Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 19 of 204
Found at i:7157312 original size:15 final size:15
Alignment explanation
Indices: 7157292--7157324 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7157282 TTAGGGTTAG
7157292 AGAAAAAGAAGAAGA
1 AGAAAAAGAAGAAGA
*
7157307 AGAAAAAGAAGGAGA
1 AGAAAAAGAAGAAGA
7157322 AGA
1 AGA
7157325 GGAAAAATGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAGA
Found at i:7157725 original size:36 final size:36
Alignment explanation
Indices: 7157685--7157753 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
7157675 GTAATATTAT
*
7157685 TGCTGGTATATTGTTGCTTATGTTGTTATACATGGC
1 TGCTGGTATATTATTGCTTATGTTGTTATACATGGC
7157721 TGCTGGTATATTATTGCTTATGTTGTTATACAT
1 TGCTGGTATATTATTGCTTATGTTGTTATACAT
7157754 TATTGCTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.19, C:0.10, G:0.22, T:0.49
Consensus pattern (36 bp):
TGCTGGTATATTATTGCTTATGTTGTTATACATGGC
Found at i:7157755 original size:22 final size:22
Alignment explanation
Indices: 7157730--7157775 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
7157720 CTGCTGGTAT
7157730 ATTATTGCTTATGTTGTTATAC
1 ATTATTGCTTATGTTGTTATAC
7157752 ATTATTGCTTATGTTGTTATAC
1 ATTATTGCTTATGTTGTTATAC
7157774 AT
1 AT
7157776 GGCTGCTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (22 bp):
ATTATTGCTTATGTTGTTATAC
Found at i:7157763 original size:58 final size:58
Alignment explanation
Indices: 7157698--7157811 Score: 228
Period size: 58 Copynumber: 2.0 Consensus size: 58
7157688 TGGTATATTG
7157698 TTGCTTATGTTGTTATACATGGCTGCTGGTATATTATTGCTTATGTTGTTATACATTA
1 TTGCTTATGTTGTTATACATGGCTGCTGGTATATTATTGCTTATGTTGTTATACATTA
7157756 TTGCTTATGTTGTTATACATGGCTGCTGGTATATTATTGCTTATGTTGTTATACAT
1 TTGCTTATGTTGTTATACATGGCTGCTGGTATATTATTGCTTATGTTGTTATACAT
7157812 GGCATGGCTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.20, C:0.11, G:0.19, T:0.50
Consensus pattern (58 bp):
TTGCTTATGTTGTTATACATGGCTGCTGGTATATTATTGCTTATGTTGTTATACATTA
Found at i:7157782 original size:22 final size:22
Alignment explanation
Indices: 7157735--7157782 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
7157725 GGTATATTAT
* *
7157735 TGCTTATGTTGTTATACATTAT
1 TGCTTATGTTGTTATACATGAC
*
7157757 TGCTTATGTTGTTATACATGGC
1 TGCTTATGTTGTTATACATGAC
7157779 TGCT
1 TGCT
7157783 GGTATATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (22 bp):
TGCTTATGTTGTTATACATGAC
Found at i:7159405 original size:95 final size:92
Alignment explanation
Indices: 7159313--7159539 Score: 278
Period size: 95 Copynumber: 2.4 Consensus size: 92
7159303 ACATGCATAT
**
7159313 TATTAAAAAAATACTCGTTGCATGCATATT-AAAAAATAGCCAACAACATGTATATTAAAAAAAA
1 TATTAAAAAAATACTCACTGCATGCATATTAAAAAAATAGCCAACAACATGTATATT----AAAA
*
7159377 ACAGTCATACACACCAACAATCATTGCATGCA
62 ACAGTCATACACACCAACAATCACTGCAT-CA
* *
7159409 TATTATTAAAAAATACTCACTGCATGCATATTAAAAAAATAGTCAACAACATGTATATTAAAATC
1 TATTA--AAAAAATACTCACTGCATGCATATTAAAAAAATAGCCAACAACATGTATATTAAAAAC
7159474 AGTCATACACACCAACAATCACTGCATGCA
64 AGTCATACACACCAACAATCACTGCAT-CA
* ** *
7159504 TATT-AAAAAATAGTCAACAACATGTATATTAAAAAA
1 TATTAAAAAAATACTC-ACTGCATGCATATTAAAAAA
7159540 CATTCATACA
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
92 10 0.08
93 17 0.14
95 38 0.32
96 5 0.04
98 23 0.19
99 25 0.21
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.26
Consensus pattern (92 bp):
TATTAAAAAAATACTCACTGCATGCATATTAAAAAAATAGCCAACAACATGTATATTAAAAACAG
TCATACACACCAACAATCACTGCATCA
Found at i:7159413 original size:99 final size:95
Alignment explanation
Indices: 7159293--7159508 Score: 317
Period size: 99 Copynumber: 2.2 Consensus size: 95
7159283 ACCCTTAAAA
* * **
7159293 AACAACCATTACATGCATATTATTAAAAAAATACTCGTTGCATGCATATT-AAAAAATAGCCAAC
1 AACAATCATTGCATGCATATTATT-AAAAAATACTCACTGCATGCATATTAAAAAAATAGCCAAC
7159357 AACATGTATATTAAAAAAAAACAGTCATACACACC
65 AACATGTATATT----AAAAACAGTCATACACACC
*
7159392 AACAATCATTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAAATAGTCAACA
1 AACAATCATTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAAATAGCCAACA
*
7159457 ACATGTATATTAAAATCAGTCATACACACC
66 ACATGTATATTAAAAACAGTCATACACACC
*
7159487 AACAATCACTGCATGCATATTA
1 AACAATCATTGCATGCATATTA
7159509 AAAAATAGTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
95 39 0.36
98 23 0.21
99 47 0.43
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.26
Consensus pattern (95 bp):
AACAATCATTGCATGCATATTATTAAAAAATACTCACTGCATGCATATTAAAAAAATAGCCAACA
ACATGTATATTAAAAACAGTCATACACACC
Found at i:7159461 original size:27 final size:26
Alignment explanation
Indices: 7159403--7159471 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 26
7159393 ACAATCATTG
**
7159403 CATGCATATTATTAAAAAATACTCACTG
1 CATGCATATTA--AAAAAATACTCACAA
*
7159431 CATGCATATTAAAAAAATAGTCAACAA
1 CATGCATATTAAAAAAATACTC-ACAA
*
7159458 CATGTATATTAAAA
1 CATGCATATTAAAA
7159472 TCAGTCATAC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 10 0.28
27 15 0.42
28 11 0.31
ACGTcount: A:0.49, C:0.14, G:0.07, T:0.29
Consensus pattern (26 bp):
CATGCATATTAAAAAAATACTCACAA
Found at i:7159471 original size:26 final size:25
Alignment explanation
Indices: 7159412--7159471 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
7159402 GCATGCATAT
**
7159412 TATTAAAAAATACTCACTGCATGCA
1 TATTAAAAAATACTCACAACATGCA
* *
7159437 TATTAAAAAAATAGTCAACAACATGTA
1 TATT-AAAAAATACTC-ACAACATGCA
7159464 TATTAAAA
1 TATTAAAA
7159472 TCAGTCATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.14
26 14 0.48
27 11 0.38
ACGTcount: A:0.52, C:0.13, G:0.07, T:0.28
Consensus pattern (25 bp):
TATTAAAAAATACTCACAACATGCA
Found at i:7159503 original size:67 final size:68
Alignment explanation
Indices: 7159425--7159580 Score: 226
Period size: 67 Copynumber: 2.3 Consensus size: 68
7159415 TAAAAAATAC
* **
7159425 TCACTGCATGCATATTAAAAAAATAGTCAACAACATGTATATT-AAAATCAGTCATACACACCAA
1 TCACTGCATGCATATTAAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACAAAAA
7159489 CAA
66 CAA
*
7159492 TCACTGCATGCATATT-AAAAAATAGTCAACAACATGTATATTAAAAAACATTCATACACAAAAA
1 TCACTGCATGCATATTAAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACAAAAA
* *
7159556 TAG
66 CAA
* *
7159559 TCACTACATGCAAATTAAAAAA
1 TCACTGCATGCATATTAAAAAA
7159581 CACTCACTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
66 26 0.33
67 48 0.61
68 5 0.06
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (68 bp):
TCACTGCATGCATATTAAAAAAATAGTCAACAACATGTATATTAAAAAACAGTCATACACAAAAA
CAA
Found at i:7161278 original size:15 final size:15
Alignment explanation
Indices: 7161260--7161289 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7161250 CTTTCAAATG
*
7161260 CATCATTACCAGACA
1 CATCACTACCAGACA
7161275 CATCACTACCAGACA
1 CATCACTACCAGACA
7161290 TTTATTATTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.37, G:0.07, T:0.17
Consensus pattern (15 bp):
CATCACTACCAGACA
Found at i:7161468 original size:61 final size:62
Alignment explanation
Indices: 7161393--7161526 Score: 218
Period size: 62 Copynumber: 2.2 Consensus size: 62
7161383 CCATTTCTGT
7161393 CAGACAATAACCAATAC-AAAATAA-TTTGATACAAAAACAACCATTTCTGTCATGCACATGA
1 CAGACAATAACCAATACAAAAATAATTTTG-TACAAAAACAACCATTTCTGTCATGCACATGA
* * *
7161454 CAGACAATAACCAATACAAAAATAATTTTGTACAAACACAACCATTTTTGTCATGCACATGG
1 CAGACAATAACCAATACAAAAATAATTTTGTACAAAAACAACCATTTCTGTCATGCACATGA
7161516 CAGACAATAAC
1 CAGACAATAAC
7161527 AGACAATAAC
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
61 17 0.25
62 47 0.69
63 4 0.06
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.23
Consensus pattern (62 bp):
CAGACAATAACCAATACAAAAATAATTTTGTACAAAAACAACCATTTCTGTCATGCACATGA
Found at i:7161794 original size:6 final size:6
Alignment explanation
Indices: 7161785--7161854 Score: 77
Period size: 6 Copynumber: 11.7 Consensus size: 6
7161775 AAATAACCCT
* ** *
7161785 AAATCG AAATCA AAATCA AAATCA AAATCA AAATCA AAATTG AAATCG
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA
* **
7161833 AAATTA AAATTG AAATCA AAAT
1 AAATCA AAATCA AAATCA AAAT
7161855 TGAAATCAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 55 1.00
ACGTcount: A:0.61, C:0.11, G:0.06, T:0.21
Consensus pattern (6 bp):
AAATCA
Found at i:7161855 original size:12 final size:12
Alignment explanation
Indices: 7161763--7161862 Score: 78
Period size: 12 Copynumber: 8.5 Consensus size: 12
7161753 ATAGCAAATA
7161763 AAATCAAAATCG
1 AAATCAAAATCG
** *
7161775 AAAT--AACCCT
1 AAATCAAAATCG
* *
7161785 AAATCGAAATCA
1 AAATCAAAATCG
*
7161797 AAATCAAAATCA
1 AAATCAAAATCG
*
7161809 AAATCAAAATCA
1 AAATCAAAATCG
**
7161821 AAATTGAAATCG
1 AAATCAAAATCG
* *
7161833 AAATTAAAATTG
1 AAATCAAAATCG
*
7161845 AAATCAAAATTG
1 AAATCAAAATCG
7161857 AAATCA
1 AAATCA
7161863 GTGAGTGTTT
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
10 7 0.10
12 66 0.90
ACGTcount: A:0.59, C:0.14, G:0.06, T:0.21
Consensus pattern (12 bp):
AAATCAAAATCG
Found at i:7161860 original size:18 final size:18
Alignment explanation
Indices: 7161758--7161854 Score: 101
Period size: 18 Copynumber: 5.6 Consensus size: 18
7161748 CATTAATAGC
7161758 AAAT-AAAATCAAAATCG
1 AAATCAAAATCAAAATCG
** *
7161775 AAAT--AACCCTAAATCG
1 AAATCAAAATCAAAATCG
*
7161791 AAATCAAAATCAAAATCA
1 AAATCAAAATCAAAATCG
*
7161809 AAATCAAAATCAAAATTG
1 AAATCAAAATCAAAATCG
* * *
7161827 AAATCGAAATTAAAATTG
1 AAATCAAAATCAAAATCG
7161845 AAATCAAAAT
1 AAATCAAAAT
7161855 TGAAATCAGT
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.20
17 4 0.06
18 49 0.74
ACGTcount: A:0.61, C:0.13, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATCAAAATCAAAATCG
Found at i:7161966 original size:16 final size:16
Alignment explanation
Indices: 7161945--7161981 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7161935 ACCAAATTTG
*
7161945 AAATTGGAATAACCCT
1 AAATTGAAATAACCCT
7161961 AAATTGAAATAACCCT
1 AAATTGAAATAACCCT
7161977 AAATT
1 AAATT
7161982 CAAAAAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (16 bp):
AAATTGAAATAACCCT
Found at i:7162420 original size:21 final size:20
Alignment explanation
Indices: 7162394--7162436 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
7162384 AACGTGGCAT
*
7162394 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGACACATCAG-TG
7162415 GTTAACTTGACACATCAGTG
1 GTTAACTTGACACATCAGTG
7162435 GT
1 GT
7162437 CCCATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (20 bp):
GTTAACTTGACACATCAGTG
Found at i:7169582 original size:19 final size:19
Alignment explanation
Indices: 7169546--7169583 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7169536 TTTTTATAAG
*
7169546 GGTGTTTTTGTTTTTTGTT
1 GGTGTTTTTGTTTGTTGTT
7169565 GGTGTTTTATG-TTGTTGTT
1 GGTGTTTT-TGTTTGTTGTT
7169584 TCGATGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.88
20 2 0.12
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (19 bp):
GGTGTTTTTGTTTGTTGTT
Found at i:7186808 original size:11 final size:11
Alignment explanation
Indices: 7186792--7186817 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7186782 AGTAAAACTG
7186792 TTATGTTATTA
1 TTATGTTATTA
7186803 TTATGTTATTA
1 TTATGTTATTA
7186814 TTAT
1 TTAT
7186818 TTTAATGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (11 bp):
TTATGTTATTA
Found at i:7190526 original size:46 final size:46
Alignment explanation
Indices: 7190459--7190611 Score: 191
Period size: 46 Copynumber: 3.5 Consensus size: 46
7190449 TTTGAGTACT
*
7190459 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
7190505 TCTGATCAAGTGAAAAAGTGAT-A-----AG---T-GCTACACTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
7190541 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAGTTA
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
*
7190587 TCTGATCAAGTGACAAAGTGATAAG
1 TCTGATCAAGAGACAAAGTGATAAG
7190612 CGTGATCAAG
Statistics
Matches: 91, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
36 30 0.33
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 53 0.58
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:7190536 original size:36 final size:36
Alignment explanation
Indices: 7190495--7190567 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
7190485 GGTAGCTTTA
*
7190495 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
*
7190531 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
7190567 G
1 G
7190568 GTAGCTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGAAAAAGTGATAAGT
Found at i:7190596 original size:82 final size:82
Alignment explanation
Indices: 7190459--7190611 Score: 279
Period size: 82 Copynumber: 1.9 Consensus size: 82
7190449 TTTGAGTACT
*
7190459 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
7190524 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
* *
7190541 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
7190606 GATAAG
66 GATAAG
7190612 CGTGATCAAG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (82 bp):
TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:7190623 original size:25 final size:25
Alignment explanation
Indices: 7190589--7190636 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7190579 TACAGTTATC
7190589 TGATCAAGTGACAAAGTGATAAGCG
1 TGATCAAGTGACAAAGTGATAAGCG
7190614 TGATCAAGTGACAAAGTGATAAG
1 TGATCAAGTGACAAAGTGATAAG
7190637 TGGTAGCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (25 bp):
TGATCAAGTGACAAAGTGATAAGCG
Found at i:7190627 original size:71 final size:68
Alignment explanation
Indices: 7190543--7190679 Score: 202
Period size: 71 Copynumber: 2.0 Consensus size: 68
7190533 TACACTTATC
* * *
7190543 TGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAAGTGACAAAGTGA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGC-CTAGCTACACTTATCTGATC-AGGGAC-AAGTGA
7190608 TAAGCG
63 TAAGCG
* *
7190614 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATTTGATCAGGGACAAGTGATAA
1 TGATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
7190679 G
66 G
7190680 TGATCATACG
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
68 10 0.16
69 5 0.08
70 17 0.28
71 29 0.48
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (68 bp):
TGATCAAGAGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCTGATCAGGGACAAGTGATAA
GCG
Found at i:7193569 original size:18 final size:18
Alignment explanation
Indices: 7193542--7193577 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7193532 CTCGCAGTCC
7193542 CCATAAAAATCGTTTACA
1 CCATAAAAATCGTTTACA
*
7193560 CCATAGAAATCGTTTACA
1 CCATAAAAATCGTTTACA
7193578 ACTATCAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (18 bp):
CCATAAAAATCGTTTACA
Found at i:7198388 original size:14 final size:14
Alignment explanation
Indices: 7198349--7198412 Score: 50
Period size: 14 Copynumber: 5.0 Consensus size: 14
7198339 AAAAACCCTA
7198349 TTTTTCCTT-TTT-
1 TTTTTCCTTCTTTC
* * *
7198361 ATTTTCTTTGTTTC
1 TTTTTCCTTCTTTC
7198375 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
*
7198389 --CTT--TTCTTTC
1 TTTTTCCTTCTTTC
7198399 TTTTTCCTTCTTTC
1 TTTTTCCTTCTTTC
7198413 CTTTCTCTGT
Statistics
Matches: 39, Mismatches: 7, Indels: 10
0.70 0.12 0.18
Matches are distributed among these distances:
10 7 0.18
12 11 0.28
13 3 0.08
14 18 0.46
ACGTcount: A:0.02, C:0.23, G:0.02, T:0.73
Consensus pattern (14 bp):
TTTTTCCTTCTTTC
Found at i:7198403 original size:24 final size:24
Alignment explanation
Indices: 7198371--7198416 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
7198361 ATTTTCTTTG
7198371 TTTCTTTTTCCTTCTTTCCTTTTC
1 TTTCTTTTTCCTTCTTTCCTTTTC
7198395 TTTCTTTTTCCTTCTTTCCTTT
1 TTTCTTTTTCCTTCTTTCCTTT
7198417 CTCTGTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTCTTTTTCCTTCTTTCCTTTTC
Found at i:7198665 original size:22 final size:20
Alignment explanation
Indices: 7198640--7198680 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
7198630 AATAATATAA
7198640 TATAACATAATATAATATATTT
1 TATAA-ATAA-ATAATATATTT
*
7198662 TATAATTAAATAATATATT
1 TATAAATAAATAATATATT
7198681 AATATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 3 0.17
22 5 0.28
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAAATAAATAATATATTT
Found at i:7198666 original size:27 final size:28
Alignment explanation
Indices: 7198635--7198699 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
7198625 TACATAATAA
7198635 TATAATATAACATAATATAAT-ATAT-TT
1 TATAATATAA-ATAATATAATAATATATT
*
7198662 TATAAT-TAAATAATATATTAATATATT
1 TATAATATAAATAATATAATAATATATT
*
7198689 TAAAATATAAA
1 TATAATATAAA
7198700 AATCTAAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 9 0.27
26 7 0.21
27 13 0.39
28 4 0.12
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (28 bp):
TATAATATAAATAATATAATAATATATT
Found at i:7204239 original size:17 final size:17
Alignment explanation
Indices: 7204202--7204240 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7204192 CCATATTATT
* *
7204202 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
7204219 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
7204236 TCTTT
1 TCTTT
7204241 GGTTACCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:7204272 original size:6 final size:6
Alignment explanation
Indices: 7204255--7204298 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
7204245 ACCCTTCTTC
*
7204255 TCCCCTT TCCCCT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
7204299 GGTTTGCTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 30 0.86
7 5 0.14
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCCCCT
Found at i:7204652 original size:17 final size:18
Alignment explanation
Indices: 7204630--7204668 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
7204620 TGTAAATTCA
*
7204630 ATATA-TTTTATTAAATT
1 ATATATTTTTATTAAAAT
7204647 ATATATTTTTATTAAAAT
1 ATATATTTTTATTAAAAT
7204665 ATAT
1 ATAT
7204669 TTAATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATATATTTTTATTAAAAT
Found at i:7204858 original size:21 final size:21
Alignment explanation
Indices: 7204832--7204883 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
7204822 ACCGATGTTT
* *
7204832 CTAATCTCACTGCTACATTATC
1 CTAATCTCACAGCTACAGTA-C
7204854 C-AATCTCACAGCTACAGTAC
1 CTAATCTCACAGCTACAGTAC
7204874 CTAATCTCAC
1 CTAATCTCAC
7204884 CGCCACCGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 24 0.89
22 1 0.04
ACGTcount: A:0.31, C:0.35, G:0.06, T:0.29
Consensus pattern (21 bp):
CTAATCTCACAGCTACAGTAC
Found at i:7205998 original size:15 final size:15
Alignment explanation
Indices: 7205975--7206005 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7205965 TAAATATTTT
7205975 TATAAAATTCTAAAA
1 TATAAAATTCTAAAA
*
7205990 TATATAATTCTAAAA
1 TATAAAATTCTAAAA
7206005 T
1 T
7206006 TCTAAAAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (15 bp):
TATAAAATTCTAAAA
Found at i:7206065 original size:27 final size:26
Alignment explanation
Indices: 7206021--7206088 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 26
7206011 AAAGGTATTT
* * *
7206021 AAATTTTTAAGTTTTTTTAATTTTATA
1 AAATTTATAA-TTATTTTAACTTTATA
* * *
7206048 ATATTTATATATTATTTTCACTTTCTA
1 AAATTTATA-ATTATTTTAACTTTATA
7206075 AAATTTATAATTAT
1 AAATTTATAATTAT
7206089 ATATTTATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 5 0.15
27 27 0.82
28 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (26 bp):
AAATTTATAATTATTTTAACTTTATA
Found at i:7206114 original size:22 final size:22
Alignment explanation
Indices: 7206075--7206121 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
7206065 TCACTTTCTA
** *
7206075 AAATTTATAATTATATATTTAT
1 AAATTTATAAAAAAATATTTAT
*
7206097 AAATTTATAAAAAAATATTTTT
1 AAATTTATAAAAAAATATTTAT
7206119 AAA
1 AAA
7206122 CTTTTTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATTTATAAAAAAATATTTAT
Found at i:7206547 original size:16 final size:16
Alignment explanation
Indices: 7206526--7206562 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7206516 TTGGTTCGCT
7206526 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
*
7206542 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
7206558 GTAAT
1 GTAAT
7206563 AGCAATTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:7206593 original size:45 final size:44
Alignment explanation
Indices: 7206542--7206638 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
7206532 GAATAGAGAC
7206542 GTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAG-AATTC-ATGTGTTTGGTTGAAT
* *
7206587 GTAATGGAATAGAGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
*
7206631 GGAATGGA
1 GTAATGGA
7206639 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGAATTCATGTGTTTGGTTGAAT
Found at i:7206816 original size:18 final size:17
Alignment explanation
Indices: 7206795--7206829 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
7206785 TTATTATTAA
7206795 ATATAATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7206813 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7206830 TCTTAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7206874 original size:37 final size:37
Alignment explanation
Indices: 7206812--7206883 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
7206802 TTAATTAAAA
*
7206812 TATATAATTTAATAAAATTCTTAATAT-TAAATATTCT
1 TATATAATTTAATAAAATTCATAATATAT-AATATTCT
*
7206849 TATATGAATTTACTAAAA-TCATAATATATAATATT
1 TATAT-AATTTAATAAAATTCATAATATATAATATT
7206884 ATAAAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 19 0.61
38 12 0.39
ACGTcount: A:0.47, C:0.06, G:0.01, T:0.46
Consensus pattern (37 bp):
TATATAATTTAATAAAATTCATAATATATAATATTCT
Found at i:7211630 original size:18 final size:18
Alignment explanation
Indices: 7211607--7211647 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
7211597 CCATCACTTT
7211607 CAACAACAACACCAGCAG
1 CAACAACAACACCAGCAG
* *
7211625 CAACAACAACAGCATCAG
1 CAACAACAACACCAGCAG
7211643 CAACA
1 CAACA
7211648 GCTGTGGCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.37, G:0.10, T:0.02
Consensus pattern (18 bp):
CAACAACAACACCAGCAG
Found at i:7221348 original size:20 final size:18
Alignment explanation
Indices: 7221301--7221348 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
7221291 AAAAAACTTG
7221301 TTATTTTTGTTGTTGTTT
1 TTATTTTTGTTGTTGTTT
*
7221319 TTATTGTTTTGTTGCTATTTTT
1 TTA-T-TTTTGTTG-T-TGTTT
7221341 TTATTTTT
1 TTATTTTT
7221349 TTCACCATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 3 0.12
19 1 0.04
20 12 0.48
21 2 0.08
22 7 0.28
ACGTcount: A:0.08, C:0.02, G:0.12, T:0.77
Consensus pattern (18 bp):
TTATTTTTGTTGTTGTTT
Found at i:7229752 original size:47 final size:47
Alignment explanation
Indices: 7229683--7229775 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
7229673 CCCATTTGAA
7229683 CCTCAAGCCATTCAAGCTTCTCTGGACGCAAAAGAGAATAAAACTAT
1 CCTCAAGCCATTCAAGCTTCTCTGGACGCAAAAGAGAATAAAACTAT
7229730 CCTCAAGCCATTCAAGCTTCTCTGGACGCAAAAGAGAATAAAACTA
1 CCTCAAGCCATTCAAGCTTCTCTGGACGCAAAAGAGAATAAAACTA
7229776 GGCAAATGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.20
Consensus pattern (47 bp):
CCTCAAGCCATTCAAGCTTCTCTGGACGCAAAAGAGAATAAAACTAT
Found at i:7231896 original size:28 final size:29
Alignment explanation
Indices: 7231865--7231920 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
7231855 ATAACTTTTT
*
7231865 ATTATTTATGAAAAT-ATCCATTTTAAAA
1 ATTATGTATGAAAATGATCCATTTTAAAA
* *
7231893 ATTATGTATGTAAATGATTCATTTTAAA
1 ATTATGTATGAAAATGATCCATTTTAAA
7231921 CAGTAAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (29 bp):
ATTATGTATGAAAATGATCCATTTTAAAA
Found at i:7232187 original size:26 final size:27
Alignment explanation
Indices: 7232148--7232199 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
7232138 ATTAAATTGA
*
7232148 AATAACCTTTAAAAAATAT-TAAAAAC
1 AATAACCTTAAAAAAATATATAAAAAC
*
7232174 AATAATCTTAAAAAAATATATAAAAA
1 AATAACCTTAAAAAAATATATAAAAA
7232200 TCTTATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (27 bp):
AATAACCTTAAAAAAATATATAAAAAC
Found at i:7232669 original size:136 final size:136
Alignment explanation
Indices: 7232425--7232684 Score: 439
Period size: 136 Copynumber: 1.9 Consensus size: 136
7232415 AGTTTGTATG
** * * *
7232425 AGGTTCACAAAATTTGGGATGAGGATGCATAGTCCCTTCTCGTCCAGTGATTATGCAAAACCAAG
1 AGGTTCACAAAAACTGGGATCAGGATGCATAGTCCCTTCTCGTCCAGTGATTATGCAAAAACAAA
* *
7232490 TTTGACTGTTAGATAATATCCTATCTCAATTTTCTCTTCATAGGCCTAAAATTAATAATAGCTGA
66 TTTGACTGTTAGATAATATCCTACCTCAATTTTCTCCTCATAGGCCTAAAATTAATAATAGCTGA
7232555 AATTTT
131 AATTTT
* *
7232561 AGGTTCATAAAAACTGGGATCATGATGCATAGTCCCTTCTCGTCCAGTGATTATGCAAAAACAAA
1 AGGTTCACAAAAACTGGGATCAGGATGCATAGTCCCTTCTCGTCCAGTGATTATGCAAAAACAAA
7232626 TTTGACTGTTAGATAATATCCTACCTCAATTTTCTCCTCATAGGCCTAAAATTAATAAT
66 TTTGACTGTTAGATAATATCCTACCTCAATTTTCTCCTCATAGGCCTAAAATTAATAAT
7232685 TAGATCTTTA
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
136 115 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (136 bp):
AGGTTCACAAAAACTGGGATCAGGATGCATAGTCCCTTCTCGTCCAGTGATTATGCAAAAACAAA
TTTGACTGTTAGATAATATCCTACCTCAATTTTCTCCTCATAGGCCTAAAATTAATAATAGCTGA
AATTTT
Found at i:7233297 original size:5 final size:6
Alignment explanation
Indices: 7233281--7233306 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7233271 TTTAAAATTT
7233281 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
7233307 CATATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:7233585 original size:25 final size:23
Alignment explanation
Indices: 7233522--7233605 Score: 71
Period size: 27 Copynumber: 3.5 Consensus size: 23
7233512 TATTTTAGAT
* *
7233522 AAAATTA-AAAATTAAAAAAATA
1 AAAATTATAAATTTTAAAAAATA
* **
7233544 AAAATAATTAAACATTTTAGAAATTTA
1 AAAATTA-T-AA-ATTTTA-AAAAATA
7233571 AAAATATATAAATTTTAAAAAATA
1 AAAAT-TATAAATTTTAAAAAATA
7233595 AAAATTATAAA
1 AAAATTATAAA
7233606 AAAATTTAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
22 6 0.12
23 6 0.12
24 10 0.21
25 8 0.17
26 6 0.12
27 11 0.23
28 1 0.02
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (23 bp):
AAAATTATAAATTTTAAAAAATA
Found at i:7233606 original size:9 final size:9
Alignment explanation
Indices: 7233527--7233607 Score: 50
Period size: 9 Copynumber: 9.7 Consensus size: 9
7233517 TAGATAAAAT
7233527 TAAAAATTA
1 TAAAAATTA
7233536 -AAAAA--A
1 TAAAAATTA
*
7233542 TAAAAATAA
1 TAAAAATTA
* *
7233551 TTAAACATTT
1 -TAAAAATTA
*
7233561 TAGAAATT-
1 TAAAAATTA
7233569 TAAAAA-TA
1 TAAAAATTA
* *
7233577 TATAAATTT
1 TAAAAATTA
7233586 TAAAAA--A
1 TAAAAATTA
7233593 TAAAAATTA
1 TAAAAATTA
7233602 TAAAAA
1 TAAAAA
7233608 AATTTAATCT
Statistics
Matches: 54, Mismatches: 10, Indels: 16
0.68 0.12 0.20
Matches are distributed among these distances:
6 1 0.02
7 12 0.22
8 15 0.28
9 20 0.37
10 6 0.11
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:7233609 original size:17 final size:16
Alignment explanation
Indices: 7233522--7233610 Score: 63
Period size: 16 Copynumber: 5.4 Consensus size: 16
7233512 TATTTTAGAT
*
7233522 AAAATTAAAAA-TTAA
1 AAAAATAAAAATTTAA
7233537 AAAAATAAAAATAATTAA
1 AAAAATAAAAAT--TTAA
*** *
7233555 ACATTTTAGAAATTTAA
1 A-AAAATAAAAATTTAA
* * *
7233572 AAATATATAAATTTTA
1 AAAAATAAAAATTTAA
7233588 AAAAATAAAAATTATAA
1 AAAAATAAAAATT-TAA
7233605 AAAAAT
1 AAAAAT
7233611 TTAATCTTTT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
15 10 0.18
16 22 0.39
17 13 0.23
18 5 0.09
19 7 0.12
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (16 bp):
AAAAATAAAAATTTAA
Found at i:7233610 original size:68 final size:68
Alignment explanation
Indices: 7233476--7233608 Score: 193
Period size: 68 Copynumber: 2.0 Consensus size: 68
7233466 TTAAATCCTT
* *
7233476 AAAATAATTAAACATTTTAAAATTTTATAAATTATATATTTTAGATAAAATTAAAAATTAAAAAA
1 AAAATAATTAAACATTTTAAAATTTTAAAAATTATAAATTTTAGATAAAATTAAAAATTAAAAAA
7233541 ATA
66 ATA
7233544 AAAATAATTAAACATTTTAGAAA-TTTAAAAATATATAAATTTTA-A-AAAA-TAAAAATTATAA
1 AAAATAATTAAACATTTTA-AAATTTTAAAAAT-TATAAATTTTAGATAAAATTAAAAATTA-AA
7233605 AAAA
63 AAAA
7233609 ATTTAATCTT
Statistics
Matches: 60, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
66 9 0.15
67 10 0.17
68 28 0.47
69 13 0.22
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (68 bp):
AAAATAATTAAACATTTTAAAATTTTAAAAATTATAAATTTTAGATAAAATTAAAAATTAAAAAA
ATA
Found at i:7235237 original size:6 final size:6
Alignment explanation
Indices: 7235226--7235253 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7235216 AGTGGAATAA
7235226 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
7235254 TTTTTAACCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:7237256 original size:20 final size:20
Alignment explanation
Indices: 7237231--7237277 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
7237221 TCTTTCTCGT
7237231 TTAGTTTTCATAAACTTCAA
1 TTAGTTTTCATAAACTTCAA
7237251 TTAGTTTTCATAAACTTCAA
1 TTAGTTTTCATAAACTTCAA
7237271 TTAGTTT
1 TTAGTTT
7237278 AGCCAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.32, C:0.13, G:0.06, T:0.49
Consensus pattern (20 bp):
TTAGTTTTCATAAACTTCAA
Found at i:7240204 original size:10 final size:10
Alignment explanation
Indices: 7240186--7240266 Score: 60
Period size: 10 Copynumber: 8.1 Consensus size: 10
7240176 TATTTAATAT
*
7240186 TATAGAATTA
1 TATAAAATTA
*
7240196 TAGAAAATTA
1 TATAAAATTA
*
7240206 TATAAATATAA
1 TATAAA-ATTA
*
7240217 T-TAAAATGA
1 TATAAAATTA
*
7240226 TA-AAAATTC
1 TATAAAATTA
7240235 TATAAAATTAA
1 TATAAAATT-A
*
7240246 TAAAAAATTA
1 TATAAAATTA
7240256 TA-AAAACTTA
1 TATAAAA-TTA
7240266 T
1 T
7240267 TGAAAGTATA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
9 15 0.26
10 30 0.53
11 12 0.21
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
TATAAAATTA
Found at i:7240231 original size:29 final size:30
Alignment explanation
Indices: 7240199--7240266 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
7240189 AGAATTATAG
*
7240199 AAAATTATAT-AAATATAAT-TAAAATGATA
1 AAAATTATATAAAAT-TAATAAAAAATGATA
* *
7240228 AAAATTCTATAAAATTAATAAAAAATTATA
1 AAAATTATATAAAATTAATAAAAAATGATA
7240258 AAAACTTAT
1 AAAA-TTAT
7240267 TGAAAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 13 0.41
30 16 0.50
31 3 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (30 bp):
AAAATTATATAAAATTAATAAAAAATGATA
Found at i:7246209 original size:22 final size:21
Alignment explanation
Indices: 7246168--7246212 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
7246158 TCCAACTTAA
*
7246168 TTTAAATATAATAAATTAATT
1 TTTAAATATAATAAAATAATT
7246189 TTTAAATTATAA-ACAAATAATT
1 TTTAAA-TATAATA-AAATAATT
7246211 TT
1 TT
7246213 ATTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TTTAAATATAATAAAATAATT
Found at i:7260798 original size:31 final size:31
Alignment explanation
Indices: 7260762--7260823 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
7260752 AACGGATTCA
7260762 GAATTAATTATAATTGGGTCAAGTCTAATGT
1 GAATTAATTATAATTGGGTCAAGTCTAATGT
*
7260793 GAATTAATTATACTTGGGTCAAGTCTAATGT
1 GAATTAATTATAATTGGGTCAAGTCTAATGT
7260824 ATCATTCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (31 bp):
GAATTAATTATAATTGGGTCAAGTCTAATGT
Found at i:7265416 original size:27 final size:28
Alignment explanation
Indices: 7265386--7265452 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
7265376 ACAACTATTG
7265386 AAAAAT-AAAATAAATATAATTTTTTTA
1 AAAAATAAAAATAAATATAATTTTTTTA
* * *
7265413 AAAATTAAAAATTAATATATTTTTTTTA
1 AAAAATAAAAATAAATATAATTTTTTTA
*
7265441 AAATAACAAAAA
1 AAA-AATAAAAA
7265453 GAATTTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 5 0.15
28 22 0.67
29 6 0.18
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (28 bp):
AAAAATAAAAATAAATATAATTTTTTTA
Found at i:7265451 original size:28 final size:28
Alignment explanation
Indices: 7265392--7265451 Score: 77
Period size: 27 Copynumber: 2.1 Consensus size: 28
7265382 ATTGAAAAAT
*
7265392 AAAATAAATATAATTTTTTTAAAAATTA
1 AAAATAAATATAATTTTTTTAAAAATAA
* *
7265420 AAAATTAATAT-ATTTTTTTTAAAATAA
1 AAAATAAATATAATTTTTTTAAAAATAA
7265447 CAAAA
1 -AAAA
7265452 AGAATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATAAATATAATTTTTTTAAAAATAA
Found at i:7268835 original size:23 final size:21
Alignment explanation
Indices: 7268805--7268851 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 21
7268795 AATATTTTGA
7268805 ATAATATAAAAAATTTATAATAT
1 ATAATAT-AAAAATTTATAA-AT
*
7268828 ATAATATATAAATTTATAAAT
1 ATAATATAAAAATTTATAAAT
7268849 ATA
1 ATA
7268852 CATACATGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.22
22 11 0.48
23 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATATAAAAATTTATAAAT
Found at i:7269166 original size:18 final size:18
Alignment explanation
Indices: 7269145--7269181 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7269135 TTTTTGTTAA
7269145 TTTATATATTTTTAATTT
1 TTTATATATTTTTAATTT
7269163 TTTATATATTTTTAATTT
1 TTTATATATTTTTAATTT
7269181 T
1 T
7269182 AAAATAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTTATATATTTTTAATTT
Found at i:7269174 original size:10 final size:10
Alignment explanation
Indices: 7269145--7269176 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
7269135 TTTTTGTTAA
7269145 TTTATATATT
1 TTTATATATT
7269155 TTTA-AT-TT
1 TTTATATATT
7269163 TTTATATATT
1 TTTATATATT
7269173 TTTA
1 TTTA
7269177 ATTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 6 0.30
9 4 0.20
10 10 0.50
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTATATATT
Found at i:7269181 original size:16 final size:16
Alignment explanation
Indices: 7269141--7269182 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
7269131 TTTCTTTTTG
7269141 TTAA-TTTATATATTT
1 TTAATTTTATATATTT
7269156 TTAATTTTTTATATATTT
1 TTAA--TTTTATATATTT
7269174 TTAATTTTA
1 TTAATTTTA
7269183 AAATAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.17
16 5 0.21
18 15 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTAATTTTATATATTT
Found at i:7270571 original size:18 final size:17
Alignment explanation
Indices: 7270530--7270576 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
7270520 ATTCTTGTAG
*
7270530 AGATTAATAAGGTATAT
1 AGATTAATAAGGTAAAT
*
7270547 AGA--AATAATGTGAAAT
1 AGATTAATAAGGT-AAAT
7270563 AGATTAATAAGGTA
1 AGATTAATAAGGTA
7270577 TATGGAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 4 0.17
18 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (17 bp):
AGATTAATAAGGTAAAT
Found at i:7271400 original size:9 final size:9
Alignment explanation
Indices: 7271386--7271416 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7271376 GTTAAACGAA
7271386 TCGAGTTAT
1 TCGAGTTAT
*
7271395 TCGAGTTAA
1 TCGAGTTAT
7271404 TCGAGTTAT
1 TCGAGTTAT
7271413 TCGA
1 TCGA
7271417 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:7272901 original size:10 final size:11
Alignment explanation
Indices: 7272870--7272898 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
7272860 TGATATTAGA
7272870 GATATTTTAAT
1 GATATTTTAAT
7272881 GATATTTTAAT
1 GATATTTTAAT
7272892 GATATTT
1 GATATTT
7272899 AATTAGATAA
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:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (11 bp):
GATATTTTAAT
Found at i:7272927 original size:11 final size:11
Alignment explanation
Indices: 7272913--7272956 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
7272903 AGATAAATAT
7272913 TATTTTATTAA
1 TATTTTATTAA
*
7272924 TATTTTAATGAAA
1 TATTTT-AT-TAA
*
7272937 TATTTTATTAT
1 TATTTTATTAA
7272948 TATTTTATT
1 TATTTTATT
7272957 TAGTATATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 16 0.57
12 4 0.14
13 8 0.29
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:7274792 original size:45 final size:46
Alignment explanation
Indices: 7274725--7274812 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
7274715 ATGATGTTAC
* * * *
7274725 GTATTTAATATATTGTT-GAAAAATGGAATGTTGTTAAATTATTAT
1 GTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTATTAT
*
7274770 GTATTTAGCATATTGTTAAAAAAATGAAATATTGTTAAATTAT
1 GTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTAT
7274813 GAATTGAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 15 0.41
46 22 0.59
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (46 bp):
GTATTTAACATATTGTTAAAAAAATGAAATATTGTTAAATTATTAT
Found at i:7274898 original size:24 final size:24
Alignment explanation
Indices: 7274871--7274918 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7274861 TCGTTTTGTG
*
7274871 GCAAAGGATCAATTGA-AGACAAAT
1 GCAAAGGATAAATTGACAG-CAAAT
7274895 GCAAAGGATAAATTGACAGCAAAT
1 GCAAAGGATAAATTGACAGCAAAT
7274919 TACCCAAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.91
25 2 0.09
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.17
Consensus pattern (24 bp):
GCAAAGGATAAATTGACAGCAAAT
Found at i:7275032 original size:21 final size:21
Alignment explanation
Indices: 7275008--7275074 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
7274998 ACTCATATGA
7275008 GTTTCAGTTTAACCCTTATAG
1 GTTTCAGTTTAACCCTTATAG
* * * * *
7275029 GTTTCTGTTCATCTCTTTTTA-
1 GTTTCAGTTTAAC-CCTTATAG
* *
7275050 GCTTCAGTTTAACCCTTATGG
1 GTTTCAGTTTAACCCTTATAG
7275071 GTTT
1 GTTT
7275075 TTGTTCAGCT
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.16, C:0.19, G:0.15, T:0.49
Consensus pattern (21 bp):
GTTTCAGTTTAACCCTTATAG
Found at i:7275058 original size:42 final size:42
Alignment explanation
Indices: 7275010--7275117 Score: 144
Period size: 42 Copynumber: 2.6 Consensus size: 42
7275000 TCATATGAGT
* * ***
7275010 TTCAGTTTAACCCTTATAGGTTTCTGTTCATCTCTTTTTAGC
1 TTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTACGAGC
*
7275052 TTCAGTTTAACCCTTATGGGTTTTTGTTCAGCTCTTACGAGC
1 TTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTACGAGC
* *
7275094 TTCAGTTCAAACCTTATGGGTTTC
1 TTCAGTTTAACCCTTATGGGTTTC
7275118 ACTTATGTGC
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTACGAGC
Found at i:7278921 original size:44 final size:42
Alignment explanation
Indices: 7278858--7278997 Score: 126
Period size: 42 Copynumber: 3.3 Consensus size: 42
7278848 AATGTGTTAT
*
7278858 CGTGTAAGACCAC-GTCTGGGACATTGGCATGGATT-TGA-GATTTA
1 CGTGTAAGACC-CTATCTGGGACATTGGCAT--ATTAT-ATGA-TTA
* *
7278902 CGTGTAAGACCCTATCTGGGACATTAGCATCTTATATGATTA
1 CGTGTAAGACCCTATCTGGGACATTGGCATATTATATGATTA
* * *
7278944 CGTGTAAGACCCTATCTGGGATAGTGGCAT-TGATATTTGATTA
1 CGTGTAAGACCCTATCTGGGACATTGGCATAT--TATATGATTA
*
7278987 CTTGTAAGACC
1 CGTGTAAGACC
7278998 ACGTTTGGGA
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
41 1 0.01
42 33 0.40
43 23 0.28
44 26 0.31
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
CGTGTAAGACCCTATCTGGGACATTGGCATATTATATGATTA
Found at i:7280040 original size:2 final size:2
Alignment explanation
Indices: 7280033--7280058 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7280023 ATATTGGATG
7280033 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7280059 TAGTATGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7280312 original size:2 final size:2
Alignment explanation
Indices: 7280305--7280330 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7280295 GCTAGTGGAT
7280305 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7280331 CAAATGAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7294782 original size:14 final size:15
Alignment explanation
Indices: 7294756--7294791 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
7294746 TAGATGAAAC
7294756 TAAATAGTTAAAAAT
1 TAAATAGTTAAAAAT
*
7294771 TGAATA-TTAAAAAT
1 TAAATAGTTAAAAAT
7294785 TAAATAG
1 TAAATAG
7294792 AGCTGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (15 bp):
TAAATAGTTAAAAAT
Found at i:7297637 original size:12 final size:12
Alignment explanation
Indices: 7297602--7297640 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 12
7297592 AAACTGAAAA
7297602 AATGGAAAATTG
1 AATGGAAAATTG
7297614 AATGGTGAAAAATTG
1 AAT-G-G-AAAATTG
7297629 AATGGAAAATTG
1 AATGGAAAATTG
7297641 CATTTGATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 2 0.08
15 10 0.42
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (12 bp):
AATGGAAAATTG
Found at i:7298662 original size:9 final size:10
Alignment explanation
Indices: 7298624--7298664 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7298614 AGATAAATAT
*
7298624 TTAAAAATTA
1 TTAAGAATTA
7298634 TTAAGAATTA
1 TTAAGAATTA
7298644 -TAAGAGATTA
1 TTAAGA-ATTA
7298654 TTAA-AATTA
1 TTAAGAATTA
7298663 TT
1 TT
7298665 TTAAATTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 11 0.39
10 14 0.50
11 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
TTAAGAATTA
Found at i:7302445 original size:29 final size:30
Alignment explanation
Indices: 7302382--7302445 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
7302372 AATTTACAAT
* *
7302382 AATTAGATCAAATGAAAATTTCGTATATAA
1 AATTAGATAAAATGAAAATTTCATATATAA
* * *
7302412 AATTATATAAAATTAAAA-TTCATATATAC
1 AATTAGATAAAATGAAAATTTCATATATAA
7302441 AATTA
1 AATTA
7302446 CACATTAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 14 0.48
30 15 0.52
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (30 bp):
AATTAGATAAAATGAAAATTTCATATATAA
Found at i:7315813 original size:31 final size:31
Alignment explanation
Indices: 7315775--7315836 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
7315765 AAGAAAAAAA
7315775 ATTGAGTTATTCAATATTTTAATATTTTATG
1 ATTGAGTTATTCAATATTTTAATATTTTATG
7315806 ATTGAGTTATTCAATATTTTAATATTTTATG
1 ATTGAGTTATTCAATATTTTAATATTTTATG
7315837 TATTTTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.10, T:0.55
Consensus pattern (31 bp):
ATTGAGTTATTCAATATTTTAATATTTTATG
Found at i:7333211 original size:31 final size:31
Alignment explanation
Indices: 7333173--7333235 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
7333163 TACCACAAAT
7333173 AGAACTCTGGGTATGGTAATGGGAGAGAATC
1 AGAACTCTGGGTATGGTAATGGGAGAGAATC
7333204 AGAACTCTGGGTATGGTAATGGGAGAGAATC
1 AGAACTCTGGGTATGGTAATGGGAGAGAATC
7333235 A
1 A
7333236 TTTTTGGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.22
Consensus pattern (31 bp):
AGAACTCTGGGTATGGTAATGGGAGAGAATC
Found at i:7336461 original size:25 final size:25
Alignment explanation
Indices: 7336427--7336474 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
7336417 CTGCATTTCT
7336427 GTTGAAAAACAACAATTTAACTTCC
1 GTTGAAAAACAACAATTTAACTTCC
7336452 GTTGAAAAACAACAATTTAACTT
1 GTTGAAAAACAACAATTTAACTT
7336475 TATTTGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.08, T:0.29
Consensus pattern (25 bp):
GTTGAAAAACAACAATTTAACTTCC
Found at i:7336481 original size:25 final size:25
Alignment explanation
Indices: 7336427--7336483 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
7336417 CTGCATTTCT
*
7336427 GTTGAAAAACAACAATTTAACTTCC
1 GTTGAAAAACAACAATTTAACTTCA
*
7336452 GTTGAAAAACAACAATTTAACTTTA
1 GTTGAAAAACAACAATTTAACTTCA
*
7336477 TTTGAAA
1 GTTGAAA
7336484 TGATGAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.32
Consensus pattern (25 bp):
GTTGAAAAACAACAATTTAACTTCA
Found at i:7336880 original size:27 final size:26
Alignment explanation
Indices: 7336829--7336881 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 26
7336819 AAGTTTTTAA
7336829 TTTTTAAAAAATTTAAAAAGTTATAAC
1 TTTTTAAAAAATTTAAAAAG-TATAAC
7336856 TTTTTAAAAAAATTTAAGAAA-TATAA
1 TTTTT-AAAAAATTTAA-AAAGTATAA
7336882 AAATTATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 10 0.42
28 11 0.46
29 3 0.12
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (26 bp):
TTTTTAAAAAATTTAAAAAGTATAAC
Found at i:7340966 original size:2 final size:2
Alignment explanation
Indices: 7340961--7340993 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7340951 AGCGTGTGTT
7340961 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
7340994 AGTAAAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7375427 original size:18 final size:18
Alignment explanation
Indices: 7375393--7375428 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7375383 GAGACGGTGA
*
7375393 CCTTTAGTTTCTGCCTCT
1 CCTTTAGTTCCTGCCTCT
*
7375411 CCTTTAGTTCCTTCCTCT
1 CCTTTAGTTCCTGCCTCT
7375429 TTTTTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.36, G:0.08, T:0.50
Consensus pattern (18 bp):
CCTTTAGTTCCTGCCTCT
Found at i:7379457 original size:10 final size:11
Alignment explanation
Indices: 7379434--7379458 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
7379424 CTCTCTTTTC
7379434 TTTTTCTTATT
1 TTTTTCTTATT
7379445 TTTTTCTTATT
1 TTTTTCTTATT
7379456 TTT
1 TTT
7379459 CCATTTCCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTCTTATT
Found at i:7381144 original size:23 final size:22
Alignment explanation
Indices: 7381118--7381161 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
7381108 AATCTAATTT
7381118 TTAAAATCTAAAAAATAAAAAAA
1 TTAAAATCT-AAAAATAAAAAAA
* *
7381141 TTAAATTCTGAAAATAAAAAA
1 TTAAAATCTAAAAATAAAAAA
7381162 CAGTGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (22 bp):
TTAAAATCTAAAAATAAAAAAA
Found at i:7382531 original size:22 final size:22
Alignment explanation
Indices: 7382503--7382649 Score: 213
Period size: 22 Copynumber: 6.7 Consensus size: 22
7382493 TTTATTGTTC
*
7382503 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
7382525 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
7382547 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
7382569 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
7382591 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
7382613 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
7382635 AAACATGAGAGCTTA
1 AAACATGAGAGCTTA
7382650 TTAACACAAT
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 113 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:7385027 original size:45 final size:45
Alignment explanation
Indices: 7384960--7385047 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
7384950 AGCTTTTAAC
* * *
7384960 TCTCGCTAACTGTTTGGTGGACAACTGAGAGCTTTTAACTCTCGT
1 TCTCGCTAACTGTTTAGAGGACAACTGAGAGCTCTTAACTCTCGT
**
7385005 TCTCGCTATTTGTTTAGAGGACAACTGAGAGCTCTTAACTCTC
1 TCTCGCTAACTGTTTAGAGGACAACTGAGAGCTCTTAACTCTC
7385048 TTTAACTGTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (45 bp):
TCTCGCTAACTGTTTAGAGGACAACTGAGAGCTCTTAACTCTCGT
Found at i:7388818 original size:24 final size:23
Alignment explanation
Indices: 7388782--7388829 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
7388772 CCCCAAATTA
* *
7388782 TTTTTTTTCTTTTTTTTTTGCTT
1 TTTTTTTTCTTTTTGTTATGCTT
*
7388805 TTTTTTGTTTTTTTTGTTATGCTT
1 TTTTTT-TTCTTTTTGTTATGCTT
7388829 T
1 T
7388830 AGGAATATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.02, C:0.06, G:0.08, T:0.83
Consensus pattern (23 bp):
TTTTTTTTCTTTTTGTTATGCTT
Found at i:7388820 original size:9 final size:9
Alignment explanation
Indices: 7388783--7388822 Score: 53
Period size: 10 Copynumber: 4.2 Consensus size: 9
7388773 CCCAAATTAT
*
7388783 TTTTTTTCTT
1 TTTTTTT-TG
7388793 TTTTTTTTG
1 TTTTTTTTG
7388802 CTTTTTTTTG
1 -TTTTTTTTG
7388812 TTTTTTTTG
1 TTTTTTTTG
7388821 TT
1 TT
7388823 ATGCTTTAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 12 0.43
10 16 0.57
ACGTcount: A:0.00, C:0.05, G:0.07, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:7398090 original size:65 final size:65
Alignment explanation
Indices: 7397979--7398101 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 65
7397969 CAAAATAACA
* * * * * *
7397979 TATAAATTGTTAAGAAATTAAAAATTATATTAGAAATATGTTTGTGAGAAATATTTAAGTACATC
1 TATAAATTGTTAAGAAACTAAAAATTAAATAAGAAATATATATGTGAAAAATATTTAAGTACATC
* * *
7398044 TATAATTTGTTAAGAAACTAAAATTTAAATAATAAATATATATGTGAAAAATATTTAA
1 TATAAATTGTTAAGAAACTAAAAATTAAATAAGAAATATATATGTGAAAAATATTTAA
7398102 AAATATGAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
65 49 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (65 bp):
TATAAATTGTTAAGAAACTAAAAATTAAATAAGAAATATATATGTGAAAAATATTTAAGTACATC
Found at i:7402664 original size:25 final size:25
Alignment explanation
Indices: 7402629--7402700 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
7402619 CTCTCTCTCA
7402629 AGCCATATAACGGGAAGCTCATGT-G
1 AGCCATATAACGGGAAGCTCAT-TCG
* *
7402654 AGCCATGTAACGGGAAGCTTATTCG
1 AGCCATATAACGGGAAGCTCATTCG
**
7402679 AGCTGTATAACGGGAAGCTCAT
1 AGCCATATAACGGGAAGCTCAT
7402701 AATAGTCATA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (25 bp):
AGCCATATAACGGGAAGCTCATTCG
Found at i:7405755 original size:28 final size:28
Alignment explanation
Indices: 7405715--7405800 Score: 109
Period size: 28 Copynumber: 3.1 Consensus size: 28
7405705 TCAGCGAGAT
*
7405715 TATCTTTCAAGTAAGAGTTCGCATGAAC
1 TATCTTTCAAGTAAGAGTCCGCATGAAC
* *
7405743 TATCTTTCAAGTAGGAGTCCGCATGGAC
1 TATCTTTCAAGTAAGAGTCCGCATGAAC
* * * *
7405771 TATCTTTCAAATAAGAATCCCCAAGAAC
1 TATCTTTCAAGTAAGAGTCCGCATGAAC
7405799 TA
1 TA
7405801 ATTGATGAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (28 bp):
TATCTTTCAAGTAAGAGTCCGCATGAAC
Found at i:7407897 original size:39 final size:38
Alignment explanation
Indices: 7407855--7407929 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 38
7407845 GACATTTTAA
7407855 AAAAAGTCAA-ATAGATTTTTTTAATAAAAATATTGACT
1 AAAAAGTCAATATA-ATTTTTTTAATAAAAATATTGACT
* *
7407893 AAAAAGTCAATTTTAATTTTTTTAATGAAAATATTGA
1 AAAAAGTCAA-TATAATTTTTTTAATAAAAATATTGA
7407930 TTTTCAATCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 10 0.30
39 21 0.64
40 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (38 bp):
AAAAAGTCAATATAATTTTTTTAATAAAAATATTGACT
Found at i:7409387 original size:15 final size:15
Alignment explanation
Indices: 7409352--7409384 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7409342 TGATATAAAA
7409352 TAAATATTTCATATT
1 TAAATATTTCATATT
*
7409367 TAAATATTT-TTATT
1 TAAATATTTCATATT
7409381 TAAA
1 TAAA
7409385 ATAGGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TAAATATTTCATATT
Found at i:7412093 original size:32 final size:32
Alignment explanation
Indices: 7412033--7412095 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
7412023 GACTGTCATT
* *
7412033 ATAATTATTTTTTATCCAACAAGTTAAGGTTC
1 ATAATTAATTTTTATCCAACAAGATAAGGTTC
7412065 ATAATTAATTTTTATCCAA-ACAGATAAGGTT
1 ATAATTAATTTTTATCCAACA-AGATAAGGTT
7412096 AGGTTAAAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (32 bp):
ATAATTAATTTTTATCCAACAAGATAAGGTTC
Found at i:7426239 original size:6 final size:6
Alignment explanation
Indices: 7426228--7426253 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
7426218 TAAATAAAGA
7426228 AGGGAG AGGGAG AGGGAG AGGGAG AG
1 AGGGAG AGGGAG AGGGAG AGGGAG AG
7426254 TAGGTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:7436292 original size:6 final size:7
Alignment explanation
Indices: 7436274--7436304 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
7436264 CTTCCATTTA
7436274 ATTTTTT
1 ATTTTTT
7436281 ATTTTTT
1 ATTTTTT
7436288 ATTTTTT
1 ATTTTTT
7436295 ATTTTTT
1 ATTTTTT
7436302 ATT
1 ATT
7436305 AAATGAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:7436336 original size:21 final size:20
Alignment explanation
Indices: 7436292--7436336 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
7436282 TTTTTTATTT
* * *
7436292 TTTATTTTTTATTAAATGAG
1 TTTATTTTTTATCAAATCAC
7436312 TTTATATTTTTATCAAATCAC
1 TTTAT-TTTTTATCAAATCAC
7436333 TTTA
1 TTTA
7436337 AATTAAATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTATTTTTTATCAAATCAC
Found at i:7443118 original size:24 final size:23
Alignment explanation
Indices: 7443091--7443145 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
7443081 TTAAAATTTA
7443091 TAAAATATAAGTTATTA-TAATTGT
1 TAAAATATAA-TTATTACT-ATTGT
* *
7443115 TAAATTAT-ATTTTTACTATTGT
1 TAAAATATAATTATTACTATTGT
7443137 TAAAATATA
1 TAAAATATA
7443146 CAACTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 17 0.65
23 2 0.08
24 7 0.27
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (23 bp):
TAAAATATAATTATTACTATTGT
Found at i:7444858 original size:30 final size:32
Alignment explanation
Indices: 7444791--7444858 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
7444781 TAGGCCCGCC
*
7444791 CATATTATTTTTTATTTTAAAAATATTTATAT
1 CATATTATTTTATATTTTAAAAATATTTATAT
* *
7444823 TATATTATTTTA-ATATTTAATAAT-TTTATA-
1 CATATTATTTTATAT-TTTAAAAATATTTATAT
7444853 CATATT
1 CATATT
7444859 TTATTTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 5 0.16
31 8 0.26
32 18 0.58
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (32 bp):
CATATTATTTTATATTTTAAAAATATTTATAT
Found at i:7467145 original size:15 final size:16
Alignment explanation
Indices: 7467125--7467157 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7467115 AAATTTATTC
*
7467125 TAATTT-ATTGATTTT
1 TAATTTGATTGAATTT
7467140 TAATTTGATTGAATTT
1 TAATTTGATTGAATTT
7467156 TA
1 TA
7467158 TAAAGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (16 bp):
TAATTTGATTGAATTT
Found at i:7467778 original size:130 final size:130
Alignment explanation
Indices: 7467541--7468203 Score: 593
Period size: 130 Copynumber: 5.1 Consensus size: 130
7467531 AAAAGAATTT
* * * **
7467541 AAATTTGATTGCATAAGTTTGAGGCAACCTGAATCGAGTAATTGATGAATTTACTAAATGAGTGA
1 AAATTTGATTGCGTAAGTTTGAGGCAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
* * ** * *
7467606 TTACGCGTTCATACCAAAT-TCTAAGATAATTTGAATACTTTTTCAATTAAAGTAACCTAAAGTT
66 CTACGTGTTCATATTAAATCT-TAAGAGAATTTGAATATTTTTTCAATTAAAGTAACCTAAAGTT
7467670 A
130 A
* * ** *
7467671 TAATTTGATTGTGTAAGTTTGAGGCAACCCCAAACGAGTGATTGATAAATTTACTAAAAAAGTGA
1 AAATTTGATTGCGTAAGTTTGAGGCAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
* * * **
7467736 CTACGTGTTTATATTAAGTCTTAAGAGAATTTGAATATTTTTTCAATTAGAGTAA-CTTGAGATT
66 CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGTAACCTAAAG-TT
7467800 A
130 A
* * * *
7467801 AAATTTGGTTGCGTAAGTTTGAGACAACCTGAATCGAGTGATGATAGATAAATTTACTAAAAGAC
1 AAATTTGATTGCGTAAGTTTGAGGCAACCTGAATCGAGTGAT--T-GATAAATTTACTAAAAAAG
* * * * * * * **
7467866 TGACTATGTGTTCATATTAAATCCTAAGAGGATTTAAATACTTTTTT-AGTTAGAGTAATCTATC
63 TGACTACGTGTTCATATTAAATCTTAAGAGAATTTGAATA-TTTTTTCAATTAAAGTAACCTAAA
7467930 GTTA
127 GTTA
** * * * * **
7467934 AAATTTGATTGCGTAAGTTTGAGATAACCTGAATTGAGGGATCGATAAATTTATTAAAAAAAAAG
1 AAATTTGATTGCGTAAGTTTGAGGCAACCTGAATCGAGTGATTGATAAATTTACT-AAAAAAGTG
* * * * *
7467999 ACTACGTGTTCATATTAAATCCTAAGAGAATTTGAATATTTTTTCAATTGAAGTGACATAAGGTT
65 ACTACGTGTTCATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGTAACCTAAAGTT
7468064 A
130 A
* * * * * * * *
7468065 AAACTAGGTTGTGTAAATTTGAGGCAACCTGAATC-ATGGGATTGATAAAATTACT-AAAAGGTG
1 AAATTTGATTGCGTAAGTTTGAGGCAACCTGAATCGA-GTGATTGATAAATTTACTAAAAAAGTG
* * ** * ** * * * * *
7468128 ACTACAT-TT-ATATCAAGCCTTATGAGAATCCGAATAATTTTCCATTTAAAATAACTTAAAAGT
65 ACTACGTGTTCATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGTAACCT-AAAGT
7468191 TA
129 TA
7468193 AAATTTGATTG
1 AAATTTGATTG
7468204 TGAAATAACT
Statistics
Matches: 429, Mismatches: 93, Indels: 24
0.79 0.17 0.04
Matches are distributed among these distances:
127 34 0.08
128 16 0.04
129 15 0.03
130 155 0.36
131 97 0.23
132 1 0.00
133 102 0.24
134 9 0.02
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (130 bp):
AAATTTGATTGCGTAAGTTTGAGGCAACCTGAATCGAGTGATTGATAAATTTACTAAAAAAGTGA
CTACGTGTTCATATTAAATCTTAAGAGAATTTGAATATTTTTTCAATTAAAGTAACCTAAAGTTA
Found at i:7475591 original size:34 final size:34
Alignment explanation
Indices: 7475550--7475616 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
7475540 TAATAATCAC
* *
7475550 TTATCATACTGCTGTTTGTAATGATGTTATTTCG
1 TTATCATACTGCTATATGTAATGATGTTATTTCG
*
7475584 TTATCATACTGCTATATGTAATGGTGTTATTTC
1 TTATCATACTGCTATATGTAATGATGTTATTTC
7475617 ATTGGCTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.49
Consensus pattern (34 bp):
TTATCATACTGCTATATGTAATGATGTTATTTCG
Found at i:7487670 original size:111 final size:110
Alignment explanation
Indices: 7487545--7487754 Score: 291
Period size: 111 Copynumber: 1.9 Consensus size: 110
7487535 ACTTATCAAC
* *
7487545 TTTTTATTTATTAGTAAAAAA-ACTTTCTA-TTTAAAAAATTAAATCTTGAAACAAATTCAAAAA
1 TTTTTATTTATTAGTAAAAAACA-TTT-TACTTAAAAAAATTAAATCATGAAACAAATTCAAAAA
* *
7487608 TTAAAATTGGTCTCAAAATCTATTAAAAACAAATAGAATAAAAAGTTGA
64 TTAAAATTAGACTCAAAATCTATTAAAAA-AAA-AGAATAAAAAGTTGA
* * **
7487657 TTTTT-TTTATTAGTAAAATACATTTTACTTAAAAAAATTAAATCATGAAACAAGTTGGAAAATT
1 TTTTTATTTATTAGTAAAAAACATTTTACTTAAAAAAATTAAATCATGAAACAAATTCAAAAATT
7487721 AAAATTAGACTCAAAATCTATTAAAAAAAAAGAA
66 AAAATTAGACTCAAAATCTATTAAAAAAAAAGAA
7487755 ACTTTATCGT
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
109 4 0.05
110 5 0.06
111 73 0.83
112 6 0.07
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (110 bp):
TTTTTATTTATTAGTAAAAAACATTTTACTTAAAAAAATTAAATCATGAAACAAATTCAAAAATT
AAAATTAGACTCAAAATCTATTAAAAAAAAAGAATAAAAAGTTGA
Found at i:7491782 original size:9 final size:9
Alignment explanation
Indices: 7491753--7491789 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
7491743 TGAGTTTTCG
7491753 AATTCGAAT
1 AATTCGAAT
*
7491762 AACTCGAAT
1 AATTCGAAT
7491771 AATTCGAAT
1 AATTCGAAT
*
7491780 AATTTGAAT
1 AATTCGAAT
7491789 A
1 A
7491790 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:7492572 original size:20 final size:20
Alignment explanation
Indices: 7492534--7492572 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7492524 CGTATATAAA
*
7492534 AAATTAATAAATAAACTAAT
1 AAATTAATAAAGAAACTAAT
*
7492554 AAATTAATAAAGAAGCTAA
1 AAATTAATAAAGAAACTAA
7492573 CAAGAATCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATTAATAAAGAAACTAAT
Found at i:7493081 original size:53 final size:53
Alignment explanation
Indices: 7493001--7493109 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
7492991 TCAAACCAAT
7493001 CATCAACATGTTTACAAATTATCCATCATTCAACCATACTATCACACATTAAA
1 CATCAACATGTTTACAAATTATCCATCATTCAACCATACTATCACACATTAAA
7493054 CATCAACATGTTTACAAATTATCCATCATTCAACCATACTATCACACATTAAA
1 CATCAACATGTTTACAAATTATCCATCATTCAACCATACTATCACACATTAAA
7493107 CAT
1 CAT
7493110 GATAAGACCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.41, C:0.27, G:0.02, T:0.30
Consensus pattern (53 bp):
CATCAACATGTTTACAAATTATCCATCATTCAACCATACTATCACACATTAAA
Found at i:7494466 original size:50 final size:50
Alignment explanation
Indices: 7494351--7494749 Score: 584
Period size: 50 Copynumber: 7.8 Consensus size: 50
7494341 GATAATAACA
* ** *
7494351 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
7494402 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
7494452 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
7494502 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
7494552 TGCCAATGCCATGTCCCAGACATGGTCTTACA-GAGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG-GGACCTCTC---ATCTC--GG
* * * *
7494607 ATGTCAATGCCATGTCCTAAACATGGTCTTACATGGGACCTCTCATCTTGG
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
7494658 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
7494708 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7494750 TTATCCAAAT
Statistics
Matches: 316, Mismatches: 24, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
49 1 0.00
50 231 0.73
51 34 0.11
53 9 0.03
55 2 0.01
56 38 0.12
57 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:7494669 original size:156 final size:149
Alignment explanation
Indices: 7494351--7494749 Score: 582
Period size: 156 Copynumber: 2.6 Consensus size: 149
7494341 GATAATAACA
** * *
7494351 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCATGCCATGT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAATGCCATGT
* * *
7494416 CCCAAACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACATGGTCTT
65 CCCAGACATGGTCTTAC-AGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTT
7494481 ACATGGGACCTCTCATCTCGG
129 ACATGGGACCTCTCATCTCGG
* *
7494502 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
* * *
7494567 CCAGACATGGTCTTACAGAGGACCTCTCATGATCTCAAGGATGTCAATGCCATGTCCTAAACATG
66 CCAGACATGGTCTTACAG-GGACCTCTC---ATCTC--GG-TGCCAACGCCATGTCCCAAACATG
*
7494632 GTCTTACATGGGACCTCTCATCTTGG
124 GTCTTACATGGGACCTCTCATCTCGG
*
7494658 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
7494723 CCAGACATGGTCTTACATGGGACCTCT
66 CCAGACATGGTCTTACA-GGGACCTCT
7494750 TTATCCAAAT
Statistics
Matches: 225, Mismatches: 15, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
149 1 0.00
150 48 0.21
151 35 0.16
153 5 0.02
155 2 0.01
156 133 0.59
157 1 0.00
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.26
Consensus pattern (149 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAATGCCATGTC
CCAGACATGGTCTTACAGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAAACATGGTCTTAC
ATGGGACCTCTCATCTCGG
Found at i:7496024 original size:26 final size:26
Alignment explanation
Indices: 7495988--7496042 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
7495978 ATAAAACAGA
7495988 GTAAGCATTTAATGCTTAGTAAGTTC
1 GTAAGCATTTAATGCTTAGTAAGTTC
7496014 GTAAGCATTTAATGCTTAGTAAGTTC
1 GTAAGCATTTAATGCTTAGTAAGTTC
7496040 GTA
1 GTA
7496043 TAACATGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
GTAAGCATTTAATGCTTAGTAAGTTC
Found at i:7497438 original size:16 final size:17
Alignment explanation
Indices: 7497411--7497442 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7497401 ATATGAATTT
7497411 ATGATAATTAAATTATA
1 ATGATAATTAAATTATA
7497428 ATGAT-ATTAAATTAT
1 ATGATAATTAAATTAT
7497443 TAAATAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATGATAATTAAATTATA
Found at i:7500504 original size:9 final size:9
Alignment explanation
Indices: 7500490--7500514 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7500480 ATGAGGTAAC
7500490 ATATTATAT
1 ATATTATAT
7500499 ATATTATAT
1 ATATTATAT
7500508 ATATTAT
1 ATATTAT
7500515 GTGTAATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
ATATTATAT
Found at i:7500728 original size:235 final size:232
Alignment explanation
Indices: 7500313--7500777 Score: 709
Period size: 235 Copynumber: 2.0 Consensus size: 232
7500303 GATATAAATG
7500313 CTTAACAAATACATTCAAATAGTCATTTGAAAATATGATATTCAACATTGAATACGTAGAATATG
1 CTTAACAAATACATTCAAATAGTCATTTGAAAATATGATATTCAACATTGAATACGTAGAATATG
* * * * * * *
7500378 AGAAAGTATGTGATGTTTTTATGAGGGGGAGTAAATATGTGTTGTATTCTTTTTCCCTTAACTGA
66 AGAAAGTATGTGATGTTTTCATAAGGGGGAGTAAATATGCGCTATACTCTTTTTCCCTTAACCGA
* * * *
7500443 TGTTTTGTTCTATTAAATTTTCTTGGTAAGATTTTTAATGAGGTAACATATTATATATATTATAT
131 TGTTTTGTTCCATTAAATTTTCTTGATAAGATTTTTAATGAAGCAACATATTATATATA-T-TAT
* *
7500508 ATATTATGTGTAATCTTTTTCCTTCACTAGGATTTTTTCC
194 AGA-TATGCGTAATCTTTTTCCTTCACTAGGATTTTTTCC
* *
7500548 CTTAACAAATACATTCAAATAGTCATTTGAAAATCT-AGTATTCAAGATTGAATACGTAGAATAT
1 CTTAACAAATACATTCAAATAGTCATTTGAAAATATGA-TATTCAACATTGAATACGTAGAATAT
*
7500612 GAGAAAGTATGTGATGTTTTCATAAGGGGGAGTAAATATGCGCTATGCTCTTTTTCCCTTAACCG
65 GAGAAAGTATGTGATGTTTTCATAAGGGGGAGTAAATATGCGCTATACTCTTTTTCCCTTAACCG
*
7500677 ATGTTTT-TTCCCATTAAGTTTTCTTGATAAGATTTTTAATGAAGCAACATATTATATATATTAT
130 ATGTTTTGTT-CCATTAAATTTTCTTGATAAGATTTTTAATGAAGCAACATATTATATATATTAT
*
7500741 AGATATGCGTACTCTTTTTCCTTCACTAGGATTTTTT
194 AGATATGCGTAATCTTTTTCCTTCACTAGGATTTTTT
7500778 TTCCCACATG
Statistics
Matches: 210, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
232 32 0.15
233 5 0.02
234 4 0.02
235 169 0.80
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.42
Consensus pattern (232 bp):
CTTAACAAATACATTCAAATAGTCATTTGAAAATATGATATTCAACATTGAATACGTAGAATATG
AGAAAGTATGTGATGTTTTCATAAGGGGGAGTAAATATGCGCTATACTCTTTTTCCCTTAACCGA
TGTTTTGTTCCATTAAATTTTCTTGATAAGATTTTTAATGAAGCAACATATTATATATATTATAG
ATATGCGTAATCTTTTTCCTTCACTAGGATTTTTTCC
Found at i:7506401 original size:21 final size:22
Alignment explanation
Indices: 7506359--7506402 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
7506349 ATCTTCAAAG
*
7506359 TAATATATATTTATATAAATTT
1 TAATATATATTTACATAAATTT
* *
7506381 TAATAT-TTTTTACATAGATTT
1 TAATATATATTTACATAAATTT
7506402 T
1 T
7506403 CACTTCTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TAATATATATTTACATAAATTT
Found at i:7507030 original size:15 final size:15
Alignment explanation
Indices: 7507010--7507039 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7507000 CAATAAATAA
7507010 TCATAATTTTGAAAT
1 TCATAATTTTGAAAT
7507025 TCATAATTTTGAAAT
1 TCATAATTTTGAAAT
7507040 ATAAAATCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (15 bp):
TCATAATTTTGAAAT
Found at i:7507509 original size:20 final size:20
Alignment explanation
Indices: 7507480--7507520 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7507470 ACCCCAAACC
7507480 CTTTAATTTATACTAGTTGG
1 CTTTAATTTATACTAGTTGG
* *
7507500 CTTTAGTTTATACTGGTTGG
1 CTTTAATTTATACTAGTTGG
7507520 C
1 C
7507521 ATGATGGGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (20 bp):
CTTTAATTTATACTAGTTGG
Found at i:7507707 original size:20 final size:20
Alignment explanation
Indices: 7507682--7507720 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7507672 CAGTAAAATA
*
7507682 TTTTTTGGAAAATGATTTAT
1 TTTTTTGAAAAATGATTTAT
7507702 TTTTTTGAAAAATGATTTA
1 TTTTTTGAAAAATGATTTA
7507721 CTAGAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (20 bp):
TTTTTTGAAAAATGATTTAT
Found at i:7510082 original size:20 final size:17
Alignment explanation
Indices: 7510042--7510084 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
7510032 TTTAATCAGT
*
7510042 TTAATATTAAATTTAAT
1 TTAATATTAAATTTAAA
7510059 TTAATATTAAATCTATTAAA
1 TTAATATTAAA--T-TTAAA
7510079 TTAATA
1 TTAATA
7510085 GAATAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
19 1 0.05
20 10 0.45
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TTAATATTAAATTTAAA
Done.