CA-AAAAATTTAAAAAAAATC
*
5675722 AGAAAAAATTTAAAAAAAATC
1 -CAAAAAATTTAAAAAAAATC
5675743 CAAAAAA
1 CAAAAAA
5675750 ATTCTCAGAT
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
19 2 0.05
20 13 0.35
21 21 0.57
22 1 0.03
ACGTcount: A:0.66, C:0.15, G:0.03, T:0.16
Consensus pattern (20 bp):
CAAAAAATTTAAAAAAAATC
Found at i:5676162 original size:3 final size:3
Alignment explanation
Indices: 5676154--5676219 Score: 105
Period size: 3 Copynumber: 22.0 Consensus size: 3
5676144 AGGTAAACAG
* *
5676154 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAA AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
5676202 AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
5676220 GAAAGCCTCC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:5676702 original size:121 final size:119
Alignment explanation
Indices: 5676540--5676944 Score: 377
Period size: 120 Copynumber: 3.4 Consensus size: 119
5676530 TTAAATCACG
* * * * * * * * *
5676540 AGTC-AAATGAAA-TGACCAAAACCGAGTTGAGGTTAACAATAAATGATTGGGACGGAACCACAA
1 AGTCAAAATAAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATTGGGATGAAACCACGA
* * *
5676603 ATCATAAAAAATGATCTGAACTGAGCAATGATTAGGTGACTAGGATGAAACCACAA
66 GTCATAAAAAATGATCTGAACTTAGCAA-GATCAGGTGACTAGGATGAAACCAC-A
* * * *
5676659 AGTCAAAATAAAAGTGACTAAGATCGAGTCGAGGTTAAAAATAAATTATTGGGATGAAATCACGA
1 AGTCAAAATAAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATTGGGATGAAACCACGA
* * * * ** *
5676724 GTCATAAGAAATGATCTAAACTTAGCCAAGATCAGGTGATTGGGACAAAATCACA
66 GTCATAAAAAATGATCTGAACTTAG-CAAGATCAGGTGACTAGGATGAAACCACA
* * * * * *
5676779 AGTCAAGAA-AAAAGTGACCAAAATCTAGTCGAGGTAAAAAATGAATGATCGGAATGAAACCATG
1 AGTCAA-AATAAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATTGGGATGAAACCACG
* * * **
5676843 AGTCATACAAAATGATCTGGACTTAACCGGGATCAGGTGACTAGGATGAAACCACA
65 AGTCATAAAAAATGATCTGAACTT-AGCAAGATCAGGTGACTAGGATGAAACCACA
* *** *
5676899 AGTTACGGTAAAAGTGACCAAGAT-GAAATCGAGGTAAAAAATAAAT
1 AGTCAAAATAAAAGTGACCAAGATCG-AGTCGAGGTAAAAAATAAAT
5676945 AACCGAAAAA
Statistics
Matches: 228, Mismatches: 51, Indels: 13
0.78 0.17 0.04
Matches are distributed among these distances:
119 4 0.02
120 137 0.60
121 84 0.37
122 3 0.01
ACGTcount: A:0.45, C:0.14, G:0.21, T:0.20
Consensus pattern (119 bp):
AGTCAAAATAAAAGTGACCAAGATCGAGTCGAGGTAAAAAATAAATGATTGGGATGAAACCACGA
GTCATAAAAAATGATCTGAACTTAGCAAGATCAGGTGACTAGGATGAAACCACA
Found at i:5677021 original size:89 final size:89
Alignment explanation
Indices: 5676909--5677394 Score: 402
Period size: 89 Copynumber: 5.5 Consensus size: 89
5676899 AGTTACGGTA
* ** * * *
5676909 AAAGTGACCAAGAT-GAAATCGAGGTAAAAAATAAATAACCGAAAAAAAATCACGAATCATGTGA
1 AAAGTGACCAAGATCG-AGTCGAGGTCGAAAATAAATGATCGAAAAAAAACCACGAATCATGTGA
*
5676973 TCGGGATGAAACTACGAGTCAAAAT
65 TCGGGATGAAACCACGAGTCAAAAT
* * * * ** * **
5676998 AAAATGACCAGGATCGAATCGAGGTCGAAAATGAATGATCGAAATGAAGCCATAAATCATGTGA-
1 AAAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAAAAAAAACCACGAATCATGTGAT
* *
5677062 CTGGGATGAAATCACGAGTCTAAAT
66 C-GGGATGAAACCACGAGTCAAAAT
** ** * * * * * * * ** * *
5677087 AAAGCAACCGGGACCTAGTTGAGGTCAAAAATAAATTATTGAGATGACACCATGAATCATGTGAT
1 AAAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAAAAAAAACCACGAATCATGTGAT
* **
5677152 CGGGATGAAACCATGAGTGGAAAT
66 CGGGATGAAACCACGAGTCAAAAT
* * * *
5677176 AAAGTGACCAAGATCGAGTCGAGATTGAAAATAAATGATCGAGAAAAAACTACGAATCATGTGAT
1 AAAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAAAAAAAACCACGAATCATGTGAT
5677241 CGGGATGAAACCACGAGTCAAAAT
66 CGGGATGAAACCACGAGTCAAAAT
* * ** ** * *
5677265 AAAGTGACCAAGATCGAGTCGAGGTTGAAAATAAATGATTGGGATGAAACCATGAATCATGTGAC
1 AAAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAAAAAAAACCACGAATCATGTGAT
* * * * * * *
5677330 CAGAACGAAATCATGAATTAAAAT
66 CGGGATGAAACCACGAGTCAAAAT
* * *
5677354 AAAATGACC-AGAACTGAGTCGAGGTCGAAAATGAATGATCG
1 AAAGTGACCAAGATC-GAGTCGAGGTCGAAAATAAATGATCG
5677395 GGATGATGTT
Statistics
Matches: 317, Mismatches: 76, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
88 5 0.02
89 310 0.98
90 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.19
Consensus pattern (89 bp):
AAAGTGACCAAGATCGAGTCGAGGTCGAAAATAAATGATCGAAAAAAAACCACGAATCATGTGAT
CGGGATGAAACCACGAGTCAAAAT
Found at i:5677152 original size:178 final size:177
Alignment explanation
Indices: 5676962--5677394 Score: 476
Period size: 178 Copynumber: 2.4 Consensus size: 177
5676952 AAAAAATCAC
* *
5676962 GAATCATGTGATCGGGATGAAACTACGAGTCAAAATAAAATGACCAGGATCGAATCGAGGTCGAA
1 GAATCATGTGATCGGGATGAAACTATGAGTCAAAATAAAATGACCA-GATCGAGTCGAGGTCGAA
* * * * *
5677027 AATGAATGATCGA-AATGAAGCCATAAATCATGTGA-CTGGGATGAAATCACGAGTCTAAATAAA
65 AATGAATGATCGAGAA-AAAACCACAAATCATGTGATC-GGGATGAAACCACGAGTCAAAATAAA
** * * * *
5677090 GCAACCGGGACCTAGTTGAGGTCAAAAATAAATTATTGAGATGACACCAT
128 GCAACCAAGACCGAGTCGAGGTCAAAAATAAATGATTGAGATGAAACCAT
* ** * * *
5677140 GAATCATGTGATCGGGATGAAACCATGAGTGGAAATAAAGTGACCAAGATCGAGTCGAGATTGAA
1 GAATCATGTGATCGGGATGAAACTATGAGTCAAAATAAAATGACC-AGATCGAGTCGAGGTCGAA
* * * *
5677205 AATAAATGATCGAGAAAAAACTACGAATCATGTGATCGGGATGAAACCACGAGTCAAAATAAAGT
65 AATGAATGATCGAGAAAAAACCACAAATCATGTGATCGGGATGAAACCACGAGTCAAAATAAAGC
* * ** *
5677270 GACCAAGATCGAGTCGAGGTTGAAAATAAATGATTGGGATGAAACCAT
130 AACCAAGACCGAGTCGAGGTCAAAAATAAATGATTGAGATGAAACCAT
* * * * * * *
5677318 GAATCATGTGACCAGAACGAAA-TCATGAATTAAAATAAAATGACCAGAACTGAGTCGAGGTCGA
1 GAATCATGTGATCGGGATGAAACT-ATGAGTCAAAATAAAATGACCAGATC-GAGTCGAGGTCGA
5677382 AAATGAATGATCG
64 AAATGAATGATCG
5677395 GGATGATGTT
Statistics
Matches: 209, Mismatches: 41, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
177 4 0.02
178 201 0.96
179 4 0.02
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (177 bp):
GAATCATGTGATCGGGATGAAACTATGAGTCAAAATAAAATGACCAGATCGAGTCGAGGTCGAAA
ATGAATGATCGAGAAAAAACCACAAATCATGTGATCGGGATGAAACCACGAGTCAAAATAAAGCA
ACCAAGACCGAGTCGAGGTCAAAAATAAATGATTGAGATGAAACCAT
Found at i:5688176 original size:11 final size:10
Alignment explanation
Indices: 5688159--5688188 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
5688149 TCATCTAAAA
5688159 ATTTTTTTGG
1 ATTTTTTTGG
5688169 ATTTTTTTGG
1 ATTTTTTTGG
5688179 ATTTTTTTGG
1 ATTTTTTTGG
5688189 GTTTGGTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.10, C:0.00, G:0.20, T:0.70
Consensus pattern (10 bp):
ATTTTTTTGG
Found at i:5688202 original size:20 final size:20
Alignment explanation
Indices: 5688158--5688204 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
5688148 ATCATCTAAA
**
5688158 AATTTTTTTGGATTTTTTTG
1 AATTTTTTTGGATTTGGTTG
* *
5688178 GATTTTTTTGGGTTTGGTTG
1 AATTTTTTTGGATTTGGTTG
5688198 AATTTTT
1 AATTTTT
5688205 CAATGAAGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.66
Consensus pattern (20 bp):
AATTTTTTTGGATTTGGTTG
Found at i:5691110 original size:6 final size:7
Alignment explanation
Indices: 5691093--5691118 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
5691083 CTTGGTGGAT
5691093 TTTTTTA
1 TTTTTTA
5691100 TTTTTTA
1 TTTTTTA
5691107 TTTTTTA
1 TTTTTTA
5691114 TTTTT
1 TTTTT
5691119 GATGTGAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:5694385 original size:6 final size:6
Alignment explanation
Indices: 5694374--5694439 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
5694364 AAGTGCTTCC
* * * *
5694374 GCAACA GCAACA ACAACA ACAACA GCAGCAGCA GCAGCA GCAACA ACAACA
1 GCAACA GCAACA GCAACA GCAACA GCA--A-CA GCAACA GCAACA GCAACA
* *
5694425 GCAGCA GCAGCA GCA
1 GCAACA GCAACA GCA
5694440 TCTGTACCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
6 44 0.88
8 1 0.02
9 5 0.10
ACGTcount: A:0.47, C:0.33, G:0.20, T:0.00
Consensus pattern (6 bp):
GCAACA
Found at i:5694402 original size:3 final size:3
Alignment explanation
Indices: 5694396--5694439 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
5694386 ACAACAACAA
* * *
5694396 CAG CAG CAG CAG CAG CAG CAA CAA CAA CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
5694440 TCTGTACCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.41, C:0.34, G:0.25, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:5694434 original size:24 final size:24
Alignment explanation
Indices: 5694390--5694439 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
5694380 GCAACAACAA
*
5694390 CAACAACAGCAGCAGCAGCAGCAG
1 CAACAACAACAGCAGCAGCAGCAG
5694414 CAACAACAACAGCAGCAGCAGCAG
1 CAACAACAACAGCAGCAGCAGCAG
5694438 CA
1 CA
5694440 TCTGTACCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.34, G:0.22, T:0.00
Consensus pattern (24 bp):
CAACAACAACAGCAGCAGCAGCAG
Found at i:5694437 original size:27 final size:27
Alignment explanation
Indices: 5694378--5694439 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
5694368 GCTTCCGCAA
*
5694378 CAGCAACAACAACAACAACAGCAGCAG
1 CAGCAGCAACAACAACAACAGCAGCAG
*
5694405 CAGCAGCAGCAACAACAACAGCAGCAG
1 CAGCAGCAACAACAACAACAGCAGCAG
5694432 CAGCAGCA
1 CAGCAGCA
5694440 TCTGTACCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.47, C:0.34, G:0.19, T:0.00
Consensus pattern (27 bp):
CAGCAGCAACAACAACAACAGCAGCAG
Found at i:5697995 original size:21 final size:20
Alignment explanation
Indices: 5697953--5697993 Score: 55
Period size: 23 Copynumber: 1.9 Consensus size: 20
5697943 AGCAGCTTGG
5697953 CAAGTTGAGAAATTTTAAAAC
1 CAAGTTGAGAAATTTT-AAAC
5697974 CAAGTTGGAGCAAATTTTAA
1 CAAGTT-GAG-AAATTTTAA
5697994 CCTTCTTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (20 bp):
CAAGTTGAGAAATTTTAAAC
Found at i:5705342 original size:30 final size:30
Alignment explanation
Indices: 5705285--5705343 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5705275 AAAATTATAG
* *
5705285 TATTTGGTTTGATTTAAGTAGATAATTTTT
1 TATTTGATTTGATTTAAGTAGAAAATTTTT
**
5705315 TATTTGATTTGATTTAAGTTTAAAATTTT
1 TATTTGATTTGATTTAAGTAGAAAATTTT
5705344 AAATTGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.58
Consensus pattern (30 bp):
TATTTGATTTGATTTAAGTAGAAAATTTTT
Found at i:5709274 original size:61 final size:58
Alignment explanation
Indices: 5709173--5709339 Score: 156
Period size: 61 Copynumber: 2.7 Consensus size: 58
5709163 AATTTTTTTA
* * * * * *
5709173 AGATTATTTAAAATGCTTTTGGCTAGAAAATACCTGAAATAATCCTAAAAAAAATGAAATG
1 AGATTATTTAAGATGTTTTTGGCCA-AAAAGACCTTAAATAATCCTAAAAAAAATG--ATC
* *
5709234 AGATTATTTAAGATGTTTTCTAGCCAAAAAGACCTTAAATAATTTCCTAAAAAAATTGATC
1 AGATTATTTAAGATGTTTT-TGGCCAAAAAGACCTTAAATAA--TCCTAAAAAAAATGATC
*
5709295 AGCATTATTTAAAGCATTTTTTTGGCCAAAAATG-CCTTAAATAAT
1 AG-ATTATTT-AAG-ATGTTTTTGGCCAAAAA-GACCTTAAATAAT
5709340 AAAAAAAAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
61 36 0.40
62 11 0.12
63 35 0.39
64 7 0.08
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (58 bp):
AGATTATTTAAGATGTTTTTGGCCAAAAAGACCTTAAATAATCCTAAAAAAAATGATC
Found at i:5709324 original size:63 final size:61
Alignment explanation
Indices: 5709173--5709339 Score: 155
Period size: 63 Copynumber: 2.7 Consensus size: 61
5709163 AATTTTTTTA
* * * * * *
5709173 AGATTATTTAAAATG-CTTTTGGCTAGAAAATACCTGAAATAA-TCCTAAAAAAAATGAAATG
1 AGATTATTTAAGATGTTTTTTGGCCA-AAAAGACCTTAAATAATTCCTAAAAAAAATG-AATC
* * *
5709234 AGATTATTTAAGATGTTTTCTAGCCAAAAAGACCTTAAATAATTTCCTAAAAAAATTG-ATC
1 AGATTATTTAAGATGTTTTTTGGCCAAAAAGACCTTAAATAA-TTCCTAAAAAAAATGAATC
5709295 AGCATTATTTAAAGCAT-TTTTTTGGCCAAAAATG-CCTTAAATAAT
1 AG-ATTATTT-AAG-ATGTTTTTTGGCCAAAAA-GACCTTAAATAAT
5709340 AAAAAAAAAA
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
61 32 0.36
62 14 0.16
63 39 0.44
64 3 0.03
ACGTcount: A:0.43, C:0.12, G:0.11, T:0.34
Consensus pattern (61 bp):
AGATTATTTAAGATGTTTTTTGGCCAAAAAGACCTTAAATAATTCCTAAAAAAAATGAATC
Found at i:5709789 original size:19 final size:19
Alignment explanation
Indices: 5709767--5709807 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
5709757 ATATTAGAGA
*
5709767 TCATTTTAAATAATACCCT
1 TCATTTTAAATAATACACT
5709786 TCATTTTAAATAATACACT
1 TCATTTTAAATAATACACT
5709805 TCA
1 TCA
5709808 ATTTGAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (19 bp):
TCATTTTAAATAATACACT
Found at i:5711741 original size:559 final size:559
Alignment explanation
Indices: 5710674--5712556 Score: 2452
Period size: 559 Copynumber: 3.4 Consensus size: 559
5710664 CACTATCTTC
* * * * *
5710674 TCTTTTCTTCATTCTCTCAAATTTTCTCTCTAAATTCAATCCAAATTTAACCCAAAACCATCAAA
1 TCTTCTCTTCATTTTCTCAAAATTTCACTCTAAACTCAATCCAAATTTAACCCAAAACCATCAAA
* * * *
5710739 CCCACCCATAAATCCTAAGTATTTTCCTATTCAATTCATTCTAGGTAAGATTTATTAGTTATTGT
66 CCCACCCATAAATCATAAGTTTTTTCCTATTCGATTCATTCTAGGTAAGATTTAGTAGTTATTGT
* * *
5710804 ATATTTATTTGATAGATTTTTAGGGTTTGTAATCTAAGGTTGAGAATTTTTTTGGATAAAATTTT
131 ATATTTATTTGGTAGATTTTTAGGGTTTATAATCTAAGGTTGAGAATTTTTTTGG-TAAAATTGT
* * * * * *
5710869 GTATTATGAAAATAGATTTTTGTGATTTTCTAAGACATTTCGAAAATGAATTTCCATAAGCTTTT
195 GTATTAAGAAAATGGATTTATGTGATTTTCTAAGGCATTTTGAAAATGAATTTCCATAAGCCTTT
** * *
5710934 TAAAGCTTACAAAAAATTTT-TATCCATTGGTACAATAAAAAATTTTTATTGAAAAAAATCTTAA
260 TAAAGCTTATGAAAAATTTTATAT--TTTGGTACAATAAAAAATTATTATTGAAAAAAATCTTAA
* * *
5710998 ATTCTAAAATTAATAAAAATAA-TTTATTTTTACTCTTTTGATCTTAATTTGCAAAGGATGCCAC
323 ATTCTAAAATTAATAAAAAAAACTTGA-TTTTACTATTTTGATCTTAATTTGCAAAGGATGCCAC
* * * * * *
5711062 TTCATTTCTCTACTTTATTTTTCTCGAGAAA-TCTCAGTACGCCTTTAAAAATTCACTTTACAC-
387 TTCCTTTCTCTACTTTATCTTTCTCGAGAAATTCTCAATACACCCTTAAAAATTCTCTTTACACT
* * *
5711125 CACATCGCTAAAATCATCATAAATTAAAAATACAAATTAATAGTTTTA-TTCATTATACCTCATC
452 CAC-T-GCTAAAATCACCAAAAATTTAAAATACAAATTAATAGTTTTACTT-ATTATACCTCATC
* * *
5711189 TCAATATTTCACATTTTCATTCATACCTTTTACACCGATCATTTCT
514 TCAACATTTCACATTTTCATTCATACCTTTTACACCAATCCTTTCT
* * * * *
5711235 TC-TCTCTTCATTTTCACAAAATTTCAATCCAAACTCAATCCAAATTTAACCCAAAATCATTAAA
1 TCTTCTCTTCATTTTCTCAAAATTTCACTCTAAACTCAATCCAAATTTAACCCAAAACCATCAAA
* ** *
5711299 CCCACCCCTAAATCATAAGTTTTTTCCTGGTCGATTCATTTTAGGTAAGATTTAGTAGTTATTGT
66 CCCACCCATAAATCATAAGTTTTTTCCTATTCGATTCATTCTAGGTAAGATTTAGTAGTTATTGT
* *
5711364 ACATTTATTTAGTAGATTTTTAGGGTTTATAATCTAAGGTTGAGAATTTTTTTGGTAAAATTGTG
131 ATATTTATTTGGTAGATTTTTAGGGTTTATAATCTAAGGTTGAGAATTTTTTTGGTAAAATTGTG
* *
5711429 TATTAAGAAAATGGATTTATGTGATTTTTTAGGGCATTTTGAAAATGAATTTCCATAAGCCTTTT
196 TATTAAGAAAATGGATTTATGTGATTTTCTAAGGCATTTTGAAAATGAATTTCCATAAGCCTTTT
*
5711494 AAAGCTTATGAAAAATTTTATATTTTGGTACAATTAAAAATTATTATTGGAAAAAAATCTTAAAT
261 AAAGCTTATGAAAAATTTTATATTTTGGTACAATAAAAAATTATTATT-GAAAAAAATCTTAAAT
* *
5711559 TCTAAAATTAATAAAAAGAACTTGATTTTACTATTTTGATCTTAATTTGCAAAGGATGCCATTTC
325 TCTAAAATTAATAAAAAAAACTTGATTTTACTATTTTGATCTTAATTTGCAAAGGATGCCACTTC
* * *
5711624 CTTTCTCTACTTTATCTTTCACGAGAAATTCTCAATACACCCCTAAAAATTCTCTTTACACTTAC
390 CTTTCTCTACTTTATCTTTCTCGAGAAATTCTCAATACACCCTTAAAAATTCTCTTTACACTCAC
*
5711689 TGCTAAAATCACCAAAAATTTAAAATATAAATTAATAGTTTTACTTATTATACCTCAT-TCCAAC
455 TGCTAAAATCACCAAAAATTTAAAATACAAATTAATAGTTTTACTTATTATACCTCATCT-CAAC
* * *
5711753 ATTTCACATTTTCGTTCATACCCTTGACACCAATCCTTTCT
519 ATTTCACATTTTCATTCATACCTTTTACACCAATCCTTTCT
* *
5711794 TCTTTCTTCTTCATTCTCTCAAAATTTTC-CTCTAAACTCAATCCAAATTTAACCTAAAACCATC
1 TC-TTC-TCTTCATTTTCTCAAAA-TTTCACTCTAAACTCAATCCAAATTTAACCCAAAACCATC
*** * * *
5711858 AAACCCACTTGTAAATCACAAGTTTTTTCCTATTCTATTCATTCTAGGTAAGATTTAGCAGTTAT
63 AAACCCACCCATAAATCATAAGTTTTTTCCTATTCGATTCATTCTAGGTAAGATTTAGTAGTTAT
* * * * *
5711923 TGTATATTTATTTGGCATATTTTTAAGATTTATAATCTAAGGTTGAGATTTTTTTTTGGTAAAAT
128 TGTATATTTATTTGGTAGATTTTTAGGGTTTATAATCTAAGGTTGAGA-ATTTTTTTGGTAAAAT
* * * *
5711988 TGAGTATTACA-AAAATGGATGTCTGTGATTTTCTAAGGCATTTTGAAAATGAATTTGCATAAGC
192 TGTGTATTA-AGAAAATGGATTTATGTGATTTTCTAAGGCATTTTGAAAATGAATTTCCATAAGC
* * * * *
5712052 CTTTTAGAGCTTATGAAAAATTATTATACTTTGGTGA-AATAAAAAAATTATCA-TAAAAAAAAA
256 CTTTTAAAGCTTATGAAAAATT-TTATATTTTGGT-ACAAT-AAAAAATTATTATTGAAAAAAAT
*
5712115 CTTAAATTCTAAAATTAATAAAAAAAACTTGATTTTACTATTTTGATCTTAATTTGCAAAGGCTG
318 CTTAAATTCTAAAATTAATAAAAAAAACTTGATTTTACTATTTTGATCTTAATTTGCAAAGGATG
* * * *
5712180 CCACTTCCTTTCTTTA-TGTTATCTTTCTTGAGAAATTCTTAATACACCCTTAAAAATTCTTTTT
383 CCACTTCCTTTCTCTACT-TTATCTTTCTCGAGAAATTCTCAATACACCCTTAAAAATTCTCTTT
* * *
5712244 ACACCTCATTGCTAAAATCACCAAAAATTTAAAATACAAATTAATAGTTTTACTCATTATACCTT
447 ACA-CTCACTGCTAAAATCACCAAAAATTTAAAATACAAATTAATAGTTTTACTTATTATACCTC
* * * * *
5712309 ACCCCAACATTTTACATTTCCATTCATAACTTTTACACCAATCCTTTCT
511 ATCTCAACATTTCACATTTTCATTCATACCTTTTACACCAATCCTTTCT
* *
5712358 TCTTTTTTCTTCATTCTT-TCAAAATTT-ACCTCTAAACTCAATCCAAATTTAACCTAAAACCAT
1 TC--TTCTCTTCATT-TTCTCAAAATTTCA-CTCTAAACTCAATCCAAATTTAACCCAAAACCAT
* * * * * * * * *
5712421 CAAACCTACCCTTAAATCATAAATTTTTTACTATTTGATTCATTCCAAGCAAGATTTAGTAATTA
62 CAAACCCACCCATAAATCATAAGTTTTTTCCTATTCGATTCATTCTAGGTAAGATTTAGTAGTTA
* *
5712486 TTG--TA--TATTTGGTAGATTTTTTAGGGTTTATAACCTAAGGTTAAGAATTTTTTTGGTAAAA
127 TTGTATATTTATTTGGTAGA-TTTTTAGGGTTTATAATCTAAGGTTGAGAATTTTTTTGGTAAAA
5712547 TTGTGTATTA
191 TTGTGTATTA
5712557 CATCTTCTAA
Statistics
Matches: 1158, Mismatches: 140, Indels: 49
0.86 0.10 0.04
Matches are distributed among these distances:
558 23 0.02
559 272 0.23
560 228 0.20
561 31 0.03
562 146 0.13
563 227 0.20
564 216 0.19
565 15 0.01
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (559 bp):
TCTTCTCTTCATTTTCTCAAAATTTCACTCTAAACTCAATCCAAATTTAACCCAAAACCATCAAA
CCCACCCATAAATCATAAGTTTTTTCCTATTCGATTCATTCTAGGTAAGATTTAGTAGTTATTGT
ATATTTATTTGGTAGATTTTTAGGGTTTATAATCTAAGGTTGAGAATTTTTTTGGTAAAATTGTG
TATTAAGAAAATGGATTTATGTGATTTTCTAAGGCATTTTGAAAATGAATTTCCATAAGCCTTTT
AAAGCTTATGAAAAATTTTATATTTTGGTACAATAAAAAATTATTATTGAAAAAAATCTTAAATT
CTAAAATTAATAAAAAAAACTTGATTTTACTATTTTGATCTTAATTTGCAAAGGATGCCACTTCC
TTTCTCTACTTTATCTTTCTCGAGAAATTCTCAATACACCCTTAAAAATTCTCTTTACACTCACT
GCTAAAATCACCAAAAATTTAAAATACAAATTAATAGTTTTACTTATTATACCTCATCTCAACAT
TTCACATTTTCATTCATACCTTTTACACCAATCCTTTCT
Found at i:5714160 original size:343 final size:348
Alignment explanation
Indices: 5713520--5714184 Score: 1009
Period size: 343 Copynumber: 1.9 Consensus size: 348
5713510 ATTATGTCGT
* * * *
5713520 AAGCATGTCATTACTATTTAACACGAACATGGCATTAATAATATCATGTCTTAATTGATTGTATC
1 AAGCATGTCATTACTATTTAACACGAACACGACATTAATAATATCATGTCTTAATTCATTGTAAC
* * *
5713585 GACAAGATTAAGACATAAAACACGATTATATTAAACCCACATACAATTTTTTTCCTATTGTTTTC
66 GAC-AGATTAAGACATAAAACACGATTATACTAAACCCACAGACAATTTTTTTCCTATTATTTTC
* * *
5713650 ATATTGTGTCATTGTGTTGTGTTTAAAATTACCAAGTCTAGGTCTAATCGATACATCTATCCTTA
130 ATATCGTGTCATTGTGTTATGTTTAAAATTACCAAGTCTAGATCTAATCGATACATCTATCCTTA
*
5713715 AGAGTTTTGAATTTTATGTTGCATTGCAAATATGGAATGACCAGGTAAGCATTTGAATCATATAA
195 AGAGTTTTGAATCTTATGTTGCATTGCAAATATGGAATGACCAGGTAAGCATTTGAATCATATAA
* * * *
5713780 AATGATAGTGTTAGTTTATGTTTTTAAAGTGAATTAGTTGATTATTATTGTTGTTGATATTTTGT
260 AACGACAATGTTAGTTTATGTTTTTAAAGTAAATTAGTTGATTATTATTGTTGTTGATATTTTGT
5713845 ATGTTAATATTGTTGATGATTTTA
325 ATGTTAATATTGTTGATGATTTTA
* * * * *
5713869 AAGCATGTCATTATTATTTGACACGAGCACGATATTAATAATGTCATGTCTTAA-TCA-TGTCAA
1 AAGCATGTCATTACTATTTAACACGAACACGACATTAATAATATCATGTCTTAATTCATTGT-AA
** * *
5713932 CG-C-GATTAAGACATAAAATGCGATTATACTAAACCCATAGATAATTTTTTT-CTATTATTTTC
65 CGACAGATTAAGACATAAAACACGATTATACTAAACCCACAGACAATTTTTTTCCTATTATTTTC
* *
5713994 ATATCGTGTCATTGTGTTATGTTTAAAATTATCAAGTCTAGATCTGATCGATACATCTATCCTTA
130 ATATCGTGTCATTGTGTTATGTTTAAAATTACCAAGTCTAGATCTAATCGATACATCTATCCTTA
* **
5714059 AGAG-TTTGGATCTTATGTTGCATTGCAAATATGGAATGGTCAGGTAAGCATTTGAATCATATAA
195 AGAGTTTTGAATCTTATGTTGCATTGCAAATATGGAATGACCAGGTAAGCATTTGAATCATATAA
5714123 AACGACAATGTTAGTTTATGTTTTTAAAGTAAATTAGTTGATTATTATTGTTGTTGATATTT
260 AACGACAATGTTAGTTTATGTTTTTAAAGTAAATTAGTTGATTATTATTGTTGTTGATATTT
5714185 CTTATTTTGT
Statistics
Matches: 286, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
343 114 0.40
344 74 0.26
345 42 0.15
347 4 0.01
348 5 0.02
349 47 0.16
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.41
Consensus pattern (348 bp):
AAGCATGTCATTACTATTTAACACGAACACGACATTAATAATATCATGTCTTAATTCATTGTAAC
GACAGATTAAGACATAAAACACGATTATACTAAACCCACAGACAATTTTTTTCCTATTATTTTCA
TATCGTGTCATTGTGTTATGTTTAAAATTACCAAGTCTAGATCTAATCGATACATCTATCCTTAA
GAGTTTTGAATCTTATGTTGCATTGCAAATATGGAATGACCAGGTAAGCATTTGAATCATATAAA
ACGACAATGTTAGTTTATGTTTTTAAAGTAAATTAGTTGATTATTATTGTTGTTGATATTTTGTA
TGTTAATATTGTTGATGATTTTA
Found at i:5716148 original size:31 final size:30
Alignment explanation
Indices: 5716089--5716148 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
5716079 TATTGTATTT
*
5716089 ATAAAACATCTATTAGATAACCTATTCAAA
1 ATAAAACATCTATTAGATAACATATTCAAA
* *
5716119 ATAATACATCCTATTAGATAACATGTTCAA
1 ATAAAACAT-CTATTAGATAACATATTCAA
5716149 TAGATTTGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.47, C:0.17, G:0.05, T:0.32
Consensus pattern (30 bp):
ATAAAACATCTATTAGATAACATATTCAAA
Found at i:5719341 original size:65 final size:68
Alignment explanation
Indices: 5719225--5719357 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 68
5719215 TGCATAACTA
* * * * ** *
5719225 GATATGCATATCTAGAATCAATATTTCATTACCAAATATGCATATCTGATAATGTATTATGATTT
1 GATATGCATATCTAGAATCAATATTGCATTACCAAAAATACATATCCGATAACATAATATGATTT
5719290 TCG
66 TCG
*
5719293 GATATGCATATCTAGAAT-GA-A-TGCATTACCAAAAATACATATCCGATAACATAATATGATTT
1 GATATGCATATCTAGAATCAATATTGCATTACCAAAAATACATATCCGATAACATAATATGATTT
5719355 TCG
66 TCG
5719358 AAAATACATA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
65 37 0.65
66 1 0.02
67 1 0.02
68 18 0.32
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.35
Consensus pattern (68 bp):
GATATGCATATCTAGAATCAATATTGCATTACCAAAAATACATATCCGATAACATAATATGATTT
TCG
Found at i:5719613 original size:20 final size:20
Alignment explanation
Indices: 5719590--5719631 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
5719580 GATTTAATAA
* *
5719590 TTGTTTTAAAATTTTATGGT
1 TTGTTTCAAAATTTTAAGGT
5719610 TTGTTTCAAAATTTTAAGGT
1 TTGTTTCAAAATTTTAAGGT
5719630 TT
1 TT
5719632 TAATTTCAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.57
Consensus pattern (20 bp):
TTGTTTCAAAATTTTAAGGT
Found at i:5725015 original size:16 final size:15
Alignment explanation
Indices: 5724996--5725025 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
5724986 TTTTATTTCT
5724996 TTTTTATTATCTATTA
1 TTTTTATTAT-TATTA
5725012 TTTTTATTATTATT
1 TTTTTATTATTATT
5725026 TCTTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTATTATTATTA
Found at i:5725023 original size:19 final size:19
Alignment explanation
Indices: 5724995--5725039 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
5724985 TTTTTATTTC
5724995 TTTT-TTATTATCTATTAT
1 TTTTATTATTATCTATTAT
* *
5725013 TTTTATTATTATTTCTTAT
1 TTTTATTATTATCTATTAT
5725032 TTTATATT
1 TTT-TATT
5725040 TGATTTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 4 0.17
19 15 0.65
20 4 0.17
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATTATTATCTATTAT
Found at i:5725027 original size:33 final size:33
Alignment explanation
Indices: 5724974--5725036 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
5724964 ATTTCTTTTC
*
5724974 CTATTTTTTAATTTTTATTTCTT-TTTTATTAT
1 CTATTTTTTAATTATTATTTCTTATTTTATTAT
*
5725006 CTATTATTTTTATTATTATTTCTTATTTTAT
1 CTATT-TTTTAATTATTATTTCTTATTTTAT
5725037 ATTTGATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 5 0.19
33 16 0.59
34 6 0.22
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (33 bp):
CTATTTTTTAATTATTATTTCTTATTTTATTAT
Found at i:5725071 original size:22 final size:22
Alignment explanation
Indices: 5725029--5725071 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
5725019 TATTATTTCT
*
5725029 TATTTTATATTTGATTTATATA
1 TATTTTATATTTGATTAATATA
*
5725051 TATTTTTTATTT-AGTTAATAT
1 TATTTTATATTTGA-TTAATAT
5725072 TTAATGGCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (22 bp):
TATTTTATATTTGATTAATATA
Found at i:5728113 original size:11 final size:12
Alignment explanation
Indices: 5728074--5728122 Score: 64
Period size: 12 Copynumber: 4.1 Consensus size: 12
5728064 AAATTTTTTT
5728074 ATATAAAATATA
1 ATATAAAATATA
*
5728086 ATATAATAATATG
1 ATATAA-AATATA
5728099 ATAT-AAATATA
1 ATATAAAATATA
*
5728110 ATATAAAAAATA
1 ATATAAAATATA
5728122 A
1 A
5728123 AAATGATACG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
11 9 0.28
12 14 0.44
13 9 0.28
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (12 bp):
ATATAAAATATA
Found at i:5733079 original size:19 final size:18
Alignment explanation
Indices: 5733057--5733100 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
5733047 ATTTTAAATG
5733057 TTATTAAATATTTTTTATT
1 TTATTAAATA-TTTTTATT
**
5733076 TTATTATGTATTTTTATT
1 TTATTAAATATTTTTATT
5733094 TT-TTAAA
1 TTATTAAA
5733101 AATTATATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
19 8 0.38
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TTATTAAATATTTTTATT
Found at i:5733160 original size:18 final size:17
Alignment explanation
Indices: 5733112--5733162 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
5733102 ATTATATCAT
5733112 ATTAAAATTATAAATAA
1 ATTAAAATTATAAATAA
* *
5733129 ATTAATATTGATAATTAA
1 ATTAAAATT-ATAAATAA
*
5733147 TTTAAAATATATAAAT
1 ATTAAAAT-TATAAAT
5733163 CTATACATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 18 0.67
19 1 0.04
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (17 bp):
ATTAAAATTATAAATAA
Found at i:5736548 original size:50 final size:50
Alignment explanation
Indices: 5736473--5736570 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
5736463 TGTAGATGCA
** *
5736473 TTTGGAGAATGATCGAATCTCTATAAATTTTTGTGTTTGATTTCTTTACC
1 TTTGGAGAATGATCGAATCTCTATAAATCCTTGTATTTGATTTCTTTACC
* *
5736523 TTTGGAGAATGATTGAATCTTTATAAATCCTTGTATTTGATTTCTTTA
1 TTTGGAGAATGATCGAATCTCTATAAATCCTTGTATTTGATTTCTTTA
5736571 TCCATACTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.26, C:0.10, G:0.15, T:0.49
Consensus pattern (50 bp):
TTTGGAGAATGATCGAATCTCTATAAATCCTTGTATTTGATTTCTTTACC
Found at i:5736640 original size:19 final size:19
Alignment explanation
Indices: 5736618--5736656 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5736608 TTTAATTTTC
5736618 TTTATTATTGTTAATCTCA
1 TTTATTATTGTTAATCTCA
5736637 TTTATTATTGTTAATCTCA
1 TTTATTATTGTTAATCTCA
5736656 T
1 T
5736657 CAAATTTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTATTATTGTTAATCTCA
Found at i:5740640 original size:186 final size:186
Alignment explanation
Indices: 5740326--5740704 Score: 740
Period size: 186 Copynumber: 2.0 Consensus size: 186
5740316 ACAATATCAT
5740326 TATCATTTGGATCCATATGATACTGTACTAATTCAATTAGCAACCTTACGGCTCTAAGAAATTAC
1 TATCATTTGGATCCATATGATACTGTACTAATTCAATTAGCAACCTTACGGCTCTAAGAAATTAC
5740391 ACCTAAGTCATTATAATAATAGAAATTCTCACAAAAACAATAATAATTTTTGTAAAAAAAATGAA
66 ACCTAAGTCATTATAATAATAGAAATTCTCACAAAAACAATAATAATTTTTGTAAAAAAAATGAA
5740456 AAAAATTCATGAATCCATAAGCCAACATAAGACAAAAAATGATTAAGACTTATCTC
131 AAAAATTCATGAATCCATAAGCCAACATAAGACAAAAAATGATTAAGACTTATCTC
5740512 TATCATTTGGATCCATATGATACTGTACTAATTCAATTAGCAACCTTACGGCTCTAAGAAATTAC
1 TATCATTTGGATCCATATGATACTGTACTAATTCAATTAGCAACCTTACGGCTCTAAGAAATTAC
*
5740577 ACCTAAGTCCTTATAATAATAGAAATTCTCACAAAAACAATAATAATTTTTGTAAAAAAAATGAA
66 ACCTAAGTCATTATAATAATAGAAATTCTCACAAAAACAATAATAATTTTTGTAAAAAAAATGAA
5740642 AAAAATTCATGAATCCATAAGCCAACATAAGACAAAAAATGATTAAGACTTATCTC
131 AAAAATTCATGAATCCATAAGCCAACATAAGACAAAAAATGATTAAGACTTATCTC
*
5740698 AATCATT
1 TATCATT
5740705 CTTGTATGAT
Statistics
Matches: 191, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 191 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.29
Consensus pattern (186 bp):
TATCATTTGGATCCATATGATACTGTACTAATTCAATTAGCAACCTTACGGCTCTAAGAAATTAC
ACCTAAGTCATTATAATAATAGAAATTCTCACAAAAACAATAATAATTTTTGTAAAAAAAATGAA
AAAAATTCATGAATCCATAAGCCAACATAAGACAAAAAATGATTAAGACTTATCTC
Found at i:5743042 original size:22 final size:22
Alignment explanation
Indices: 5742996--5743049 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
5742986 TCCTGATGTG
*
5742996 ATGTACATATGTTATAAGTGCT
1 ATGTACATATGTTATAAGTACT
* * *
5743018 ATGTACATATTTTATTAGTATT
1 ATGTACATATGTTATAAGTACT
*
5743040 ATGGACATAT
1 ATGTACATAT
5743050 CTTTTAATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (22 bp):
ATGTACATATGTTATAAGTACT
Found at i:5750796 original size:24 final size:24
Alignment explanation
Indices: 5750764--5750809 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
5750754 CTTAAACAAA
5750764 GCCCATTTAA-AGCCCCATAAAAAT
1 GCCCATTTAAGAG-CCCATAAAAAT
*
5750788 GCCCCTTTAAGAGCCCATAAAA
1 GCCCATTTAAGAGCCCATAAAA
5750810 TACATCGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.39, C:0.30, G:0.11, T:0.20
Consensus pattern (24 bp):
GCCCATTTAAGAGCCCATAAAAAT
Found at i:5755522 original size:40 final size:40
Alignment explanation
Indices: 5755467--5755543 Score: 136
Period size: 40 Copynumber: 1.9 Consensus size: 40
5755457 TTTTTCTATA
*
5755467 TAACAGGCCACCCTTATGCATATTCTTTCATTGAACTTTG
1 TAACAGGCCACCCTTATGCATATTCTTTAATTGAACTTTG
*
5755507 TAACAGGTCACCCTTATGCATATTCTTTAATTGAACT
1 TAACAGGCCACCCTTATGCATATTCTTTAATTGAACT
5755544 CTTTTATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (40 bp):
TAACAGGCCACCCTTATGCATATTCTTTAATTGAACTTTG
Found at i:5780098 original size:146 final size:146
Alignment explanation
Indices: 5779826--5780120 Score: 414
Period size: 146 Copynumber: 2.0 Consensus size: 146
5779816 TATCTCTATG
* *
5779826 TCAACAGTAAGCTATAAGGCTTCAATAATCTTGGCAAAAAAAAAAACTATGGCATTAATAATCAA
1 TCAACAGTAAGCTATAAGGCTTCAATAATCTTGGC--AAAAAAAAACCATGGCATCAATAATCAA
** * *
5779891 TCAAGTTATTTTTTTTATTTAAAAATAATTAATTGTGTAAGCTGTATGTCAAAATACATTGACTA
64 TCAAGTTATTTTTTTTATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGACATTGACTA
* * *
5779956 GCGAACCTAAGATTTAAT
129 CCAAACCTAAAATTTAAT
* *
5779974 TCAACAGTCAA-CTATAAGGCTTCAATAATTTTGGC-AAAAATAACCATGGCATCAATAATCAAT
1 TCAACAGT-AAGCTATAAGGCTTCAATAATCTTGGCAAAAAAAAACCATGGCATCAATAATCAAT
* *
5780037 CAAGTTTTTTTTTTTAATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGATATTGACTA
65 CAAGTTATTTTTTTT-ATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGACATTGACTA
*
5780102 CCAAACTTAAAATTTAAT
129 CCAAACCTAAAATTTAAT
5780120 T
1 T
5780121 GATAATCAAT
Statistics
Matches: 131, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
145 39 0.30
146 59 0.45
148 31 0.24
149 2 0.02
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (146 bp):
TCAACAGTAAGCTATAAGGCTTCAATAATCTTGGCAAAAAAAAACCATGGCATCAATAATCAATC
AAGTTATTTTTTTTATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGACATTGACTACC
AAACCTAAAATTTAAT
Found at i:5780151 original size:92 final size:93
Alignment explanation
Indices: 5780028--5780212 Score: 345
Period size: 92 Copynumber: 2.0 Consensus size: 93
5780018 CATGGCATCA
5780028 ATAATCAATCAAGTTTTTTTTTTTAATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGA
1 ATAATCAATCAAG-TTTTTTTTTTAATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGA
5780093 TATTGACTACCAAACTTAAAATTTAATTG
65 TATTGACTACCAAACTTAAAATTTAATTG
5780122 ATAATCAATCAAG-TTTTTTTTTAATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGAT
1 ATAATCAATCAAGTTTTTTTTTTAATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGAT
*
5780186 ATTGACTACCAAACTTAAATTTTAATT
66 ATTGACTACCAAACTTAAAATTTAATT
5780213 CAATTAATTT
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
92 77 0.86
94 13 0.14
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.41
Consensus pattern (93 bp):
ATAATCAATCAAGTTTTTTTTTTAATTTAAAAATAATTAATAATGTAAGCTATATGTCAAAAGAT
ATTGACTACCAAACTTAAAATTTAATTG
Found at i:5780905 original size:33 final size:33
Alignment explanation
Indices: 5780853--5780927 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 33
5780843 AATTGATTAT
5780853 TTAATTATTTAATTTGATTATTATG-ATGTAATAA
1 TTAATTA-TTAATTTGATTA-TATGAATGTAATAA
* *
5780887 TTAATTATTCATTTGATTATATGAATGTAATAT
1 TTAATTATTAATTTGATTATATGAATGTAATAA
5780920 TTAATTAT
1 TTAATTAT
5780928 GATTGTATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 4 0.11
33 27 0.71
34 7 0.18
ACGTcount: A:0.37, C:0.01, G:0.08, T:0.53
Consensus pattern (33 bp):
TTAATTATTAATTTGATTATATGAATGTAATAA
Found at i:5784676 original size:21 final size:21
Alignment explanation
Indices: 5784650--5784691 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5784640 AAGAAAGAAA
5784650 AATAAAAGGATGTTGGGCATT
1 AATAAAAGGATGTTGGGCATT
5784671 AATAAAAGGATGTTGGGCATT
1 AATAAAAGGATGTTGGGCATT
5784692 GTCATTGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.29, T:0.29
Consensus pattern (21 bp):
AATAAAAGGATGTTGGGCATT
Done.