Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 32 of 103
Found at i:12045860 original size:23 final size:24
Alignment explanation
Indices: 12045827--12045876 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
12045817 TAAGTAGGCC
*
12045827 TAAGGCAT-AAATGAATGATGAAAA
1 TAAGGCATAAAAT-AATGAAGAAAA
12045851 TAAGG-ATAAAATAATGAAGAAAA
1 TAAGGCATAAAATAATGAAGAAAA
12045874 TAA
1 TAA
12045877 AAATAATGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.60, C:0.02, G:0.18, T:0.20
Consensus pattern (24 bp):
TAAGGCATAAAATAATGAAGAAAA
Found at i:12045882 original size:23 final size:24
Alignment explanation
Indices: 12045835--12045882 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
12045825 CCTAAGGCAT
* **
12045835 AAATGAATGATGAAAATAAGGATA
1 AAATGAATGAAGAAAATAAAAATA
12045859 AAAT-AATGAAGAAAATAAAAATA
1 AAATGAATGAAGAAAATAAAAATA
12045882 A
1 A
12045883 TGATGATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.67, C:0.00, G:0.15, T:0.19
Consensus pattern (24 bp):
AAATGAATGAAGAAAATAAAAATA
Found at i:12047003 original size:42 final size:42
Alignment explanation
Indices: 12046945--12047078 Score: 169
Period size: 42 Copynumber: 3.2 Consensus size: 42
12046935 TTATGTGATA
* *
12046945 ATGATGACTCAACTATGTGCGTGTGGGAGTGGACATGAGCTG
1 ATGATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTG
* * * * *
12046987 ATGATGACCTAGCTATGTGCATGTGGGAGTGCACGTGAGCTA
1 ATGATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTG
* * *
12047029 ATGATGACCCAACTATGTGCGAGTAAGGAGTGCACATGAGTTG
1 ATGATGACCCAACTATGTGCGTGT-GGGAGTGCACATGAGCTG
12047072 ATGATGA
1 ATGATGA
12047079 TGGGATGGTA
Statistics
Matches: 76, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 55 0.72
43 21 0.28
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (42 bp):
ATGATGACCCAACTATGTGCGTGTGGGAGTGCACATGAGCTG
Found at i:12049213 original size:22 final size:22
Alignment explanation
Indices: 12049187--12049259 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
12049177 GTATGCATTT
**
12049187 TAAAACCTCTAGGTGTATTTTC
1 TAAAACCTCTAGGTACATTTTC
* *
12049209 TAAAACCTTTAGGTACATCTTC
1 TAAAACCTCTAGGTACATTTTC
12049231 -AAAACCTC-AGAGTACATTTTC
1 TAAAACCTCTAG-GTACATTTTC
12049252 TAAAACCT
1 TAAAACCT
12049260 TCAGTTACAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.05
21 16 0.37
22 25 0.58
ACGTcount: A:0.34, C:0.22, G:0.10, T:0.34
Consensus pattern (22 bp):
TAAAACCTCTAGGTACATTTTC
Found at i:12049235 original size:43 final size:43
Alignment explanation
Indices: 12049188--12049319 Score: 135
Period size: 43 Copynumber: 3.1 Consensus size: 43
12049178 TATGCATTTT
*
12049188 AAAACCTCTAGGTGTATTTTCTAAAACCTTTAGGTACATCTTC
1 AAAACCTCTAGGTGTATTTTCTAAAACCTTTAGGTACATCTCC
** * *
12049231 AAAACCTC-AGAGTACATTTTCTAAAACCTTCAGTTACATCTCC
1 AAAACCTCTAG-GTGTATTTTCTAAAACCTTTAGGTACATCTCC
* * * * *
12049274 AAAACCT-T-TGAGTATATCTCTAAAACCTCTAGGCACATCTCC
1 AAAACCTCTAGGTGTAT-TTTCTAAAACCTTTAGGTACATCTCC
12049316 AAAA
1 AAAA
12049320 TCTCCGAGTA
Statistics
Matches: 72, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
41 3 0.04
42 27 0.38
43 42 0.58
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (43 bp):
AAAACCTCTAGGTGTATTTTCTAAAACCTTTAGGTACATCTCC
Found at i:12049268 original size:22 final size:22
Alignment explanation
Indices: 12049203--12049269 Score: 84
Period size: 22 Copynumber: 3.1 Consensus size: 22
12049193 CTCTAGGTGT
*
12049203 ATTTTCTAAAACCTTTAGGTAC
1 ATTTTCTAAAACCTTCAGGTAC
*
12049225 ATCTTC-AAAACC-TCAGAGTAC
1 ATTTTCTAAAACCTTCAG-GTAC
*
12049246 ATTTTCTAAAACCTTCAGTTAC
1 ATTTTCTAAAACCTTCAGGTAC
12049268 AT
1 AT
12049270 CTCCAAAACC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 3 0.08
21 15 0.39
22 16 0.42
23 4 0.11
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (22 bp):
ATTTTCTAAAACCTTCAGGTAC
Found at i:12049312 original size:42 final size:42
Alignment explanation
Indices: 12049207--12049394 Score: 170
Period size: 42 Copynumber: 4.4 Consensus size: 42
12049197 AGGTGTATTT
* *
12049207 TCTAAAACCTTTAGGTACATCTTCAAAACCTCAGAGTACATTT
1 TCTAAAACC-TTAGGTACATCTCCAAAACCTCAGAGTACATTC
* ** *
12049250 TCTAAAACCTTCAGTTACATCTCCAAAACCTTTGAGTATA-TC
1 TCTAAAACCTT-AGGTACATCTCCAAAACCTCAGAGTACATTC
* * *
12049292 TCTAAAACCTCTAGGCACATCTCCAAAATCTCCGAGTACATTC
1 TCTAAAACCT-TAGGTACATCTCCAAAACCTCAGAGTACATTC
*
12049335 TC-AAAACC-TATGAGTACAT-TCTCAAAACCTCCGAGTACATTC
1 TCTAAAACCTTA-G-GTACATCTC-CAAAACCTCAGAGTACATTC
12049377 T-TATGAAACCTCTAGGTA
1 TCTA--AAACCT-TAGGTA
12049395 ACTAGCATTA
Statistics
Matches: 120, Mismatches: 14, Indels: 21
0.77 0.09 0.14
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 67 0.56
43 37 0.31
44 8 0.07
45 1 0.01
46 2 0.02
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.30
Consensus pattern (42 bp):
TCTAAAACCTTAGGTACATCTCCAAAACCTCAGAGTACATTC
Found at i:12049312 original size:85 final size:84
Alignment explanation
Indices: 12049207--12049364 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 84
12049197 AGGTGTATTT
* * * *
12049207 TCTAAAACCTTTAGGTACATCTTCAAAACCTCAGAGTACATTTTCTAAAACCT-TCAGTTACA-T
1 TCTAAAACCTCTAGGCACATCTCCAAAACCTCAGAGTACATTCTC-AAAACCTATCAG-TACATT
12049270 CTCCAAAACCTTTGAGTATATC
64 CT-CAAAACCTTTGAGTATATC
* * *
12049292 TCTAAAACCTCTAGGCACATCTCCAAAATCTCCGAGTACATTCTCAAAACCTATGAGTACATTCT
1 TCTAAAACCTCTAGGCACATCTCCAAAACCTCAGAGTACATTCTCAAAACCTATCAGTACATTCT
12049357 CAAAACCT
66 CAAAACCT
12049365 CCGAGTACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 19 0.30
85 45 0.70
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.30
Consensus pattern (84 bp):
TCTAAAACCTCTAGGCACATCTCCAAAACCTCAGAGTACATTCTCAAAACCTATCAGTACATTCT
CAAAACCTTTGAGTATATC
Found at i:12049332 original size:21 final size:21
Alignment explanation
Indices: 12049221--12049377 Score: 110
Period size: 21 Copynumber: 7.4 Consensus size: 21
12049211 AAACCTTTAG
*
12049221 GTACA-TCTTCAAAACCTCAGA
1 GTACATTC-TCAAAACCTCCGA
* *
12049242 GTACATTTTCTAAAACCTTC-A
1 GTACATTCTC-AAAACCTCCGA
**
12049263 GTTACA-TCTCCAAAACCTTTGA
1 G-TACATTCT-CAAAACCTCCGA
* *
12049285 GTATA-TCTCTAAAACCT-CTA
1 GTACATTCTC-AAAACCTCCGA
* *
12049305 GGCACA-TCTCCAAAATCTCCGA
1 -GTACATTCT-CAAAACCTCCGA
**
12049327 GTACATTCTCAAAACCTATGA
1 GTACATTCTCAAAACCTCCGA
12049348 GTACATTCTCAAAACCTCCGA
1 GTACATTCTCAAAACCTCCGA
12049369 GTACATTCT
1 GTACATTCT
12049378 TATGAAACCT
Statistics
Matches: 108, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
20 2 0.02
21 85 0.79
22 21 0.19
ACGTcount: A:0.34, C:0.28, G:0.09, T:0.29
Consensus pattern (21 bp):
GTACATTCTCAAAACCTCCGA
Found at i:12049484 original size:21 final size:22
Alignment explanation
Indices: 12049455--12049500 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
12049445 AGCAGCCTTT
*
12049455 TCTTATAAAACCTTCAAGTACA
1 TCTTATAAAACCTCCAAGTACA
12049477 TCTT-TAAAACCTCCAAGTACA
1 TCTTATAAAACCTCCAAGTACA
12049498 TCT
1 TCT
12049501 CCAAAACTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (22 bp):
TCTTATAAAACCTCCAAGTACA
Found at i:12049506 original size:21 final size:21
Alignment explanation
Indices: 12049461--12049531 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
12049451 CTTTTCTTAT
* **
12049461 AAAACCTTCAAGTACATCTTT
1 AAAACCTCCAAGTACATCTCC
12049482 AAAACCTCCAAGTACATCTCC
1 AAAACCTCCAAGTACATCTCC
* * *
12049503 AAAACTTCTAGGTACAATCTCC
1 AAAACCTCCAAGTAC-ATCTCC
12049525 AAAACCT
1 AAAACCT
12049532 TCGAGTAACT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 30 0.71
22 12 0.29
ACGTcount: A:0.39, C:0.30, G:0.06, T:0.25
Consensus pattern (21 bp):
AAAACCTCCAAGTACATCTCC
Found at i:12049661 original size:22 final size:22
Alignment explanation
Indices: 12049636--12049678 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12049626 TAAAATCTCT
* * *
12049636 GAGTGCATTTTTTAGAACCTTC
1 GAGTACATTATTTAAAACCTTC
12049658 GAGTACATTATTTAAAACCTT
1 GAGTACATTATTTAAAACCTT
12049679 TGGGTGTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (22 bp):
GAGTACATTATTTAAAACCTTC
Found at i:12063620 original size:5 final size:5
Alignment explanation
Indices: 12063607--12063646 Score: 62
Period size: 5 Copynumber: 8.0 Consensus size: 5
12063597 CGTGGCCCCT
* *
12063607 AGTTA AGTTG AGTTA AGTTA AGTTA AGTTA AGTTA TGTTA
1 AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA AGTTA
12063647 GGTTGAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (5 bp):
AGTTA
Found at i:12064474 original size:28 final size:29
Alignment explanation
Indices: 12064433--12064492 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
12064423 GTCTATGGGC
*
12064433 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
12064461 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
12064491 AA
1 AA
12064493 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:12073461 original size:29 final size:29
Alignment explanation
Indices: 12073428--12073519 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 29
12073418 TCTGATGAAC
*
12073428 ATGTATTGATACATTTTCTCCAAGACCAA
1 ATGTATCGATACATTTTCTCCAAGACCAA
*
12073457 ATGTATCGATACA---T-T----GGCC-A
1 ATGTATCGATACATTTTCTCCAAGACCAA
12073477 ATGTATCGATACATTTTCTCCAAGACCAA
1 ATGTATCGATACATTTTCTCCAAGACCAA
12073506 ATGTATCGATACAT
1 ATGTATCGATACAT
12073520 GGGCCAATGT
Statistics
Matches: 51, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
20 14 0.27
21 3 0.06
23 1 0.02
24 1 0.02
25 1 0.02
26 1 0.02
28 3 0.06
29 27 0.53
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.33
Consensus pattern (29 bp):
ATGTATCGATACATTTTCTCCAAGACCAA
Found at i:12073500 original size:49 final size:49
Alignment explanation
Indices: 12073428--12073542 Score: 212
Period size: 49 Copynumber: 2.3 Consensus size: 49
12073418 TCTGATGAAC
* *
12073428 ATGTATTGATACATTTTCTCCAAGACCAAATGTATCGATACATTGGCCA
1 ATGTATCGATACATTTTCTCCAAGACCAAATGTATCGATACATGGGCCA
12073477 ATGTATCGATACATTTTCTCCAAGACCAAATGTATCGATACATGGGCCA
1 ATGTATCGATACATTTTCTCCAAGACCAAATGTATCGATACATGGGCCA
12073526 ATGTATCGATACATTTT
1 ATGTATCGATACATTTT
12073543 GTCGATTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 64 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (49 bp):
ATGTATCGATACATTTTCTCCAAGACCAAATGTATCGATACATGGGCCA
Found at i:12077493 original size:22 final size:22
Alignment explanation
Indices: 12077468--12077511 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
12077458 TTTGATTGGT
* *
12077468 ATCAGAGCTTTTGGTTTTAAAG
1 ATCAAAGCTTTTAGTTTTAAAG
*
12077490 ATCAAAGTTTTTAGTTTTAAAG
1 ATCAAAGCTTTTAGTTTTAAAG
12077512 TCGTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (22 bp):
ATCAAAGCTTTTAGTTTTAAAG
Found at i:12077560 original size:13 final size:13
Alignment explanation
Indices: 12077542--12077567 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12077532 TCAATGTGGC
12077542 CTCTAATTAAGTT
1 CTCTAATTAAGTT
12077555 CTCTAATTAAGTT
1 CTCTAATTAAGTT
12077568 AAGTTAAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.08, T:0.46
Consensus pattern (13 bp):
CTCTAATTAAGTT
Found at i:12085889 original size:21 final size:22
Alignment explanation
Indices: 12085856--12085896 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12085846 TACCTTTTTT
*
12085856 CACTTGTTTCCTTCAATTTTCA
1 CACTTGTTCCCTTCAATTTTCA
*
12085878 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTCAATTTT
12085897 TCTGCCTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.17, C:0.27, G:0.05, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTCAATTTTCA
Found at i:12086674 original size:68 final size:64
Alignment explanation
Indices: 12086595--12086754 Score: 194
Period size: 68 Copynumber: 2.4 Consensus size: 64
12086585 GCTTGACAGA
* * * *
12086595 ATATTTATATGATGTATATTCCATATAATACATGAAATGATTAAGTATGTATAATTAATGCCATG
1 ATATGTATATGATGTATATTCCATATAATACATGAAATGATTAAGCAAGCAT-A--AATGCCATG
12086660 AGG
63 A-G
* * * *
12086663 ATATGTATATGATGTATATTCCATATACTACATGAGATGATTGAGCAAGCATAAATGTCATGAG
1 ATATGTATATGATGTATATTCCATATAATACATGAAATGATTAAGCAAGCATAAATGCCATGAG
*
12086727 ATTATGTATATGATGTAAATTCCATATA
1 A-TATGTATATGATGTATATTCCATATA
12086755 CCTTATGAGA
Statistics
Matches: 82, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
64 2 0.02
65 34 0.41
67 1 0.01
68 45 0.55
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.37
Consensus pattern (64 bp):
ATATGTATATGATGTATATTCCATATAATACATGAAATGATTAAGCAAGCATAAATGCCATGAG
Found at i:12088566 original size:38 final size:40
Alignment explanation
Indices: 12088475--12088577 Score: 138
Period size: 38 Copynumber: 2.6 Consensus size: 40
12088465 GCCCGGCTCA
* **
12088475 TGTACATCCCCCCACATCCTGCACATAGTCGGTGCCATTG
1 TGTACATCCCCCCACATCGTGCACATAGTCAATGCCATTG
* *
12088515 TGTGCATCCCCCCATATCGTGCACA-A-TCAATGCCATTG
1 TGTACATCCCCCCACATCGTGCACATAGTCAATGCCATTG
*
12088553 TGTACATCGCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
12088578 CGGGCACTAT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 32 0.58
39 1 0.02
40 22 0.40
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGTCAATGCCATTG
Found at i:12089829 original size:40 final size:42
Alignment explanation
Indices: 12089753--12089830 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
12089743 CGTTCTGTAC
* * *
12089753 GAAATGTATCGATACATTTTACCAATGTATCGATAGATGCTT
1 GAAATGTATCGATACATTTCAACAATGTATCAATAGATGCTT
*
12089795 GAAA-GTATCGATACA-TTCAATAATGTATCAATAGAT
1 GAAATGTATCGATACATTTCAACAATGTATCAATAGAT
12089831 ATGGTACAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 17 0.53
41 11 0.34
42 4 0.12
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (42 bp):
GAAATGTATCGATACATTTCAACAATGTATCAATAGATGCTT
Found at i:12091552 original size:28 final size:29
Alignment explanation
Indices: 12091522--12091676 Score: 192
Period size: 28 Copynumber: 5.4 Consensus size: 29
12091512 ACTTGTGTTT
* *
12091522 AATTAAGACAAAACACGTTATCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* * *
12091551 ATTTGAGAC-AAACATGTTTTCTTATCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
* *
12091579 GATTAAGACAGCAA-AT-TTTTCTTGTCTTA
1 AATTAAGACA-AAACATGTTTTCTTGTC-TA
12091608 AATTAAGACAAAACATGTTTTCTTGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
*
12091637 AATTAAGAC-AAACATGTTTTCATGTCTA
1 AATTAAGACAAAACATGTTTTCTTGTCTA
12091665 AATTAAGACAAA
1 AATTAAGACAAA
12091677 GATATTGTCA
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
28 60 0.56
29 35 0.33
30 12 0.11
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (29 bp):
AATTAAGACAAAACATGTTTTCTTGTCTA
Found at i:12091642 original size:58 final size:57
Alignment explanation
Indices: 12091522--12091676 Score: 190
Period size: 58 Copynumber: 2.7 Consensus size: 57
12091512 ACTTGTGTTT
* * * *
12091522 AATTAAGACAAAACACGTTATCTTGTCTAATTTGAGAC-AAACATGTTTTCTTATCTA
1 AATTAAGAC-AAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTATCTA
* *
12091579 GATTAAGACAGCAA-AT-TTTTCTTGTCTTAAATTAAGACAAAACATGTTTTCTTGTCTA
1 AATTAAGACA--AACATGTTTTCTTGTC-TAAATTAAGACAAAACATGTTTTCTTATCTA
*
12091637 AATTAAGACAAACATGTTTTCATGTCTAAATTAAGACAAA
1 AATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAA
12091677 GATATTGTCA
Statistics
Matches: 84, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
56 12 0.14
57 34 0.40
58 38 0.45
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (57 bp):
AATTAAGACAAACATGTTTTCTTGTCTAAATTAAGACAAAACATGTTTTCTTATCTA
Found at i:12091670 original size:86 final size:86
Alignment explanation
Indices: 12091513--12091674 Score: 243
Period size: 86 Copynumber: 1.9 Consensus size: 86
12091503 CGTGATAACA
* * * * *
12091513 CTTGTGTTTAATTAAGACAAAACACGTTATCTTGTCTAATTTGAGACAAACATGTTTTCTTATCT
1 CTTGTCTTAAATTAAGACAAAACACGTTATCTTGTCTAAATTAAGACAAACATGTTTTCATATCT
*
12091578 AGATTAAGACAGCAAATTTTT
66 AAATTAAGACAGCAAATTTTT
* * *
12091599 CTTGTCTTAAATTAAGACAAAACATGTTTTCTTGTCTAAATTAAGACAAACATGTTTTCATGTCT
1 CTTGTCTTAAATTAAGACAAAACACGTTATCTTGTCTAAATTAAGACAAACATGTTTTCATATCT
12091664 AAATTAAGACA
66 AAATTAAGACA
12091675 AAGATATTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 67 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (86 bp):
CTTGTCTTAAATTAAGACAAAACACGTTATCTTGTCTAAATTAAGACAAACATGTTTTCATATCT
AAATTAAGACAGCAAATTTTT
Found at i:12093038 original size:29 final size:29
Alignment explanation
Indices: 12093006--12093084 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 29
12092996 AGTTTTGTTG
* *
12093006 TCTACATTAGGACAAAACATGTTGTCTTC
1 TCTAAATTAAGACAAAACATGTTGTCTTC
* *
12093035 TCTAAATTAAGACAAAACATGTTTTCTTG
1 TCTAAATTAAGACAAAACATGTTGTCTTC
12093064 TCTAAATTAAGAC-AAACATGT
1 TCTAAATTAAGACAAAACATGT
12093085 AAAAGCTACC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 8 0.17
29 38 0.83
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.34
Consensus pattern (29 bp):
TCTAAATTAAGACAAAACATGTTGTCTTC
Found at i:12101085 original size:10 final size:11
Alignment explanation
Indices: 12101068--12101099 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
12101058 TATATCATGT
12101068 TGATATATATA
1 TGATATATATA
12101079 T-ATATATATA
1 TGATATATATA
12101089 TGA-ATATATA
1 TGATATATATA
12101099 T
1 T
12101100 TGTGCATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 18 0.90
11 2 0.10
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (11 bp):
TGATATATATA
Found at i:12101177 original size:37 final size:37
Alignment explanation
Indices: 12101124--12101205 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 37
12101114 TAATTTTGAG
12101124 TGATGATGTTGAAGTGTATGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTATGAGTAGGGAGTGCACACA
* *
12101161 TGTTGATGTTGAAGTGTGTGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTATGAGTAGGGAGTGCACACA
12101198 TGATGATG
1 TGATGATG
12101206 ATATTTCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.27, C:0.07, G:0.37, T:0.29
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTATGAGTAGGGAGTGCACACA
Found at i:12101721 original size:21 final size:21
Alignment explanation
Indices: 12101695--12101742 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
12101685 TTAGTGGGAG
12101695 ATATGCTTGAAAAACGAAAAC
1 ATATGCTTGAAAAACGAAAAC
*
12101716 ATATGCTTGAAAAACGGAAAC
1 ATATGCTTGAAAAACGAAAAC
12101737 ATATGC
1 ATATGC
12101743 AAACCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.21
Consensus pattern (21 bp):
ATATGCTTGAAAAACGAAAAC
Found at i:12113440 original size:15 final size:16
Alignment explanation
Indices: 12113420--12113460 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
12113410 CAGAGATTTT
12113420 GATTTTAAAG-CTTTG
1 GATTTTAAAGTCTTTG
*
12113435 GATTTTAAAGTTTTTG
1 GATTTTAAAGTCTTTG
12113451 G-TTTTAAAGT
1 GATTTTAAAGT
12113461 TGTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.51
Consensus pattern (16 bp):
GATTTTAAAGTCTTTG
Found at i:12113461 original size:15 final size:15
Alignment explanation
Indices: 12113416--12113461 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
12113406 AGATCAGAGA
*
12113416 TTTTGATTTTAAAG-
1 TTTTGGTTTTAAAGT
*
12113430 CTTTGGATTTTAAAGT
1 TTTTGG-TTTTAAAGT
12113446 TTTTGGTTTTAAAGT
1 TTTTGGTTTTAAAGT
12113461 T
1 T
12113462 GTTTTAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.24, C:0.02, G:0.17, T:0.57
Consensus pattern (15 bp):
TTTTGGTTTTAAAGT
Found at i:12114589 original size:28 final size:28
Alignment explanation
Indices: 12114558--12114617 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
12114548 TTTTGGAGCA
*
12114558 TAGGGGCAAAATGGTAATTTTGCCACC-C
1 TAGGGGCAAAATAGTAATTTT-CCACCAC
12114586 TAGGGGCAAAATAGTAATTTTCCACCAC
1 TAGGGGCAAAATAGTAATTTTCCACCAC
12114614 TAGG
1 TAGG
12114618 ACACCTGTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (28 bp):
TAGGGGCAAAATAGTAATTTTCCACCAC
Found at i:12117577 original size:20 final size:20
Alignment explanation
Indices: 12117540--12117579 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
12117530 CTATAAATAT
*
12117540 CTCATTTCTCCAGGAGCTTC
1 CTCATTTCTCCAGCAGCTTC
* *
12117560 CTCATTTTTCTAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
12117580 TTGTTCTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.33, G:0.12, T:0.40
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:12118266 original size:17 final size:19
Alignment explanation
Indices: 12118225--12118266 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
12118215 ATATATATAT
12118225 ATGAATATATGTTGTGCACTG
1 ATGAATATATGTTGTG--CTG
12118246 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGCTG
12118263 ATGA
1 ATGA
12118267 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (19 bp):
ATGAATATATGTTGTGCTG
Found at i:12118303 original size:37 final size:37
Alignment explanation
Indices: 12118261--12118342 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
12118251 TAATGTTGTG
12118261 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGAACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGAACACA
* *
12118298 TGATGATGTTGAAGTGTGCTAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGAACACA
*
12118335 TGCTGATG
1 TGATGATG
12118343 ATTTTGCATT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.27, C:0.10, G:0.37, T:0.27
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGAACACA
Found at i:12126399 original size:33 final size:33
Alignment explanation
Indices: 12126353--12126419 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
12126343 AAATTTGACT
*
12126353 TGTCTCCAAAACATGTATCGATAGATTTAAAAA
1 TGTCTCCAAAACATGTATCGATAGATGTAAAAA
12126386 TGTCT-CAAGAACATGTATCGATAGATGTAAAAA
1 TGTCTCCAA-AACATGTATCGATAGATGTAAAAA
12126419 T
1 T
12126420 CTATTGATAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.09
33 29 0.91
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (33 bp):
TGTCTCCAAAACATGTATCGATAGATGTAAAAA
Found at i:12135638 original size:37 final size:40
Alignment explanation
Indices: 12135597--12135698 Score: 131
Period size: 40 Copynumber: 2.6 Consensus size: 40
12135587 ATAGTGCCCG
* *
12135597 TGTGCATGATGTGGGGGGATGTACAC-AT-G-GCATTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGCA-GGATA
* *
12135634 TGTGCACGATGTGGGGGGATGCACACGATGGCGCAGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGCGCAGGATA
12135674 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
12135699 TGAGCCGGGT
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
37 24 0.43
38 2 0.04
39 3 0.05
40 27 0.48
ACGTcount: A:0.21, C:0.15, G:0.41, T:0.24
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGCGCAGGATA
Found at i:12135687 original size:40 final size:37
Alignment explanation
Indices: 12135597--12135694 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
12135587 ATAGTGCCCG
* * *
12135597 TGTGCATGATGTGGGGGGATGTACACATGGCATTGAT
1 TGTGCACGATGTGGGGGGATGCACACATGGCATGGAT
*
12135634 TGTGCACGATGTGGGGGGATGCACACGATGGCGCA-GGCT
1 TGTGCACGATGTGGGGGGATGCACAC-AT-G-GCATGGAT
12135673 ATGTGCACGATGTGGGGGGATG
1 -TGTGCACGATGTGGGGGGATG
12135695 TACATGAGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
37 24 0.45
38 2 0.04
39 3 0.06
40 24 0.45
ACGTcount: A:0.19, C:0.14, G:0.43, T:0.23
Consensus pattern (37 bp):
TGTGCACGATGTGGGGGGATGCACACATGGCATGGAT
Found at i:12136081 original size:21 final size:21
Alignment explanation
Indices: 12136038--12136083 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12136028 GTACCATAGC
* * **
12136038 TTCTCGCTGCAGCGAGATTCA
1 TTCTCGCTACAGAGAGAAACA
12136059 TTCTCGCTACAGAGAGAAACA
1 TTCTCGCTACAGAGAGAAACA
12136080 TTCT
1 TTCT
12136084 GTTTTAGGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (21 bp):
TTCTCGCTACAGAGAGAAACA
Found at i:12138703 original size:28 final size:28
Alignment explanation
Indices: 12138650--12138703 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
12138640 TTAGTTAATT
* *
12138650 TTAATTGAATAGGATTTATTTAAATTAA
1 TTAATTGAATAAGATTTAATTAAATTAA
*
12138678 TTAATT-AATAAGATTATAATTCAATT
1 TTAATTGAATAAGATT-TAATTAAATT
12138704 CCATTTCAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.46
Consensus pattern (28 bp):
TTAATTGAATAAGATTTAATTAAATTAA
Found at i:12148569 original size:25 final size:25
Alignment explanation
Indices: 12148526--12148582 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
12148516 GAAGTTGCAA
* *
12148526 CCACATATATCAACTTGTGCCCTAG
1 CCACGTATATCAACCTGTGCCCTAG
* * *
12148551 CCACGTATATCATCCTGTGGCCTTG
1 CCACGTATATCAACCTGTGCCCTAG
12148576 CCACGTA
1 CCACGTA
12148583 CATATATATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (25 bp):
CCACGTATATCAACCTGTGCCCTAG
Found at i:12149827 original size:20 final size:20
Alignment explanation
Indices: 12149777--12149820 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
12149767 ACTGGCTAAA
12149777 CTAAAACTCAAAGTGGTTTT
1 CTAAAACTCAAAGTGGTTTT
12149797 CTAAAACTCAAAGTGGTTTT
1 CTAAAACTCAAAGTGGTTTT
12149817 CTAA
1 CTAA
12149821 GGCTCAACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CTAAAACTCAAAGTGGTTTT
Found at i:12150683 original size:17 final size:17
Alignment explanation
Indices: 12150661--12150693 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12150651 AAATGAGGAT
*
12150661 TGCTCCCCTTAAGTATA
1 TGCTCCCCCTAAGTATA
12150678 TGCTCCCCCTAAGTAT
1 TGCTCCCCCTAAGTAT
12150694 GTGCCTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.33
Consensus pattern (17 bp):
TGCTCCCCCTAAGTATA
Found at i:12155220 original size:21 final size:22
Alignment explanation
Indices: 12155195--12155235 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
12155185 CCTAGGTGGA
*
12155195 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
12155216 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
12155236 ACAAAAGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:12155241 original size:22 final size:21
Alignment explanation
Indices: 12155195--12155241 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12155185 CCTAGGTGGA
* **
12155195 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGAAAAAGTGAC
12155216 AAAATTCAAGGAAACAAGTGAC
1 AAAATTCAAGGAAA-AAGTGAC
12155238 AAAA
1 AAAA
12155242 GGTAAGATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.55, C:0.09, G:0.21, T:0.15
Consensus pattern (21 bp):
AAAATTCAAGGAAAAAGTGAC
Found at i:12165883 original size:39 final size:39
Alignment explanation
Indices: 12165790--12166006 Score: 188
Period size: 39 Copynumber: 5.6 Consensus size: 39
12165780 TTAACTCAGC
* * * * *
12165790 TCATGTCCACTCCCACATCGCACATAGC-TA-AT-ATCG
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* * *
12165826 TCATGTGCACTCCTACACCCCACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* *
12165865 CCATGTGCTCTCCCACACCGTACATGGCATATATCATCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* * * *
12165904 TCACGTGCTCTCCCACACTGCACATGGCTTATATCGTCA
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* * * * * * *
12165943 TGATGTGCTCTCCCACACTGCATATGGTATACATCCTCG
1 TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
* * * *
12165982 GCGTGTGTTCTCCCACACTGCACAT
1 TCATGTGCTCTCCCACACCGCACAT
12166007 TACCGGCACT
Statistics
Matches: 148, Mismatches: 30, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
36 23 0.16
37 2 0.01
38 2 0.01
39 121 0.82
ACGTcount: A:0.24, C:0.35, G:0.14, T:0.27
Consensus pattern (39 bp):
TCATGTGCTCTCCCACACCGCACATGGCATATATCATCA
Found at i:12167176 original size:20 final size:20
Alignment explanation
Indices: 12167145--12167192 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
12167135 CATTCGAGCT
12167145 TTTCTCTTCCTTT-TTCCTTTC
1 TTTCT-TTCCTTTCTT-CTTTC
12167166 TTTCTTTCCTTTCTTCTTTC
1 TTTCTTTCCTTTCTTCTTTC
12167186 TTTCTTT
1 TTTCTTT
12167193 TTCTCACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 19 0.73
21 7 0.27
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTCTTTCCTTTCTTCTTTC
Found at i:12175285 original size:2 final size:2
Alignment explanation
Indices: 12175278--12175307 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12175268 AATGCACAAC
12175278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12175308 CAACATAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12176312 original size:35 final size:35
Alignment explanation
Indices: 12176229--12176430 Score: 196
Period size: 35 Copynumber: 5.8 Consensus size: 35
12176219 TTTCTCTCTC
* * *
12176229 AAATTTGCAGCAAAACTCTTTCTTTTTTC-TCTCA
1 AAATTTGCAGCAAAACTCTCTCTTTTTCCTTTTCA
*
12176263 AAATTCGCAGCAAAACTCTCTCTTTTTCCTTTTCA
1 AAATTTGCAGCAAAACTCTCTCTTTTTCCTTTTCA
* * *
12176298 AAATTTGCACCAAAACTCTCTCTATTTCCCTTTCA
1 AAATTTGCAGCAAAACTCTCTCTTTTTCCTTTTCA
* * * * *
12176333 AAATTTACAGCACAACTCTTTCTATTT-CTTTCCAA
1 AAATTTGCAGCAAAACTCTCTCTTTTTCCTTTTC-A
* *
12176368 AAATTTGCAGCAAAACTCTCT-TTATTTCCCTCTCA
1 AAATTTGCAGCAAAACTCTCTCTT-TTTCCTTTTCA
* *
12176403 AAGTTTACAGCACAAAGC-CTCTCTTTTT
1 AAATTTGCAGCA-AAA-CTCTCTCTTTTT
12176431 ACTCCTCTAA
Statistics
Matches: 138, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
34 31 0.22
35 91 0.66
36 13 0.09
37 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.39
Consensus pattern (35 bp):
AAATTTGCAGCAAAACTCTCTCTTTTTCCTTTTCA
Found at i:12176344 original size:70 final size:70
Alignment explanation
Indices: 12176229--12176430 Score: 239
Period size: 70 Copynumber: 2.9 Consensus size: 70
12176219 TTTCTCTCTC
* ** **
12176229 AAATTTGCAGCAAAACTCTTTCT-TTTTTCTCTCAAAATTCGCAGCAAAACTCTCTCTTTTTCCT
1 AAATTTGCAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTTTTT-CT
*
12176293 TTTC-A
65 TTCCAA
* * * * *
12176298 AAATTTGCACCAAAACTCTCTCTATTTCCCTTTCAAAATTTACAGCACAACTCTTTCTATTTCTT
1 AAATTTGCAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTTTTTCTT
12176363 TCCAA
66 TCCAA
* *
12176368 AAATTTGCAGCAAAACTCTCTTTATTTCCCTCTCAAAGTTTACAGCACAAAGC-CTCTCTTTTT
1 AAATTTGCAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAGCA-AAA-CTCTCTCTTTTT
12176431 ACTCCTCTAA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
69 26 0.23
70 74 0.67
71 10 0.09
72 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.05, T:0.39
Consensus pattern (70 bp):
AAATTTGCAGCAAAACTCTCTCTATTTCCCTCTCAAAATTTACAGCAAAACTCTCTCTTTTTCTT
TCCAA
Found at i:12179204 original size:36 final size:37
Alignment explanation
Indices: 12179133--12179271 Score: 138
Period size: 39 Copynumber: 3.7 Consensus size: 37
12179123 CTCATCTCAG
*
12179133 CTCATGTGCACTCCCACACCGCACATAGCGA-ATATC-
1 CTCATGTGCACTCCCACACCGCACATGGC-ATATATCA
* *
12179169 CTCATGTGCACTCCCACAACGCATATGGCATATATCA
1 CTCATGTGCACTCCCACACCGCACATGGCATATATCA
* * *
12179206 TCATAATGTGCTCTCCCACACCACACATGGCATATATCA
1 -C-TCATGTGCACTCCCACACCGCACATGGCATATATCA
* * *
12179245 TCACCATGTGCTCTCCCACACCACACA
1 -C-TCATGTGCACTCCCACACCGCACA
12179272 CGACCGACAC
Statistics
Matches: 89, Mismatches: 10, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
35 1 0.01
36 31 0.35
38 1 0.01
39 56 0.63
ACGTcount: A:0.29, C:0.37, G:0.12, T:0.22
Consensus pattern (37 bp):
CTCATGTGCACTCCCACACCGCACATGGCATATATCA
Found at i:12180875 original size:3 final size:3
Alignment explanation
Indices: 12180867--12180926 Score: 56
Period size: 3 Copynumber: 20.7 Consensus size: 3
12180857 TACGTATACC
* *
12180867 CAT CAT CAT CAT GCA- CAT CAT C-C CAT CAT CAT CAT ACA- CAC CAT
1 CAT CAT CAT CAT -CAT CAT CAT CAT CAT CAT CAT CAT -CAT CAT CAT
12180911 CA- CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CA
12180927 CCAGCTCATG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
2 7 0.15
3 37 0.77
4 4 0.08
ACGTcount: A:0.35, C:0.38, G:0.02, T:0.25
Consensus pattern (3 bp):
CAT
Found at i:12180926 original size:26 final size:23
Alignment explanation
Indices: 12180865--12180924 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
12180855 TGTACGTATA
* *
12180865 CCCATCATCATCATGCACATCAT
1 CCCATCATCATCATACACACCAT
12180888 CCCATCATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
12180911 CACATCATCATCAT
1 CCCATCATCATCAT
12180925 CACCAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.33, C:0.40, G:0.02, T:0.25
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:12180987 original size:43 final size:43
Alignment explanation
Indices: 12180938--12181041 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
12180928 CAGCTCATGT
* * *
12180938 GCACTCCCTACTCGCACAC-AGCTGGGCCATCAC-CGGGTTATGC
1 GCACTCCCTACTCGCACACAATC-AGGCCATC-CTCGGCTTATGC
* * *
12180981 GTACTCCCTACTCGCACATAATCAGGTCATCCTCGGCTTATGC
1 GCACTCCCTACTCGCACACAATCAGGCCATCCTCGGCTTATGC
12181024 GCACTCCCTACTCGCACA
1 GCACTCCCTACTCGCACA
12181042 TAGCCGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 49 0.94
44 2 0.04
ACGTcount: A:0.20, C:0.39, G:0.18, T:0.22
Consensus pattern (43 bp):
GCACTCCCTACTCGCACACAATCAGGCCATCCTCGGCTTATGC
Found at i:12183081 original size:15 final size:15
Alignment explanation
Indices: 12183045--12183090 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
12183035 TAAGCTTTTC
*
12183045 TCTTCTTTTTTCC--
1 TCTTCTTTCTTCCTT
*
12183058 TCTTTTTTCTTCCTT
1 TCTTCTTTCTTCCTT
12183073 TCTTCTTTCTTCCTT
1 TCTTCTTTCTTCCTT
12183088 TCT
1 TCT
12183091 CTCTCCTAGG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 11 0.39
15 17 0.61
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (15 bp):
TCTTCTTTCTTCCTT
Found at i:12187360 original size:65 final size:65
Alignment explanation
Indices: 12187286--12187410 Score: 191
Period size: 65 Copynumber: 1.9 Consensus size: 65
12187276 TCCTTGCCAA
*
12187286 CATCATAATCATCATCATAC-AA-TAGGCAGGAATCACAAGTGAGAGAAAACCACCATCCCTGTC
1 CATCATAATCATCAT--TACAAAGTAGGCAGGAATCACAAGTGAGACAAAACCACCATCCCTGTC
12187349 AG
64 AG
* *
12187351 CATCTTAATCATCATTACAAAGTAGGCGGGAATCACAAGTGAGACAAAACCACCATCCCT
1 CATCATAATCATCATTACAAAGTAGGCAGGAATCACAAGTGAGACAAAACCACCATCCCT
12187411 ACTTACCACT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
63 3 0.05
64 2 0.04
65 50 0.91
ACGTcount: A:0.39, C:0.26, G:0.15, T:0.19
Consensus pattern (65 bp):
CATCATAATCATCATTACAAAGTAGGCAGGAATCACAAGTGAGACAAAACCACCATCCCTGTCAG
Found at i:12187424 original size:16 final size:16
Alignment explanation
Indices: 12187399--12187429 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12187389 GTGAGACAAA
12187399 ACCACCATCCCTACTT
1 ACCACCATCCCTACTT
*
12187415 ACCACTATCCCTACT
1 ACCACCATCCCTACT
12187430 AACATCATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.48, G:0.00, T:0.26
Consensus pattern (16 bp):
ACCACCATCCCTACTT
Found at i:12194360 original size:25 final size:26
Alignment explanation
Indices: 12194332--12194387 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
12194322 TGGGCTCTTT
12194332 CCATTTC-TTTCTAATTGGGCCATGC
1 CCATTTCTTTTCTAATTGGGCCATGC
* *
12194357 CCA-TTCTTTTCTTATTGGGCCATGT
1 CCATTTCTTTTCTAATTGGGCCATGC
12194382 CCATTT
1 CCATTT
12194388 ATATGCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 3 0.11
25 22 0.81
26 2 0.07
ACGTcount: A:0.14, C:0.27, G:0.14, T:0.45
Consensus pattern (26 bp):
CCATTTCTTTTCTAATTGGGCCATGC
Found at i:12194417 original size:5 final size:5
Alignment explanation
Indices: 12194407--12194465 Score: 55
Period size: 5 Copynumber: 11.2 Consensus size: 5
12194397 TATATATATA
* * * *
12194407 TTTTC TTTTC TTTTC TCTTC TTTTC TTTCC TTTTTT TTTTC TTTTG TTTCTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTT-TC
12194459 TCTTTC T
1 T-TTTC T
12194466 CTTCCTCCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
5 33 0.77
6 8 0.19
7 2 0.05
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTC
Found at i:12194657 original size:33 final size:33
Alignment explanation
Indices: 12194619--12194682 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
12194609 CAGCAACTAA
12194619 AGCTGCTC-ATATCCACATCAAAATTAGCAGCCC
1 AGCTGCTCTATATCCAC-TCAAAATTAGCAGCCC
* **
12194652 AGCTGCTCTATTTCTTCTCAAAATTAGCAGC
1 AGCTGCTCTATATCCACTCAAAATTAGCAGC
12194683 TAAACTGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.30, C:0.30, G:0.12, T:0.28
Consensus pattern (33 bp):
AGCTGCTCTATATCCACTCAAAATTAGCAGCCC
Found at i:12194767 original size:35 final size:35
Alignment explanation
Indices: 12194728--12194808 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
12194718 CAAAGCTATA
*
12194728 AAAATTAGCAACCAAAA-TCGCACCTTTCAGCCTTC
1 AAAATCAGCAACCAAAACT-GCACCTTTCAGCCTTC
*
12194763 AAAATCAGCAACCAAAACTGCACCTTTTAGCCTTC
1 AAAATCAGCAACCAAAACTGCACCTTTCAGCCTTC
12194798 AAAATCAGCAA
1 AAAATCAGCAA
12194809 TTAAAGCTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 42 0.98
36 1 0.02
ACGTcount: A:0.41, C:0.30, G:0.09, T:0.21
Consensus pattern (35 bp):
AAAATCAGCAACCAAAACTGCACCTTTCAGCCTTC
Found at i:12203159 original size:28 final size:29
Alignment explanation
Indices: 12203113--12203175 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
12203103 TTAATTTCGA
*
12203113 CATTTTTTCAACCATAGGGGCAAAATAGT
1 CATTTTTCCAACCATAGGGGCAAAATAGT
* *
12203142 CATTTTTCCACCCA-AGGGGCAAAATTGT
1 CATTTTTCCAACCATAGGGGCAAAATAGT
*
12203170 AATTTT
1 CATTTT
12203176 ACACCACCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (29 bp):
CATTTTTCCAACCATAGGGGCAAAATAGT
Found at i:12203185 original size:30 final size:28
Alignment explanation
Indices: 12203128--12203186 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 28
12203118 TTTCAACCAT
* *
12203128 AGGGGCAAAATAGTCATTTTTCCACCCA
1 AGGGGCAAAATAGTAATTTTACCACCCA
*
12203156 AGGGGCAAAATTGTAATTTTACACCACCCA
1 AGGGGCAAAATAGTAATTTT--ACCACCCA
12203186 A
1 A
12203187 CATTTGTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.69
30 8 0.31
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (28 bp):
AGGGGCAAAATAGTAATTTTACCACCCA
Found at i:12213590 original size:74 final size:74
Alignment explanation
Indices: 12213464--12213612 Score: 255
Period size: 74 Copynumber: 2.0 Consensus size: 74
12213454 CTTTTCAATG
*
12213464 TTTCTCTCTCATTATTTCCTCCTTGCCTTGTTCTTACATTCAAATAACATTTCAAGGCATGTTTG
1 TTTCTCTCTCATTATTTCCTCCTTGCCTTGTTCCTACATTCAAATAACATTTCAAGGCATGTTTG
12213529 CTCTTACAT
66 CTCTTACAT
*
12213538 TTTCTCTCT-AGTTATTTCCTCCTTGCCTTGTTCCTACATTCAAATAATATTTCAAGGCATGTTT
1 TTTCTCTCTCA-TTATTTCCTCCTTGCCTTGTTCCTACATTCAAATAACATTTCAAGGCATGTTT
*
12213602 GCTTTTACAT
65 GCTCTTACAT
12213612 T
1 T
12213613 CTTAGTTGAA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
73 1 0.01
74 70 0.99
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.47
Consensus pattern (74 bp):
TTTCTCTCTCATTATTTCCTCCTTGCCTTGTTCCTACATTCAAATAACATTTCAAGGCATGTTTG
CTCTTACAT
Found at i:12215326 original size:28 final size:29
Alignment explanation
Indices: 12215254--12215326 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
12215244 AGTCAAACCG
* *
12215254 AAATTTTCACTATCCAGGGGCAAAATGGT
1 AAATTTTCACCATCGAGGGGCAAAATGGT
12215283 -AATTTTGCCACC-TCGA-GGGC-AAATAGGT
1 AAATTTT--CACCATCGAGGGGCAAAAT-GGT
12215311 AAATTTTCACCATCGA
1 AAATTTTCACCATCGA
12215327 CACTTGTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
27 8 0.22
28 17 0.46
29 9 0.24
30 3 0.08
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (29 bp):
AAATTTTCACCATCGAGGGGCAAAATGGT
Found at i:12216474 original size:17 final size:17
Alignment explanation
Indices: 12216435--12216475 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
12216425 ATCCTTATGT
* *
12216435 TTTATAAGTAAAATGTG
1 TTTATAAATAAAATGAG
12216452 -TT-TAAATAAAATGAG
1 TTTATAAATAAAATGAG
12216467 TTTATAAAT
1 TTTATAAAT
12216476 TGTCTTGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.55
16 4 0.20
17 5 0.25
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTATAAATAAAATGAG
Found at i:12218168 original size:46 final size:46
Alignment explanation
Indices: 12218117--12218215 Score: 191
Period size: 46 Copynumber: 2.2 Consensus size: 46
12218107 CTTGCCACAC
12218117 TCTATCTAGTGGCCAATTTATCTACAAATGGTACATAATGGTCGAG
1 TCTATCTAGTGGCCAATTTATCTACAAATGGTACATAATGGTCGAG
12218163 TCTATCTAGTGGCCAATTTATCTACAAATGGTACATAATGGTCGAG
1 TCTATCTAGTGGCCAATTTATCTACAAATGGTACATAATGGTCGAG
12218209 TC-ATCTA
1 TCTATCTA
12218216 ATATTCAGTG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 5 0.09
46 48 0.91
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (46 bp):
TCTATCTAGTGGCCAATTTATCTACAAATGGTACATAATGGTCGAG
Found at i:12220188 original size:28 final size:28
Alignment explanation
Indices: 12220081--12220354 Score: 273
Period size: 28 Copynumber: 9.5 Consensus size: 28
12220071 CAGTTTTTAT
**
12220081 ATGTTTGTCTTAATTTAGGGAAGAAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAC
* * *
12220109 ATGTTTTGTCATAA-TT-CACAACAAAAC
1 ATG-TTTGTCTTAATTTAGACAAGAAAAC
* * *
12220136 ATGTTTTGTCCTAATTCAGACAAGACAAC
1 ATG-TTTGTCTTAATTTAGACAAGAAAAC
*
12220165 ATGTTTGTCTTAATTTAGATAAGAAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAC
*
12220193 ATGTTTTGTCTTAATTTAGACAAAAAAAC
1 ATG-TTTGTCTTAATTTAGACAAGAAAAC
12220222 ATGTTTGTCTTAATTTAGACAAGAAAAC
1 ATGTTTGTCTTAATTTAGACAAGAAAAC
* * *
12220250 ATGCTTGTCTTAATTTAAAACAAGAAAAAT
1 ATGTTTGTCTTAATTT-AGACAAG-AAAAC
* * * *
12220280 ATGTTTTGACTTAATCTAAACAAAAAAAAC
1 ATG-TTTGTCTTAATTTAGAC-AAGAAAAC
* *
12220310 ATGTTTGTCTCAATATTAGACAAGATAAC
1 ATGTTTGTCTTAAT-TTAGACAAGAAAAC
*
12220339 ATTTTTTGTCTTAATT
1 A-TGTTTGTCTTAATT
12220355 AAAGACAATA
Statistics
Matches: 203, Mismatches: 33, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
27 20 0.10
28 69 0.34
29 69 0.34
30 33 0.16
31 12 0.06
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (28 bp):
ATGTTTGTCTTAATTTAGACAAGAAAAC
Found at i:12220201 original size:57 final size:57
Alignment explanation
Indices: 12220104--12220354 Score: 206
Period size: 57 Copynumber: 4.4 Consensus size: 57
12220094 TTTAGGGAAG
* * * *
12220104 AAAACATGTTTTGTCATAA-TT-CACAACAAAACATGTTTTGTCCTAATTCAGACAAG
1 AAAACATG-TTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCCTAATTCAGACAAA
* * * *
12220160 ACAACATGTTTGTCTTAATTTAGATAAGAAAACATGTTTTGTCTTAATTTAGACAAA
1 AAAACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCCTAATTCAGACAAA
* * * *
12220217 AAAACATGTTTGTCTTAATTTAGACAAGAAAACATG-CTTGTCTTAATTTAAAACAAGA
1 AAAACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCCTAA-TTCAGACAA-A
* * * * * * *
12220275 AAAATATGTTTTGACTTAATCTAAACAAAAAAAACATG-TTTGT-CTCAATATTAGACAAG
1 AAAACATG-TTTGTCTTAATTTAGAC-AAGAAAACATGTTTTGTCCT-AAT-TCAGACAAA
* *
12220334 ATAACATTTTTTGTCTTAATT
1 AAAACA-TGTTTGTCTTAATT
12220355 AAAGACAATA
Statistics
Matches: 158, Mismatches: 28, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
55 9 0.06
56 18 0.11
57 70 0.44
58 8 0.05
59 30 0.19
60 23 0.15
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (57 bp):
AAAACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTTGTCCTAATTCAGACAAA
Found at i:12226459 original size:38 final size:39
Alignment explanation
Indices: 12226408--12226510 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
12226398 ATAGTGCCCG
* * *
12226408 TGTGCACTATGTGGGGGGAAGCACTCGATG-GCACAAAT-
1 TGTGCACGATGTGGGGGGATGCACT-GATGACCACAAATA
* **
12226446 TGTGCACGATGTGGGGGGATGCACATGATGACCCCAGCTA
1 TGTGCACGATGTGGGGGGATGCAC-TGATGACCACAAATA
12226486 TGTGCACGATGTGGGGGGATGCACT
1 TGTGCACGATGTGGGGGGATGCACT
12226511 TGAGCTAGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
38 26 0.46
39 6 0.11
40 24 0.43
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.21
Consensus pattern (39 bp):
TGTGCACGATGTGGGGGGATGCACTGATGACCACAAATA
Found at i:12227856 original size:63 final size:61
Alignment explanation
Indices: 12227717--12227860 Score: 153
Period size: 63 Copynumber: 2.3 Consensus size: 61
12227707 TTTCACCGAG
* ** * * * * *
12227717 CGAGAAACTTTCTATCTTGGGAGTCGTTGTTCTCACCATAGCAAATTTGATTTTCGTCGCAA
1 CGAGAAACTTT-TACCTTGGGAGTCACTGTTCTCACCACAGCAAATTTGATTCTAGCCACAA
* *
12227779 CGAGAAAATTTTTACCTTGGGAGTCACTGTTCTCACCACAGTCAAATTTGATTCTAGCCACGA
1 CGAG-AAACTTTTACCTTGGGAGTCACTGTTCTCACCACAG-CAAATTTGATTCTAGCCACAA
*
12227842 TGAGAAACTCTTTACCTTG
1 CGAGAAACT-TTTACCTTG
12227861 TTTGGAGATC
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
62 33 0.49
63 34 0.51
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (61 bp):
CGAGAAACTTTTACCTTGGGAGTCACTGTTCTCACCACAGCAAATTTGATTCTAGCCACAA
Found at i:12228883 original size:12 final size:12
Alignment explanation
Indices: 12228850--12228883 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12228840 CAATCACATA
12228850 CATATATATA-T
1 CATATATATATT
12228861 -ATATATATATT
1 CATATATATATT
12228872 CATATATATATT
1 CATATATATATT
12228884 AGTTCTTTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 9 0.43
11 1 0.05
12 11 0.52
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (12 bp):
CATATATATATT
Found at i:12232125 original size:2 final size:2
Alignment explanation
Indices: 12232118--12232145 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12232108 ATGTGTACAC
12232118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12232146 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12236052 original size:9 final size:9
Alignment explanation
Indices: 12236034--12236062 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
12236024 AGAAAAACCT
12236034 TTGT-TTGC
1 TTGTCTTGC
12236042 TTGTCTTGC
1 TTGTCTTGC
12236051 TTGTCTTGC
1 TTGTCTTGC
12236060 TTG
1 TTG
12236063 GTCATTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.00, C:0.17, G:0.24, T:0.59
Consensus pattern (9 bp):
TTGTCTTGC
Found at i:12238376 original size:2 final size:2
Alignment explanation
Indices: 12238371--12238403 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12238361 TGTGTGGTGT
12238371 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12238404 CTTGAGAAGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12241086 original size:49 final size:49
Alignment explanation
Indices: 12241009--12241113 Score: 183
Period size: 49 Copynumber: 2.1 Consensus size: 49
12240999 CATTCATCGT
* * *
12241009 CATAGCCGGGTCATCATCATCATCGGCTTATGCACACTCCCTACTCGCA
1 CATAGCCAGGCCATCATCATCATAGGCTTATGCACACTCCCTACTCGCA
12241058 CATAGCCAGGCCATCATCATCATAGGCTTATGCACACTCCCTACTCGCA
1 CATAGCCAGGCCATCATCATCATAGGCTTATGCACACTCCCTACTCGCA
12241107 CATAGCC
1 CATAGCC
12241114 GGGTCGATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 53 1.00
ACGTcount: A:0.25, C:0.37, G:0.15, T:0.23
Consensus pattern (49 bp):
CATAGCCAGGCCATCATCATCATAGGCTTATGCACACTCCCTACTCGCA
Found at i:12242782 original size:43 final size:43
Alignment explanation
Indices: 12242695--12242826 Score: 140
Period size: 43 Copynumber: 3.1 Consensus size: 43
12242685 GTAATTATAT
* * * * *
12242695 TGACTCGGCTATGTACGAGTAGGGAGTGTGCATAGGCCGA-TGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATA-ACCTAGTGA
*
12242738 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCTAGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCTAGTGA
** * * * *
12242781 TGACCCAACCATGTGCGAGTAGAGAGTGCGCATGACCTGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCTAGTGA
12242824 TGA
1 TGA
12242827 TGAGATGGTG
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 3 0.04
43 72 0.96
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCTAGTGA
Found at i:12242851 original size:23 final size:23
Alignment explanation
Indices: 12242821--12242876 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
12242811 CATGACCTGG
12242821 TGATGATGAGATGGTGTGCATGA
1 TGATGATGAGATGGTGTGCATGA
*
12242844 TGATGATGGGATGGTGTGCATGA
1 TGATGATGAGATGGTGTGCATGA
12242867 TGATGATGAG
1 TGATGATGAG
12242877 TATATGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.25, C:0.04, G:0.41, T:0.30
Consensus pattern (23 bp):
TGATGATGAGATGGTGTGCATGA
Found at i:12243179 original size:40 final size:40
Alignment explanation
Indices: 12243124--12243224 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
12243114 GCCAGGAATC
* * * *
12243124 TCGCTACAGAGAGAAACTTTCCATTTTCAACCCCAAAATT
1 TCGCTGCAGCGAGAAACTTTCCATTTTCAAACCAAAAATT
** *
12243164 TCGCTGCAGCGAGAAACTTTCTGTTTTGAAACCAAAAATT
1 TCGCTGCAGCGAGAAACTTTCCATTTTCAAACCAAAAATT
* *
12243204 TTGCTGCAGCGAAAAACTTTC
1 TCGCTGCAGCGAGAAACTTTC
12243225 TGTTTTTCTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.29
Consensus pattern (40 bp):
TCGCTGCAGCGAGAAACTTTCCATTTTCAAACCAAAAATT
Found at i:12246861 original size:20 final size:20
Alignment explanation
Indices: 12246836--12246875 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
12246826 CTATAAATAT
*
12246836 CTCATTTCTCTAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
*
12246856 CTCATTTTTCCAGCAGCTTC
1 CTCATTTCTCCAGCAGCTTC
12246876 TTATTCTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.15, C:0.35, G:0.10, T:0.40
Consensus pattern (20 bp):
CTCATTTCTCCAGCAGCTTC
Found at i:12247611 original size:37 final size:37
Alignment explanation
Indices: 12247569--12247724 Score: 260
Period size: 37 Copynumber: 4.2 Consensus size: 37
12247559 TAATGTTGTG
*
12247569 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
*
12247606 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
*
12247643 TGATGATGTT-AGAGTGTGCGAGTAAGGATTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAAGGAGTGCACACA
*
12247680 TGATGATGTTAAAGTGTGCGAGTAAGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
12247717 TGATGATG
1 TGATGATG
12247725 ATATTGCATT
Statistics
Matches: 114, Mismatches: 3, Indels: 4
0.94 0.02 0.03
Matches are distributed among these distances:
36 1 0.01
37 112 0.98
38 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.35, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAAGGAGTGCACACA
Found at i:12248008 original size:22 final size:22
Alignment explanation
Indices: 12247978--12248041 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
12247968 CCAGCCCTGT
*
12247978 TTCTTGCTGCAGCGAAAACGAA
1 TTCTCGCTGCAGCGAAAACGAA
* *
12248000 TTCTCGCTGCAGTGAAAAAGAA
1 TTCTCGCTGCAGCGAAAACGAA
*
12248022 TTCTCGCTGCAACGAGAAAC
1 TTCTCGCTGCAGCGA-AAAC
12248042 TCTTGCGTGG
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
22 32 0.91
23 3 0.09
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (22 bp):
TTCTCGCTGCAGCGAAAACGAA
Found at i:12252302 original size:27 final size:29
Alignment explanation
Indices: 12252265--12252319 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
12252255 TTCGGAGTAT
*
12252265 AGGGGTAAAATC-GTAATTTTTTCGCCCC
1 AGGGGTAAAATCGGTAAATTTTTCGCCCC
12252293 AGGGGT-AAATCGGTAAATTTTTCGCCC
1 AGGGGTAAAATCGGTAAATTTTTCGCCC
12252320 TAGCACTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (29 bp):
AGGGGTAAAATCGGTAAATTTTTCGCCCC
Found at i:12254848 original size:34 final size:35
Alignment explanation
Indices: 12254775--12254848 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
12254765 TGTCATATTT
* * * *
12254775 TTTGGAGACATTGAGGATGATGATATGTCCTCACA
1 TTTGGAGACATTAAGGATAAAGATATGTCCCCACA
*
12254810 -TTGGAGACATTAAGGATAAAGATATG-CCCCATA
1 TTTGGAGACATTAAGGATAAAGATATGTCCCCACA
12254843 TTTGGA
1 TTTGGA
12254849 CATGTTTGCT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
33 5 0.15
34 28 0.85
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (35 bp):
TTTGGAGACATTAAGGATAAAGATATGTCCCCACA
Found at i:12254965 original size:19 final size:19
Alignment explanation
Indices: 12254936--12254979 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12254926 TATCTGCAAC
*
12254936 ACTCACTGAGATTTTCAGT
1 ACTCACCGAGATTTTCAGT
* *
12254955 AGTCACCGAGATTTTGAGT
1 ACTCACCGAGATTTTCAGT
12254974 ACTCAC
1 ACTCAC
12254980 TCGTTTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (19 bp):
ACTCACCGAGATTTTCAGT
Found at i:12265601 original size:19 final size:19
Alignment explanation
Indices: 12265557--12265594 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
12265547 CCATTTGACT
*
12265557 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
12265576 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
12265595 GTTTAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:12271962 original size:22 final size:22
Alignment explanation
Indices: 12271934--12271977 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
12271924 TTTAAAACAA
*
12271934 CTTTAAACCCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
*
12271956 CTTTAAAACCAAAGGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
12271978 ACCACTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.27
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:12276276 original size:18 final size:20
Alignment explanation
Indices: 12276237--12276276 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
12276227 TCAATTTTAA
*
12276237 TTCCGTGTATGGAAACAGTC
1 TTCCATGTATGGAAACAGTC
12276257 TTCCATGTAT-GAAA-AGTC
1 TTCCATGTATGGAAACAGTC
12276275 TT
1 TT
12276277 TACTAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 6 0.32
19 4 0.21
20 9 0.47
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (20 bp):
TTCCATGTATGGAAACAGTC
Found at i:12282737 original size:55 final size:55
Alignment explanation
Indices: 12282651--12282859 Score: 269
Period size: 55 Copynumber: 3.8 Consensus size: 55
12282641 AACCACCGGC
* * *
12282651 TCATCAGCTCATGTGCACTCCCACACCGCACATAACTGGAATCATAATCCACCGA
1 TCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGAATCATCATCCACCGA
* ** * * * *
12282706 TCATCAGCTCATGCGCACTCCTTTACTGCACATAGTTGGAATCATCATCCATCGG
1 TCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGAATCATCATCCACCGA
*
12282761 TCAAT-AGCTCATGTGCACT-CTCACACCGCACATAGCTAGAATCATCATCCACCGA
1 TC-ATCAGCTCATGTGCACTCCT-ACACCGCACATAGCTGGAATCATCATCCACCGA
* *
12282816 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTAGAATCA
1 TCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGAATCA
12282860 CCCGTCATCA
Statistics
Matches: 131, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
54 4 0.03
55 124 0.95
56 3 0.02
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCTACACCGCACATAGCTGGAATCATCATCCACCGA
Found at i:12282849 original size:110 final size:110
Alignment explanation
Indices: 12282656--12282859 Score: 309
Period size: 110 Copynumber: 1.9 Consensus size: 110
12282646 CCGGCTCATC
*
12282656 AGCTCATGTGCACTCCCACACCGCACATAACTGGAATCATAATCCACCGATCATCAGCTCATGCG
1 AGCTCATGTGCACTCCCACACCGCACATAACTAGAATCATAATCCACCGATCATCAGCTCATGCG
*** * * *
12282721 CACTCCTTTACTGCACATAGTTGGAATCATCATCCATCGGTCAAT
66 CACTCCCACACCGCACATAGCTAGAATCATCATCCATCGGTCAAT
* * * *
12282766 AGCTCATGTGCACTCTCACACCGCACATAGCTAGAATCATCATCCACCGATCATCAGCTCATGTG
1 AGCTCATGTGCACTCCCACACCGCACATAACTAGAATCATAATCCACCGATCATCAGCTCATGCG
12282831 CACTCCCACACCGCACATAGCTAGAATCA
66 CACTCCCACACCGCACATAGCTAGAATCA
12282860 CCCGTCATCA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 83 1.00
ACGTcount: A:0.29, C:0.34, G:0.14, T:0.23
Consensus pattern (110 bp):
AGCTCATGTGCACTCCCACACCGCACATAACTAGAATCATAATCCACCGATCATCAGCTCATGCG
CACTCCCACACCGCACATAGCTAGAATCATCATCCATCGGTCAAT
Found at i:12293843 original size:13 final size:13
Alignment explanation
Indices: 12293825--12293849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12293815 AGAGAAATTG
12293825 TGATTTTATAAAA
1 TGATTTTATAAAA
12293838 TGATTTTATAAA
1 TGATTTTATAAA
12293850 TTTTTTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:12297375 original size:40 final size:39
Alignment explanation
Indices: 12297319--12297421 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 39
12297309 ACCCAGCTCA
* *
12297319 TGTGCATCACCCCACATCGTGCACATAGCCGGAGTCATCG
1 TGTGCATC-CCCCACATCGTGCACATAGCCAGAGCCATCG
* *
12297359 TGTGCATCCCCTCACATCGTG--CATAGTCAGTGCCATCG
1 TGTGCATCCCC-CACATCGTGCACATAGCCAGAGCCATCG
*
12297397 TGTACATCCCCCCACATCGTGCACA
1 TGTGCAT-CCCCCACATCGTGCACA
12297422 CGTACGGTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
38 28 0.52
39 7 0.13
40 19 0.35
ACGTcount: A:0.21, C:0.37, G:0.19, T:0.22
Consensus pattern (39 bp):
TGTGCATCCCCCACATCGTGCACATAGCCAGAGCCATCG
Found at i:12308132 original size:63 final size:63
Alignment explanation
Indices: 12307975--12308135 Score: 196
Period size: 63 Copynumber: 2.6 Consensus size: 63
12307965 CATCGTTACC
* * * * * ** * *
12307975 GGCATGTGCACTGCCCACTTCGCACATGTACAGTAGTAATTATCGCAACATCGTCATTCAACC
1 GGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAACTATCAAAACATCATCATTCAACA
* ** * *
12308038 GACATGTGCACTGTTCACTCCGTACATGCACGGTTGTAACTATCAAAACCTCATCATTCAACA
1 GGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAACTATCAAAACATCATCATTCAACA
12308101 GGCATGTGCACTGCCCACTCCGCACATGCACGGTT
1 GGCATGTGCACTGCCCACTCCGCACATGCACGGTT
12308136 ACATCCATTA
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
63 80 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (63 bp):
GGCATGTGCACTGCCCACTCCGCACATGCACGGTTGTAACTATCAAAACATCATCATTCAACA
Found at i:12309588 original size:42 final size:42
Alignment explanation
Indices: 12309549--12309666 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
12309539 CGGCTTATTT
* *
12309549 GCACTCCCACTCGCACATAACTGGGTCAATATCAGCTTATGC
1 GCACTCCCACTCGCACATAGCCGGGTCAATATCAGCTTATGC
* * *
12309591 GCACTCCCACTCACACATAGCCGGGTCAACATCGGCTTATGC
1 GCACTCCCACTCGCACATAGCCGGGTCAATATCAGCTTATGC
* *
12309633 ACACTCCTACTCGCACATAGCCGGGTCAATATCA
1 GCACTCCCACTCGCACATAGCCGGGTCAATATCA
12309667 TTACACAACA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.26, C:0.36, G:0.17, T:0.21
Consensus pattern (42 bp):
GCACTCCCACTCGCACATAGCCGGGTCAATATCAGCTTATGC
Found at i:12311702 original size:43 final size:43
Alignment explanation
Indices: 12311612--12311733 Score: 136
Period size: 43 Copynumber: 2.8 Consensus size: 43
12311602 GGACTTGGTA
* * * **
12311612 ATGTGTGAGTAGGGAGTGCACATAAGCCGATGATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCACATAAGCCGGTGATGACCCAGCC
* * **
12311655 ATGTGCGAGTAGGGAATGCACATAAACCGGTGATGACTTAGCC
1 ATGTGCGAGTAGGGAGTGCACATAAGCCGGTGATGACCCAGCC
* * *
12311698 ATGTGCGAGTAAGGAGTGCGCATAAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCACATAAGCCGGTGATGA
12311734 TGGGATGGTG
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.28, C:0.16, G:0.34, T:0.22
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCACATAAGCCGGTGATGACCCAGCC
Found at i:12317306 original size:25 final size:25
Alignment explanation
Indices: 12317259--12317305 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
12317249 TATTTCTTCC
12317259 TATTGGGCCATGCCCATTCTTTTCT
1 TATTGGGCCATGCCCATTCTTTTCT
* *
12317284 TATTGGGCTATG-CCATTTTTTT
1 TATTGGGCCATGCCCATTCTTTT
12317306 TTCCTTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.49
Consensus pattern (25 bp):
TATTGGGCCATGCCCATTCTTTTCT
Found at i:12317645 original size:34 final size:34
Alignment explanation
Indices: 12317564--12317677 Score: 156
Period size: 34 Copynumber: 3.3 Consensus size: 34
12317554 CAACAAAACA
* * * * *
12317564 CCTCAAGAATCAGCAGCCAAAGTTGCTCATTTTAGC
1 CCTCAA-AATCAGCAGCTAAAGCTGCTCCTCTCA-C
*
12317600 CTTCAAAATCAGCAGCTAAAGCTGCTCCTCTCAC
1 CCTCAAAATCAGCAGCTAAAGCTGCTCCTCTCAC
12317634 CCTCAAAATCAGCAGCTAAAGCTGCTCCTCTCAC
1 CCTCAAAATCAGCAGCTAAAGCTGCTCCTCTCAC
12317668 CCTCAAAATC
1 CCTCAAAATC
12317678 GATAGCCAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
34 44 0.62
35 22 0.31
36 5 0.07
ACGTcount: A:0.31, C:0.34, G:0.12, T:0.23
Consensus pattern (34 bp):
CCTCAAAATCAGCAGCTAAAGCTGCTCCTCTCAC
Found at i:12318025 original size:21 final size:22
Alignment explanation
Indices: 12317986--12318034 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
12317976 CTTTGACTTC
* * *
12317986 TCTTTCTTTCTT-TTTTTTTAT
1 TCTTTCTTTCTTATCTTTTCAA
12318007 TCTTTCTTTCTTATCTTTTCAA
1 TCTTTCTTTCTTATCTTTTCAA
12318029 TCTTTC
1 TCTTTC
12318035 ATCTTTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 12 0.50
22 12 0.50
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TCTTTCTTTCTTATCTTTTCAA
Found at i:12320948 original size:2 final size:2
Alignment explanation
Indices: 12320941--12320978 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
12320931 ATCTTTAGCG
12320941 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
12320979 NCACTCCGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12321069 original size:35 final size:35
Alignment explanation
Indices: 12321025--12321112 Score: 131
Period size: 35 Copynumber: 2.5 Consensus size: 35
12321015 AACCCCCACA
* * *
12321025 TCGCGCACATCAACATCATCGTGTGCACTCCTTAC
1 TCGCACACATCAACATCAACGTGTGCACTCCCTAC
* *
12321060 TTGCACACATCAATATCAACGTGTGCACTCCCTAC
1 TCGCACACATCAACATCAACGTGTGCACTCCCTAC
12321095 TCGCACACATCAACATCA
1 TCGCACACATCAACATCA
12321113 CTATCCACAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.24
Consensus pattern (35 bp):
TCGCACACATCAACATCAACGTGTGCACTCCCTAC
Found at i:12325091 original size:21 final size:22
Alignment explanation
Indices: 12325054--12325096 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
12325044 TTTGATTCGT
*
12325054 ATAAGAGATTTT-GGTTTAAAG
1 ATAAGAGATTTTAGTTTTAAAG
12325075 ATAAGAG-TTTCTAGTTTTAAAG
1 ATAAGAGATTT-TAGTTTTAAAG
12325097 TTGTTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 3 0.16
21 8 0.42
22 8 0.42
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (22 bp):
ATAAGAGATTTTAGTTTTAAAG
Found at i:12336283 original size:63 final size:63
Alignment explanation
Indices: 12336211--12336374 Score: 197
Period size: 63 Copynumber: 2.6 Consensus size: 63
12336201 TAATTAATGT
* * **
12336211 AATCGTGCATGTGCGGAGTGGGTAGTGCATATGCCGGTTGAATGACGATGTTGTGACAAC-TAC
1 AATCATGCATGTGCGGAGTGGGCAGTGCATATGCCGGTCAAATGACGATGTTGTGAC-ACTTAC
* * *
12336274 AATCATGCATATGTGGAGTGGGCAGTGCATATGCCGGTCAAATGATGATGTTGTGACACTTAC
1 AATCATGCATGTGCGGAGTGGGCAGTGCATATGCCGGTCAAATGACGATGTTGTGACACTTAC
* * * *
12336337 AA-CTATGCATGTGCAGAGTAGGCAATGCACATGCCGGT
1 AATC-ATGCATGTGCGGAGTGGGCAGTGCATATGCCGGT
12336375 AATGATGTGC
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
62 3 0.03
63 83 0.97
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (63 bp):
AATCATGCATGTGCGGAGTGGGCAGTGCATATGCCGGTCAAATGACGATGTTGTGACACTTAC
Found at i:12341815 original size:55 final size:55
Alignment explanation
Indices: 12341729--12341870 Score: 221
Period size: 55 Copynumber: 2.6 Consensus size: 55
12341719 AAACTTCGGC
* * * * *
12341729 TCATCAACTTATGTGCACTCCCACACTGCACATAGCTGTAATCATCATCCACCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGATGGAATCATCATCCACCGG
*
12341784 TCATCAGCTCATGTGCACTCCCACACCGCACATAGATGGAATCATCATCCGCCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGATGGAATCATCATCCACCGG
*
12341839 TCATCAGCTCATGTGCACTCCCACAACGCACA
1 TCATCAGCTCATGTGCACTCCCACACCGCACA
12341871 CGGGCGGTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 80 1.00
ACGTcount: A:0.27, C:0.37, G:0.15, T:0.22
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGATGGAATCATCATCCACCGG
Found at i:12350722 original size:70 final size:69
Alignment explanation
Indices: 12350620--12350759 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 69
12350610 TAACATTTAT
12350620 TAAGTAAACTCCAACAGCCACCGTGCCATTGTGCTAAGAACACTTCATGTTTAGGACGCATGAAT
1 TAAGTAAACTCCAACAGCCACCGTGCCATTGTGCTAAGAACACTTCATGTTTAGGACGCATGAAT
12350685 AAAA
66 AAAA
12350689 NTAAGTAAACTCCAACAGCCACCGTGCCATTGTGCTAAGAACACTTCATGTTTAGGACGCATGAA
1 -TAAGTAAACTCCAACAGCCACCGTGCCATTGTGCTAAGAACACTTCATGTTTAGGACGCATGAA
12350754 TAAAA
65 TAAAA
12350759 T
1 T
12350760 GAGACAGATG
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
69 1 0.01
70 69 0.99
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (69 bp):
TAAGTAAACTCCAACAGCCACCGTGCCATTGTGCTAAGAACACTTCATGTTTAGGACGCATGAAT
AAAA
Found at i:12351323 original size:10 final size:10
Alignment explanation
Indices: 12351308--12351334 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
12351298 TTTTGAGAAT
12351308 ATGGTTACTA
1 ATGGTTACTA
12351318 ATGGTTACTA
1 ATGGTTACTA
12351328 ATGGTTA
1 ATGGTTA
12351335 ACGAAATGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (10 bp):
ATGGTTACTA
Found at i:12363595 original size:11 final size:12
Alignment explanation
Indices: 12363578--12363608 Score: 55
Period size: 11 Copynumber: 2.7 Consensus size: 12
12363568 AGCTCCACCC
12363578 GAGAGAAAGAAA
1 GAGAGAAAGAAA
12363590 -AGAGAAAGAAA
1 GAGAGAAAGAAA
12363601 GAGAGAAA
1 GAGAGAAA
12363609 ATGGAGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (12 bp):
GAGAGAAAGAAA
Found at i:12365320 original size:25 final size:27
Alignment explanation
Indices: 12365256--12365329 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 27
12365246 ACTGACAGGC
*
12365256 TGTTAGATGTGGCAAGGCCATGGTCTG
1 TGTTATATGTGGCAAGGCCATGGTCTG
* *
12365283 TGATTATACGTGGCAAGGCCATGG-GT-
1 TG-TTATATGTGGCAAGGCCATGGTCTG
*
12365309 TGTTATATGTGGCTAGGCCAT
1 TGTTATATGTGGCAAGGCCAT
12365330 TAATTGATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 17 0.41
26 2 0.05
27 3 0.07
28 19 0.46
ACGTcount: A:0.20, C:0.15, G:0.34, T:0.31
Consensus pattern (27 bp):
TGTTATATGTGGCAAGGCCATGGTCTG
Found at i:12374542 original size:43 final size:37
Alignment explanation
Indices: 12374409--12374570 Score: 236
Period size: 37 Copynumber: 4.2 Consensus size: 37
12374399 TAATGTTATG
*
12374409 TGATGATATTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
*
12374446 TGATGATGTTGAAGTGTGCGAGTAGGCAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
12374483 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACATCATCA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTG----CA-CA-CA
12374526 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
12374563 TGATGATG
1 TGATGATG
12374571 ATATTGCATT
Statistics
Matches: 114, Mismatches: 3, Indels: 16
0.86 0.02 0.12
Matches are distributed among these distances:
36 1 0.01
37 73 0.64
38 2 0.02
39 2 0.02
41 2 0.02
42 2 0.02
43 31 0.27
44 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:12374557 original size:80 final size:74
Alignment explanation
Indices: 12374421--12374570 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 74
12374411 ATGATATTGA
12374421 AGTGTGCGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCGAGTAGGCAGTGCACACATGA
1 AGTGTGCGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCGAGTAGGCAGTGCACACATGA
12374486 TGATGTTAG
66 TGATGTTAG
*
12374495 AGTGTGCGAGTAGGGAGTGCACACATCATCATGATGATGTTGAAGTGTGCGAGTAGGGAGTGCAC
1 AGTGTGCGAGTAGGGAGTG----CA-CA-CATGATGATGTTGAAGTGTGCGAGTAGGCAGTGCAC
12374560 ACATGATGATG
60 ACATGATGATG
12374571 ATATTGCATT
Statistics
Matches: 69, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
74 19 0.28
78 2 0.03
79 2 0.03
80 46 0.67
ACGTcount: A:0.27, C:0.13, G:0.36, T:0.24
Consensus pattern (74 bp):
AGTGTGCGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCGAGTAGGCAGTGCACACATGA
TGATGTTAG
Found at i:12375918 original size:43 final size:43
Alignment explanation
Indices: 12375841--12375966 Score: 148
Period size: 43 Copynumber: 2.9 Consensus size: 43
12375831 CCACACTCAG
* * *
12375841 CTCATGTGCACTCCCTAC-TCACTCGTAG-TCGGGTCATCATCAA
1 CTCATGTGCACTCCC-ACACCACACATAGCT-GGGTCATCATCAA
* * *
12375884 CTCATGTGCACTCCCACACCGCACATAGCTGGGTCATCATTAG
1 CTCATGTGCACTCCCACACCACACATAGCTGGGTCATCATCAA
* *
12375927 CTCATGTGCACTCCCACACCACACATAGCTAGGTCGTCAT
1 CTCATGTGCACTCCCACACCACACATAGCTGGGTCATCAT
12375967 TATCACACAA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
42 2 0.03
43 69 0.96
44 1 0.01
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.25
Consensus pattern (43 bp):
CTCATGTGCACTCCCACACCACACATAGCTGGGTCATCATCAA
Found at i:12375967 original size:43 final size:43
Alignment explanation
Indices: 12375872--12375968 Score: 149
Period size: 43 Copynumber: 2.3 Consensus size: 43
12375862 CTCGTAGTCG
* * * *
12375872 GGTCATCATCAACTCATGTGCACTCCCACACCGCACATAGCTG
1 GGTCATCATTAGCTCATGTGCACTCCCACACCACACATAGCTA
12375915 GGTCATCATTAGCTCATGTGCACTCCCACACCACACATAGCTA
1 GGTCATCATTAGCTCATGTGCACTCCCACACCACACATAGCTA
*
12375958 GGTCGTCATTA
1 GGTCATCATTA
12375969 TCACACAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (43 bp):
GGTCATCATTAGCTCATGTGCACTCCCACACCACACATAGCTA
Found at i:12388249 original size:20 final size:21
Alignment explanation
Indices: 12388213--12388252 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
12388203 AACAACTAAT
12388213 AAATAACAATCAAATTAAAAG
1 AAATAACAATCAAATTAAAAG
*
12388234 AAATAA-AATTAAATTAAAA
1 AAATAACAATCAAATTAAAA
12388253 TAACTCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.70, C:0.05, G:0.03, T:0.23
Consensus pattern (21 bp):
AAATAACAATCAAATTAAAAG
Found at i:12390660 original size:27 final size:26
Alignment explanation
Indices: 12390599--12390667 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 26
12390589 TTTCTCTCTT
*
12390599 TTTCTTTTT-TTCTTTTTTCCTTTCC
1 TTTCTTTTTCTTCTTTTTTCCTTCCC
12390624 TTTCTCTTTTCTTCTTTCTTT-CTTCCCC
1 TTTCT-TTTTCTTCTTT-TTTCCTT-CCC
*
12390652 TTTCTTTTTCCTCTTT
1 TTTCTTTTTCTTCTTT
12390668 GGCTATAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 5 0.13
26 4 0.11
27 19 0.50
28 10 0.26
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (26 bp):
TTTCTTTTTCTTCTTTTTTCCTTCCC
Found at i:12391619 original size:19 final size:18
Alignment explanation
Indices: 12391597--12391644 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
12391587 TTAATATTTT
12391597 AATATTATTTTATTCATAA
1 AATATTATTTTATT-ATAA
* *
12391616 AATATTATTTCATTTTAA
1 AATATTATTTTATTATAA
*
12391634 AATATTCTTTT
1 AATATTATTTT
12391645 TGCCCATCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATTATTTTATTATAA
Found at i:12391636 original size:18 final size:19
Alignment explanation
Indices: 12391597--12391639 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
12391587 TTAATATTTT
*
12391597 AATATTATTTTATTCATAA
1 AATATTATTTCATTCATAA
*
12391616 AATATTATTTCATT-TTAA
1 AATATTATTTCATTCATAA
12391634 AATATT
1 AATATT
12391640 CTTTTTGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATTTCATTCATAA
Found at i:12393239 original size:67 final size:68
Alignment explanation
Indices: 12393162--12393347 Score: 263
Period size: 67 Copynumber: 2.8 Consensus size: 68
12393152 AAGCTAGTAG
* *
12393162 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTG-TAGGTTGTGGTTGAGTCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
12393226 ACT
66 ACT
* *
12393229 TTGGGTTTTGGTTGAGCCTGTGAAAAACCATTG-TGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
1 TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
12393293 ACT
66 ACT
* * * *
12393296 TTGGGTTTTAGTTGATCCCAGT-AAAAACTATTG-TGAAAGGTTTTGGCTGAGC
1 TTGGGTTTTGGTTGATCCC-GTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGC
12393348 TTGGTAAAAG
Statistics
Matches: 107, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
66 2 0.02
67 103 0.96
68 2 0.02
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.35
Consensus pattern (68 bp):
TTGGGTTTTGGTTGATCCCGTGAAAAACCATTGTTGAAAGGTTGTGGTTGAGCCTTTGAAAAACC
ACT
Found at i:12393253 original size:32 final size:32
Alignment explanation
Indices: 12393162--12393310 Score: 147
Period size: 35 Copynumber: 4.5 Consensus size: 32
12393152 AAGCTAGTAG
* * *
12393162 TTGGGTTTTGGTTGATCCCGTGAAAAACCATT
1 TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
* * *
12393194 GTTGTAGGTTGTGGTTGAGTCTTTGAAAAACCACT
1 -TTG--GGTTTTGGTTGAGCCTGTGAAAAACCACT
12393229 TTGGGTTTTGGTTGAGCCTGTGAAAAACCA-T
1 TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
* *
12393260 TGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACT
1 T-TG---GGTTTTGGTTGAGCCTGTGAAAAACCACT
*
12393296 TTGGGTTTTAGTTGA
1 TTGGGTTTTGGTTGA
12393311 TCCCAGTAAA
Statistics
Matches: 96, Mismatches: 13, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
31 2 0.02
32 36 0.38
33 3 0.03
34 3 0.03
35 50 0.52
36 2 0.02
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.37
Consensus pattern (32 bp):
TTGGGTTTTGGTTGAGCCTGTGAAAAACCACT
Found at i:12394108 original size:14 final size:15
Alignment explanation
Indices: 12394076--12394109 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12394066 CCTCCAAATC
*
12394076 TAAAAACATGAAGTT
1 TAAAAACATGAAGTA
12394091 TAAAAACATG-AGTA
1 TAAAAACATGAAGTA
12394105 TAAAA
1 TAAAA
12394110 CTCAGTGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (15 bp):
TAAAAACATGAAGTA
Found at i:12394884 original size:37 final size:37
Alignment explanation
Indices: 12394843--12394998 Score: 217
Period size: 37 Copynumber: 4.2 Consensus size: 37
12394833 AATGCAATAT
* *
12394843 CATCATCTTGTGTGCACTCCTTACTCGCACACT-TCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCT-AA
* * *
12394880 CATCATCATGTGTGCATTCCTTACTCGCACACTCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
* *
12394917 CATCATCATGTGTGCACTCCCTACTCGAACACTCTAT
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
12394954 CATCATCATGTGTGCACTCCCTACTCGCACACT-TCAA
1 CATCATCATGTGTGCACTCCCTACTCGCACACTCT-AA
12394991 CATCATCA
1 CATCATCA
12394999 CACAACATTA
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
36 1 0.01
37 107 0.98
38 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.10, T:0.31
Consensus pattern (37 bp):
CATCATCATGTGTGCACTCCCTACTCGCACACTCTAA
Found at i:12399018 original size:20 final size:20
Alignment explanation
Indices: 12398993--12399041 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
12398983 AAAATTATGG
*
12398993 CAAATATATCGACATATTGC
1 CAAATATATCAACATATTGC
* *
12399013 CAAATATGTCAATATATTGC
1 CAAATATATCAACATATTGC
12399033 CAAATATAT
1 CAAATATAT
12399042 ATATACATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (20 bp):
CAAATATATCAACATATTGC
Done.