Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 108 of 187
Found at i:31679453 original size:14 final size:14
Alignment explanation
Indices: 31679434--31679471 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
31679424 TCAAAAAAGT
31679434 AAATTATTTTTCAG
1 AAATTATTTTTCAG
*
31679448 AAATTATTTTTTAG
1 AAATTATTTTTCAG
*
31679462 AAATCATTTT
1 AAATTATTTT
31679472 ACTGGCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (14 bp):
AAATTATTTTTCAG
Found at i:31682362 original size:4 final size:4
Alignment explanation
Indices: 31682353--31682378 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
31682343 TGTTTTCAAG
31682353 TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TT
31682379 TAGTAGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTAT
Found at i:31688260 original size:16 final size:17
Alignment explanation
Indices: 31688217--31688260 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
31688207 TCCCATGTTT
*
31688217 ATTCAATGCAATCATTC
1 ATTCAATGCATTCATTC
*
31688234 -TTTAATGCATTCATTC
1 ATTCAATGCATTCATTC
31688250 ATTCAAT-CATT
1 ATTCAATGCATT
31688261 AATACTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (17 bp):
ATTCAATGCATTCATTC
Found at i:31699094 original size:9 final size:9
Alignment explanation
Indices: 31699074--31699105 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
31699064 TGAATTTAAT
31699074 CTTCCTTTCG
1 CTTCC-TTCG
31699084 CTTCCTTCG
1 CTTCCTTCG
31699093 CTTCCTTCG
1 CTTCCTTCG
31699102 CTTC
1 CTTC
31699106 ATTCCATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.00, C:0.44, G:0.09, T:0.47
Consensus pattern (9 bp):
CTTCCTTCG
Found at i:31706388 original size:21 final size:20
Alignment explanation
Indices: 31706354--31706392 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31706344 CGAATCAACA
31706354 TTGTAGATCTTTTAATTTTTG
1 TTGTAGATCTTTT-ATTTTTG
31706375 TTGTAGCATC-TTTATTTT
1 TTGTAG-ATCTTTTATTTT
31706393 CAAACCTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.18, C:0.08, G:0.13, T:0.62
Consensus pattern (20 bp):
TTGTAGATCTTTTATTTTTG
Found at i:31707965 original size:34 final size:35
Alignment explanation
Indices: 31707913--31707979 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
31707903 CACAGTTGAA
* * *
31707913 CAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTTC
1 CAGTCTTGGACCTAAGCCCATTACAGTATCAGTTC
*
31707948 CAGT-TTGGACCTTAGCCCATTACAGTATCAGT
1 CAGTCTTGGACCTAAGCCCATTACAGTATCAGT
31707980 AGCAGTAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 24 0.86
35 4 0.14
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (35 bp):
CAGTCTTGGACCTAAGCCCATTACAGTATCAGTTC
Found at i:31714869 original size:26 final size:26
Alignment explanation
Indices: 31714840--31714903 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
31714830 TACCTACAGT
31714840 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* * *
31714866 AGTTTTAGAATATCATAGCATGTATC
1 AGTTTCAGAATATCATAACATATATC
31714892 AGTTTCAGAATA
1 AGTTTCAGAATA
31714904 CTTACAGGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:31720918 original size:31 final size:31
Alignment explanation
Indices: 31720818--31720919 Score: 90
Period size: 31 Copynumber: 3.4 Consensus size: 31
31720808 TTAATATTAC
* *
31720818 ATTTGGGACCTGAACTTGACACTTTTTCTTA
1 ATTTGGTACCTGAACTTGACACTTTTTCCTA
*
31720849 ATTTGGTACCT-AATCTT-----TTTTTCGGCCCA
1 ATTTGGTACCTGAA-CTTGACACTTTTT---CCTA
*
31720878 ATTTAGTACCTGAACTTGACACTTTTTCCTA
1 ATTTGGTACCTGAACTTGACACTTTTTCCTA
31720909 ATTTGGTACCT
1 ATTTGGTACCT
31720920 AAGCTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
26 5 0.09
29 15 0.27
30 4 0.07
31 26 0.47
34 5 0.09
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.43
Consensus pattern (31 bp):
ATTTGGTACCTGAACTTGACACTTTTTCCTA
Found at i:31720918 original size:60 final size:61
Alignment explanation
Indices: 31720825--31721052 Score: 327
Period size: 60 Copynumber: 3.8 Consensus size: 61
31720815 TACATTTGGG
* * * *
31720825 ACCTGAACTTGACA-CTTTTTCTTAATTTGGTACCTAATCTTTTTTTCGGCCCAATTTAGT
1 ACCTGAACTTGACATCTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGGCCCAATATGGT
* *
31720885 ACCTGAACTTGACA-CTTTTTCCTAATTTGGTACCTAAGCTTTTTTTGGGCCCAATATGGT
1 ACCTGAACTTGACATCTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGGCCCAATATGGT
*
31720945 ACCTGAACTTGACATTTTTTTTCTTAATTTGGTACCTAAAC-TTTTTTGGGCCCAATATGGT
1 ACCTGAACTTGACA-TCTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGGCCCAATATGGT
* * * *
31721006 ACATGAATTTGATATTTTTTTCTTAATTTGGTACCTAAACTTTTTTT
1 ACCTGAACTTGACATCTTTTTCTTAATTTGGTACCTAAACTTTTTTT
31721053 TAGGTTCAAT
Statistics
Matches: 154, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
60 95 0.62
61 37 0.24
62 22 0.14
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (61 bp):
ACCTGAACTTGACATCTTTTTCTTAATTTGGTACCTAAACTTTTTTTGGGCCCAATATGGT
Found at i:31720970 original size:122 final size:120
Alignment explanation
Indices: 31720825--31721052 Score: 323
Period size: 122 Copynumber: 1.9 Consensus size: 120
31720815 TACATTTGGG
* * *
31720825 ACCTGAACTTGACACTTTTTCTTAATTTGGTACCTAATCTTTTTTTCGGCCCAATTTAGTACCTG
1 ACCTGAACTTGACACTTTTTCTTAATTTGGTACCTAAAC-TTTTTTCGGCCCAATATAGTACATG
*
31720890 AACTTGACA-CTTTTTCCTAATTTGGTACCTAAGCTTTTTTTGGGCCCAATATGGT
65 AACTTGACATCTTTTTCCTAATTTGGTACCTAAACTTTTTTTGGGCCCAATATGGT
* * *
31720945 ACCTGAACTTGACATTTTTTTTCTTAATTTGGTACCTAAACTTTTTTGGGCCCAATATGGTACAT
1 ACCTGAACTTGACA--CTTTTTCTTAATTTGGTACCTAAACTTTTTTCGGCCCAATATAGTACAT
* * * *
31721010 GAATTTGATATTTTTTTCTTAATTTGGTACCTAAACTTTTTTT
64 GAACTTGACATCTTTTTCCTAATTTGGTACCTAAACTTTTTTT
31721053 TAGGTTCAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
120 14 0.15
121 28 0.30
122 52 0.55
ACGTcount: A:0.23, C:0.18, G:0.13, T:0.46
Consensus pattern (120 bp):
ACCTGAACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTCGGCCCAATATAGTACATGA
ACTTGACATCTTTTTCCTAATTTGGTACCTAAACTTTTTTTGGGCCCAATATGGT
Found at i:31721581 original size:30 final size:31
Alignment explanation
Indices: 31721526--31721603 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
31721516 AGACCCAAAA
* * *
31721526 AAGTTTAAGTACTAACTTAAGAAAAAGTATC
1 AAGTTTAGGTACTAAATTAAGAAAAAATATC
*
31721557 AAGTTTAGGTACTAAATT-AGAAAAAATGTC
1 AAGTTTAGGTACTAAATTAAGAAAAAATATC
* *
31721587 AAGTTCAGGTACCAAAT
1 AAGTTTAGGTACTAAAT
31721604 GTTATATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
30 25 0.61
31 16 0.39
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (31 bp):
AAGTTTAGGTACTAAATTAAGAAAAAATATC
Found at i:31723419 original size:27 final size:27
Alignment explanation
Indices: 31723389--31723452 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
31723379 AATTACAAAT
* *
31723389 AAAACCCGAA-CACAACAAAAATAAAAC
1 AAAACCCAAACCA-AACAAAAACAAAAC
*
31723416 AAAACCCAAACCAAACAAAAGCAAAAC
1 AAAACCCAAACCAAACAAAAACAAAAC
*
31723443 AACACCCAAA
1 AAAACCCAAA
31723453 AAAAGTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.66, C:0.30, G:0.03, T:0.02
Consensus pattern (27 bp):
AAAACCCAAACCAAACAAAAACAAAAC
Found at i:31733806 original size:5 final size:5
Alignment explanation
Indices: 31733794--31733836 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
31733784 CTATTTTATT
*
31733794 ATAT- ATATG ATAT- AAATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
31733837 TGTATGTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
4 7 0.20
5 28 0.80
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:31734621 original size:16 final size:16
Alignment explanation
Indices: 31734602--31734632 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31734592 ATTCACTGTA
31734602 ATGAAATAAAATTGTT
1 ATGAAATAAAATTGTT
*
31734618 ATGAAATAAATTTGT
1 ATGAAATAAAATTGT
31734633 AATTAGTAAT
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:0.48, C:0.00, G:0.13, T:0.39
Consensus pattern (16 bp):
ATGAAATAAAATTGTT
Found at i:31744214 original size:18 final size:18
Alignment explanation
Indices: 31744191--31744233 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
31744181 TCGGCCAGAG
31744191 GGGTATACTACTCATTTT
1 GGGTATACTACTCATTTT
*
31744209 GGGTATACTGCTCATTTT
1 GGGTATACTACTCATTTT
31744227 GGGTATA
1 GGGTATA
31744234 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (18 bp):
GGGTATACTACTCATTTT
Found at i:31745193 original size:26 final size:26
Alignment explanation
Indices: 31745164--31745244 Score: 126
Period size: 26 Copynumber: 3.1 Consensus size: 26
31745154 TGGAGGAAGT
31745164 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
* * **
31745190 ATACTGTTACTAGCAACTTTGTTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
31745216 ATACTGTTACTGGCAGCTTTACTGCG
1 ATACTGTTACTGGCAGCTTTACTGCG
31745242 ATA
1 ATA
31745245 TTGGTGTGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTACTGCG
Found at i:31750624 original size:23 final size:23
Alignment explanation
Indices: 31750598--31750673 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
31750588 ATAAGTGCCA
31750598 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
31750621 CACTGATATGCAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
31750644 CACTGAAATATAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
31750667 CACTGAT
1 CACTGAT
31750674 CAATAACACT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:31750925 original size:18 final size:17
Alignment explanation
Indices: 31750899--31750937 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
31750889 ATTTTCCTTC
31750899 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
31750916 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
31750934 CACA
1 CACA
31750938 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:31755068 original size:26 final size:26
Alignment explanation
Indices: 31755032--31755100 Score: 120
Period size: 26 Copynumber: 2.7 Consensus size: 26
31755022 TGACATGCTA
*
31755032 GCAGCTTTGCTGCGATACTGTTACTG
1 GCAGCTTTGCTGCGATACTATTACTG
*
31755058 GCAGCTTTGCTGCAATACTATTACTG
1 GCAGCTTTGCTGCGATACTATTACTG
31755084 GCAGCTTTGCTGCGATA
1 GCAGCTTTGCTGCGATA
31755101 TTGGTGTGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (26 bp):
GCAGCTTTGCTGCGATACTATTACTG
Found at i:31762627 original size:15 final size:15
Alignment explanation
Indices: 31762607--31762635 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31762597 ATGTGTTTAC
31762607 TTGTTATTTAACTTA
1 TTGTTATTTAACTTA
31762622 TTGTTATTTAACTT
1 TTGTTATTTAACTT
31762636 GTTATAAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (15 bp):
TTGTTATTTAACTTA
Found at i:31767275 original size:36 final size:36
Alignment explanation
Indices: 31767228--31767299 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
31767218 TCATTACAAC
31767228 TATTATAAAGGAAGGGGAAAATATAACCATATAGTT
1 TATTATAAAGGAAGGGGAAAATATAACCATATAGTT
31767264 TATTATAAAGGAAGGGGAAAATATAACCATATAGTT
1 TATTATAAAGGAAGGGGAAAATATAACCATATAGTT
31767300 AACTAACCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (36 bp):
TATTATAAAGGAAGGGGAAAATATAACCATATAGTT
Found at i:31767444 original size:29 final size:29
Alignment explanation
Indices: 31767402--31767462 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
31767392 AGAGGTAGAA
*
31767402 ATCGTTATCTTTGAATAATTTTATGCATT
1 ATCGTTATCTTTGAATAATTGTATGCATT
31767431 ATCGTTATCTTTGAATAATTGTATGCATT
1 ATCGTTATCTTTGAATAATTGTATGCATT
31767460 ATC
1 ATC
31767463 ATGTGGAAGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.49
Consensus pattern (29 bp):
ATCGTTATCTTTGAATAATTGTATGCATT
Found at i:31780199 original size:344 final size:343
Alignment explanation
Indices: 31779572--31780605 Score: 1888
Period size: 344 Copynumber: 3.0 Consensus size: 343
31779562 TATTATTAGG
*
31779572 TAATAATTTTATATATCAACATTTACCATTTTCTATTGATAAAAATTAAATTATGTTATCAGTAG
1 TAATAATTTTATATATCAACATTTACCATTTTCTATTGATAAAAATTTAATTATGTTATCAGTAG
* *
31779637 AAAAAACTTCTGTAGAAATACCATTTGTAACACCCCTAACCCGTATCCATTACCTAATTAGGGTT
66 AAAAAACTTCTGTAGAAATACCATTTGTAACACCCCTAACCCGTATCCGTTACCGAATTAGGGTT
*
31779702 AAGAGGCATTGCTAATCAAAACACAACTCAGAACAAACATTCATTAAAGTTCAATAATTATAACA
131 AAGAGGCATTACTAATCAAAACACAACTCAGAACAAACATTCATTAAAGTTCAATAATTATAACA
31779767 GTTACATATGATAAGCTAGGTCTAATATTAAACATGCAAAAGTTTAAGCTTCTCTTTTGACCATT
196 GTTACATATGATAAGCTAGGTCTAATATTAAACATGCAAAA-TTTAAGCTTCTCTTTTGACCATT
31779832 TAAAACAAAACAAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCT
260 TAAAACAAAACAAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCT
31779897 ATTAAGTTCATATACAATA
325 ATTAAGTTCATATACAATA
* * *
31779916 TAATAATTTTATATATCAACATTGACCATTTTCTATTGATAAAATTTTTATTATGTTATCAGTAG
1 TAATAATTTTATATATCAACATTTACCATTTTCTATTGATAAAAATTTAATTATGTTATCAGTAG
* * *
31779981 AAAAAAATTCTGTAGAAATACCAATTGTAACACCCCTAACCCTTATCCGTTACCGAATTAGGGTT
66 AAAAAACTTCTGTAGAAATACCATTTGTAACACCCCTAACCCGTATCCGTTACCGAATTAGGGTT
*
31780046 AAGAGGCATTACTAATCAAAACACAACTCAGAACAGACATTCATTAAAGTTCAATAATTATAACA
131 AAGAGGCATTACTAATCAAAACACAACTCAGAACAAACATTCATTAAAGTTCAATAATTATAACA
31780111 GTTACATATGATAAGCTAGGTCTAATATTAAACATGCAAAATTTTAAGCTTCTCTTTTGACCATT
196 GTTACATATGATAAGCTAGGTCTAATATTAAACATGCAAAA-TTTAAGCTTCTCTTTTGACCATT
*
31780176 TAAAACAAAACCAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCT
260 TAAAACAAAACAAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCT
31780241 ATTAAGTTCATATACAATA
325 ATTAAGTTCATATACAATA
* *
31780260 TAATAATTTTATATATCAACATTTACCATTTTCTATTGATAAAAATTTCATTATGTTATCAATAG
1 TAATAATTTTATATATCAACATTTACCATTTTCTATTGATAAAAATTTAATTATGTTATCAGTAG
* *
31780325 AAAAAACTTCTGTAGAAATACCATTTGTAACACCCCTAACCCGTATTCGTTGCCGAATTAGGGTT
66 AAAAAACTTCTGTAGAAATACCATTTGTAACACCCCTAACCCGTATCCGTTACCGAATTAGGGTT
31780390 AAGAGGCATTACTAATCAAAACACAACTCAGAACAAACATTCATTAAAGTTCAATAATTATAACA
131 AAGAGGCATTACTAATCAAAACACAACTCAGAACAAACATTCATTAAAGTTCAATAATTATAACA
*
31780455 GTTCCATATGATAAGCTAGGTCTAATATTAAACATGCAAAATTTAAGCTTCTCTTTTGACCATTT
196 GTTACATATGATAAGCTAGGTCTAATATTAAACATGCAAAATTTAAGCTTCTCTTTTGACCATTT
31780520 AAAACAAAACAAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCTA
261 AAAACAAAACAAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCTA
*
31780585 TTAAATTCATATACAATA
326 TTAAGTTCATATACAATA
31780603 TAA
1 TAA
31780606 CAAATTACGA
Statistics
Matches: 664, Mismatches: 26, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
343 108 0.16
344 556 0.84
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (343 bp):
TAATAATTTTATATATCAACATTTACCATTTTCTATTGATAAAAATTTAATTATGTTATCAGTAG
AAAAAACTTCTGTAGAAATACCATTTGTAACACCCCTAACCCGTATCCGTTACCGAATTAGGGTT
AAGAGGCATTACTAATCAAAACACAACTCAGAACAAACATTCATTAAAGTTCAATAATTATAACA
GTTACATATGATAAGCTAGGTCTAATATTAAACATGCAAAATTTAAGCTTCTCTTTTGACCATTT
AAAACAAAACAAAGACATTACAAACTAGCAAATCCATAAGGAAATAAACCAATTTCGTATGGCTA
TTAAGTTCATATACAATA
Found at i:31781501 original size:42 final size:42
Alignment explanation
Indices: 31781357--31781587 Score: 227
Period size: 42 Copynumber: 5.5 Consensus size: 42
31781347 TTTAAACAGA
* * * * *
31781357 TTCACCGGCACTT-AGCCTGCTAGGCTTAAAGCCTGAT-TCAG
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATATTAT
* * * *
31781398 TACACCGGCACTT-AGCCTGCTAGACATATAGTCTGA-AATGT
1 TTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGATATTAT
* *
31781439 TTCACCGGCATTAAGTCTGCTAGACGTAAAGTCTGATATTAT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTAT
* * * * *
31781481 TTCACCAGTATTAAGCCTGCTATACATAAAGTTTGAAATTAT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTAT
* * *
31781523 TTCACCGACATTAAGCCTGCTAGACGTAAAGTCTGATATTGT
1 TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTAT
* *
31781565 TTCACTGGCAATAAGCCTGCTAG
1 TTCACCGGCATTAAGCCTGCTAG
31781588 GCGCTAAGCC
Statistics
Matches: 154, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
40 2 0.01
41 60 0.39
42 92 0.60
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (42 bp):
TTCACCGGCATTAAGCCTGCTAGACATAAAGTCTGATATTAT
Found at i:31799545 original size:3 final size:3
Alignment explanation
Indices: 31799537--31799593 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
31799527 AGGCTAATAA
* *
31799537 CAT CAT CAT CAT CAT CAT CAT CGT CGT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
31799585 CAT CAT CAT
1 CAT CAT CAT
31799594 ATAGGTGTGT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.30, C:0.33, G:0.04, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:31800426 original size:33 final size:33
Alignment explanation
Indices: 31800384--31800449 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
31800374 AGCATGGTTA
31800384 AATTTTAAACTTTGTAAAGCTTATTTTTTTGTG
1 AATTTTAAACTTTGTAAAGCTTATTTTTTTGTG
31800417 AATTTTAAACTTTGTAAAGCTTATTTTTTTGTG
1 AATTTTAAACTTTGTAAAGCTTATTTTTTTGTG
31800450 TAAGCAAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (33 bp):
AATTTTAAACTTTGTAAAGCTTATTTTTTTGTG
Found at i:31801601 original size:14 final size:15
Alignment explanation
Indices: 31801584--31801621 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
31801574 AACCCTTAAA
31801584 CCATAATCTC-TAA-T
1 CCATAAT-TCGTAATT
31801598 CCATAATTCGTAATT
1 CCATAATTCGTAATT
31801613 CCATAATTC
1 CCATAATTC
31801622 ATAAACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 10 0.45
15 10 0.45
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.37
Consensus pattern (15 bp):
CCATAATTCGTAATT
Found at i:31803137 original size:28 final size:29
Alignment explanation
Indices: 31803091--31803207 Score: 112
Period size: 29 Copynumber: 4.1 Consensus size: 29
31803081 GCTTTCCTTT
* *
31803091 CAGAGTCTCGCCACGAAGGCATCCTTTTAA
1 CAGAGT-TAGCCACAAAGGCATCCTTTTAA
* * *
31803121 CAGAGTTTGCCAC-AAGGCATTCATTTAA
1 CAGAGTTAGCCACAAAGGCATCCTTTTAA
** *
31803149 TTGAGATAGCCACAAAGGCATCCTTTTAA
1 CAGAGTTAGCCACAAAGGCATCCTTTTAA
* * *
31803178 CAGAGATAGCCATAAAGGCTTCC-TTTAA
1 CAGAGTTAGCCACAAAGGCATCCTTTTAA
31803206 CA
1 CA
31803208 AAGAACGTTA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
28 29 0.40
29 38 0.52
30 6 0.08
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (29 bp):
CAGAGTTAGCCACAAAGGCATCCTTTTAA
Found at i:31803176 original size:29 final size:29
Alignment explanation
Indices: 31803100--31803373 Score: 156
Period size: 28 Copynumber: 9.7 Consensus size: 29
31803090 TCAGAGTCTC
* * *
31803100 GCCACGAAGGCATCCTTTTAACAGAGTTT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * **
31803129 GCCAC-AAGGCATTCATTTAATTGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
31803157 GCCACAAAGGCATCCTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
31803186 GCCATAAAGGCTTCC-TTTAACAAAGA-A
1 GCCACAAAGGCATCCTTTTAACAGAGATA
** * **
31803213 CGTTACAAA-GAATTTTTTTAACAGAGATCA
1 -GCCACAAAGGCATCCTTTTAACAGAGAT-A
*
31803243 -CCACAAAGG-ATTCC-TTTAACAGAGATC
1 GCCACAAAGGCA-TCCTTTTAACAGAGATA
* * * * * *
31803270 GCCACAAAGACTTCCTTTTAATAAACATT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * * *
31803299 TCCACAAGGGCGTCTTTTTAACAGAGATT
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * *
31803328 GTCATAAAGGCGTCC-TTT--CAAAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
31803354 GCCACAAAGGC-TCACTTTTA
1 GCCACAAAGGCATC-CTTTTA
31803374 CGAATATAAG
Statistics
Matches: 183, Mismatches: 49, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
25 2 0.01
26 16 0.09
27 6 0.03
28 79 0.43
29 79 0.43
30 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (29 bp):
GCCACAAAGGCATCCTTTTAACAGAGATA
Found at i:31806116 original size:7 final size:7
Alignment explanation
Indices: 31806104--31806132 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
31806094 TGATGGAAGA
31806104 AAGAAAG
1 AAGAAAG
31806111 AAGAAAG
1 AAGAAAG
31806118 AAGAAAG
1 AAGAAAG
31806125 AAGAAAG
1 AAGAAAG
31806132 A
1 A
31806133 TTAAGCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:31810067 original size:16 final size:16
Alignment explanation
Indices: 31810046--31810076 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31810036 GTGTTCTTAC
31810046 TTTCTAAGTTTTTTGG
1 TTTCTAAGTTTTTTGG
*
31810062 TTTCTAGGTTTTTTG
1 TTTCTAAGTTTTTTG
31810077 CTCAATTTAT
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:0.10, C:0.06, G:0.19, T:0.65
Consensus pattern (16 bp):
TTTCTAAGTTTTTTGG
Found at i:31812138 original size:4 final size:4
Alignment explanation
Indices: 31812125--31812155 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
31812115 TGGTTTTTTA
31812125 AATT -ATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
31812156 TTAAAAATAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:31814089 original size:14 final size:14
Alignment explanation
Indices: 31814072--31814106 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31814062 ATAAAATATA
*
31814072 AATTTATATTTAAT
1 AATTCATATTTAAT
*
31814086 AATTCATTTTTAAT
1 AATTCATATTTAAT
31814100 AATTCAT
1 AATTCAT
31814107 TAATAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTCATATTTAAT
Found at i:31814107 original size:14 final size:14
Alignment explanation
Indices: 31814080--31814107 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31814070 TAAATTTATA
31814080 TTTAATAATTCATT
1 TTTAATAATTCATT
31814094 TTTAATAATTCATT
1 TTTAATAATTCATT
31814108 AATAAATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:31814578 original size:19 final size:19
Alignment explanation
Indices: 31814556--31814593 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31814546 TCAATCGTCC
31814556 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
31814575 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
31814594 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:31822579 original size:422 final size:422
Alignment explanation
Indices: 31821795--31822639 Score: 1690
Period size: 422 Copynumber: 2.0 Consensus size: 422
31821785 TAATGACTCA
31821795 CCTCTCTTTCTTTACAACCCTACCTGGTGTTCAGTTTTCATTCATTACTTTATTCACGCAATGAG
1 CCTCTCTTTCTTTACAACCCTACCTGGTGTTCAGTTTTCATTCATTACTTTATTCACGCAATGAG
31821860 GACATTGTTTGTTTTTAAAGGGGGTAAGGCAAATAATTGCTCAAAATTTTTAAAATTTTCAAGTA
66 GACATTGTTTGTTTTTAAAGGGGGTAAGGCAAATAATTGCTCAAAATTTTTAAAATTTTCAAGTA
31821925 TGTTTCAAATCATTTCTTTTAGAAGTATGTTTTAATTAATGAATGTTTAGAGAAATTCTTTTTAA
131 TGTTTCAAATCATTTCTTTTAGAAGTATGTTTTAATTAATGAATGTTTAGAGAAATTCTTTTTAA
31821990 TAAGATAGCTTGTATGCAAGCATGAATGATGATTTTATCTGAGTGATTGTATGTTATCATGAAAA
196 TAAGATAGCTTGTATGCAAGCATGAATGATGATTTTATCTGAGTGATTGTATGTTATCATGAAAA
31822055 ATGGAATGTTTTTATGATCTTAGTCTTAGGTAATGTTTGCTATGAAAACTTAGTTTCTCTTGAGA
261 ATGGAATGTTTTTATGATCTTAGTCTTAGGTAATGTTTGCTATGAAAACTTAGTTTCTCTTGAGA
31822120 TTAGACATGCATGAAGGTTTATATTTTTAGAATTGACTTAATAAATTTCTTGAGGCGAAATCCTA
326 TTAGACATGCATGAAGGTTTATATTTTTAGAATTGACTTAATAAATTTCTTGAGGCGAAATCCTA
31822185 GGGGACATAAAAATCTAAAATGATATATGCAT
391 GGGGACATAAAAATCTAAAATGATATATGCAT
31822217 CCTCTCTTTCTTTACAACCCTACCTGGTGTTCAGTTTTCATTCATTACTTTATTCACGCAATGAG
1 CCTCTCTTTCTTTACAACCCTACCTGGTGTTCAGTTTTCATTCATTACTTTATTCACGCAATGAG
31822282 GACATTGTTTGTTTTTAAAGGGGGTAAGGCAAATAATTGCTCAAAATTTTTAAAATTTTCAAGTA
66 GACATTGTTTGTTTTTAAAGGGGGTAAGGCAAATAATTGCTCAAAATTTTTAAAATTTTCAAGTA
31822347 TGTTTCAAATCATTTCTTTTAGAAGTATGTTTTAATTAATGAATGTTTAGAGAAATTCTTTTTAA
131 TGTTTCAAATCATTTCTTTTAGAAGTATGTTTTAATTAATGAATGTTTAGAGAAATTCTTTTTAA
31822412 TAAGATAGCTTGTATGCAAGCATGAATGATGATTTTATCTGAGTGATTGTATGTTATCATGAAAA
196 TAAGATAGCTTGTATGCAAGCATGAATGATGATTTTATCTGAGTGATTGTATGTTATCATGAAAA
31822477 ATGGAATGTTTTTATGATCTTAGTCTTAGGTAATGTTTGCTATGAAAACTTAGTTTCTCTTGAGA
261 ATGGAATGTTTTTATGATCTTAGTCTTAGGTAATGTTTGCTATGAAAACTTAGTTTCTCTTGAGA
31822542 TTAGACATGCATGAAGGTTTATATTTTTAGAATTGACTTAATAAATTTCTTGAGGCGAAATCCTA
326 TTAGACATGCATGAAGGTTTATATTTTTAGAATTGACTTAATAAATTTCTTGAGGCGAAATCCTA
31822607 GGGGACATAAAAATCTAAAATGATATATGCAT
391 GGGGACATAAAAATCTAAAATGATATATGCAT
31822639 C
1 C
31822640 ATTTTTCTTT
Statistics
Matches: 423, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
422 423 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.40
Consensus pattern (422 bp):
CCTCTCTTTCTTTACAACCCTACCTGGTGTTCAGTTTTCATTCATTACTTTATTCACGCAATGAG
GACATTGTTTGTTTTTAAAGGGGGTAAGGCAAATAATTGCTCAAAATTTTTAAAATTTTCAAGTA
TGTTTCAAATCATTTCTTTTAGAAGTATGTTTTAATTAATGAATGTTTAGAGAAATTCTTTTTAA
TAAGATAGCTTGTATGCAAGCATGAATGATGATTTTATCTGAGTGATTGTATGTTATCATGAAAA
ATGGAATGTTTTTATGATCTTAGTCTTAGGTAATGTTTGCTATGAAAACTTAGTTTCTCTTGAGA
TTAGACATGCATGAAGGTTTATATTTTTAGAATTGACTTAATAAATTTCTTGAGGCGAAATCCTA
GGGGACATAAAAATCTAAAATGATATATGCAT
Found at i:31823774 original size:14 final size:14
Alignment explanation
Indices: 31823755--31823782 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31823745 TAAAGTTATA
31823755 TTTAATAATTCATT
1 TTTAATAATTCATT
31823769 TTTAATAATTCATT
1 TTTAATAATTCATT
31823783 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:31826378 original size:23 final size:23
Alignment explanation
Indices: 31826352--31826446 Score: 127
Period size: 23 Copynumber: 4.1 Consensus size: 23
31826342 GACGTTACAA
*
31826352 AATACGCCACAAAGGCATCATAG
1 AATACGCCACAAAGGCATCACAG
* *
31826375 AATACACCACAAAGGCATCGCAG
1 AATACGCCACAAAGGCATCACAG
* * *
31826398 AATACGACACAAAGGCAGCATAG
1 AATACGCCACAAAGGCATCACAG
*
31826421 AATACGCCAAAAAGGCATCACAG
1 AATACGCCACAAAGGCATCACAG
31826444 AAT
1 AAT
31826447 TGATCTTATC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 60 1.00
ACGTcount: A:0.46, C:0.25, G:0.18, T:0.11
Consensus pattern (23 bp):
AATACGCCACAAAGGCATCACAG
Found at i:31826409 original size:46 final size:46
Alignment explanation
Indices: 31826352--31826446 Score: 145
Period size: 46 Copynumber: 2.1 Consensus size: 46
31826342 GACGTTACAA
* * * *
31826352 AATACGCCACAAAGGCATCATAGAATACACCACAAAGGCATCGCAG
1 AATACGACACAAAGGCAGCATAGAATACACCAAAAAGGCATCACAG
*
31826398 AATACGACACAAAGGCAGCATAGAATACGCCAAAAAGGCATCACAG
1 AATACGACACAAAGGCAGCATAGAATACACCAAAAAGGCATCACAG
31826444 AAT
1 AAT
31826447 TGATCTTATC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.46, C:0.25, G:0.18, T:0.11
Consensus pattern (46 bp):
AATACGACACAAAGGCAGCATAGAATACACCAAAAAGGCATCACAG
Found at i:31845230 original size:50 final size:50
Alignment explanation
Indices: 31845126--31845416 Score: 397
Period size: 50 Copynumber: 5.7 Consensus size: 50
31845116 CATGCCAAAT
** * * *
31845126 CCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAACG
* * *
31845177 CCATGTCCCAAACATAGTCTTAC-GGGCGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGGTGCCAACG
31845227 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
*
31845277 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
31845327 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATGATCTCAAGGATGCC-ACTG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--GG-TGCCAAC-G
*
31845383 CCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCT
31845417 TTAACCAAAT
Statistics
Matches: 217, Mismatches: 14, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
50 146 0.67
51 25 0.12
53 5 0.02
55 3 0.01
56 38 0.18
ACGTcount: A:0.21, C:0.32, G:0.21, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACG
Found at i:31850829 original size:23 final size:23
Alignment explanation
Indices: 31850796--31850858 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
31850786 AAAAGACGAA
* *
31850796 TGAACAATAAATATTCTCTGATG
1 TGAACAGTAAATATTCTCTGACG
* *
31850819 TGAATAGTAAATATTCTCTGGCG
1 TGAACAGTAAATATTCTCTGACG
31850842 TGAACAGTAAATATTCT
1 TGAACAGTAAATATTCT
31850859 TTGAAAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (23 bp):
TGAACAGTAAATATTCTCTGACG
Found at i:31854196 original size:29 final size:29
Alignment explanation
Indices: 31854154--31854248 Score: 172
Period size: 29 Copynumber: 3.3 Consensus size: 29
31854144 CAGCTTAGAA
31854154 TCGAGTCTAGAGGTACATGCCAATTTAAG
1 TCGAGTCTAGAGGTACATGCCAATTTAAG
31854183 TCGAGTCTAGAGGTACATGCCAATTTAAG
1 TCGAGTCTAGAGGTACATGCCAATTTAAG
*
31854212 TCGAGTCTAGAGGTACATACCAATTTAAG
1 TCGAGTCTAGAGGTACATGCCAATTTAAG
*
31854241 TCTAGTCT
1 TCGAGTCT
31854249 GAGTCGATAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (29 bp):
TCGAGTCTAGAGGTACATGCCAATTTAAG
Found at i:31870852 original size:27 final size:26
Alignment explanation
Indices: 31870814--31871116 Score: 372
Period size: 27 Copynumber: 11.3 Consensus size: 26
31870804 AGAGGTCGAT
*
31870814 AAATGACTGAAATACCCCTATAGGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
*
31870841 AAATGACCGAAATACCCCTATAAGGTA
1 AAATGACCGAAATACCCC-ATAGGGTA
* *
31870868 GAATGACCGAAATACCCCCATATGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
* *
31870895 GAATGATCGAAATACCCCATAGGGTA
1 AAATGACCGAAATACCCCATAGGGTA
31870921 AAATGACCGAAATACCTCCATAGGGTA
1 AAATGACCGAAATACC-CCATAGGGTA
* *
31870948 AATTGATCGAAATAACCCCATAGGGTA
1 AAATGACCGAAAT-ACCCCATAGGGTA
*
31870975 AAATGACCGAAATACTCCCATAGGGTT
1 AAATGACCGAAATAC-CCCATAGGGTA
* *
31871002 AAATAACCGAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCC-CATAGGGTA
* **
31871029 GAATGACAAAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
31871056 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
*
31871083 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATA-CCCCATAGGGTA
31871110 AAATGAC
1 AAATGAC
31871117 TGTCATACCC
Statistics
Matches: 243, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
26 29 0.12
27 204 0.84
28 10 0.04
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.19
Consensus pattern (26 bp):
AAATGACCGAAATACCCCATAGGGTA
Found at i:31871244 original size:33 final size:33
Alignment explanation
Indices: 31871202--31871279 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
31871192 TCACGTACGA
31871202 TGTTATGTCACGATATATTGCGTGAGGATGGGT
1 TGTTATGTCACGATATATTGCGTGAGGATGGGT
31871235 TGTTATGTCACGATATATTGCGTGAGGATGGGT
1 TGTTATGTCACGATATATTGCGTGAGGATGGGT
31871268 TGTTATGTCACG
1 TGTTATGTCACG
31871280 TACTGATAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.21, C:0.10, G:0.32, T:0.37
Consensus pattern (33 bp):
TGTTATGTCACGATATATTGCGTGAGGATGGGT
Found at i:31877563 original size:115 final size:115
Alignment explanation
Indices: 31877418--31877667 Score: 457
Period size: 115 Copynumber: 2.2 Consensus size: 115
31877408 AAACATGCTA
31877418 CATTAGTAGTAAATTTTTTAAGGAATAAGGATATCAAAGATACTTGAGATTCGAGTGAAGTCAGA
1 CATTAGTAGTAAATTTTTTAAGGAATAAGGATATCAAAGATACTTGAGATTCGAGTGAAGTCAGA
*
31877483 GCATCCACTTTATGTA-TCTGAGTAAATTTTTTAAGCAAAATTATTAAACC
66 GCATCCACTTTATGTATTC-GAGTAAAGTTTTTAAGCAAAATTATTAAACC
31877533 CATTAGTAGTAAATTTTTTAAGGAATAAGGATATCAAAGATACTTGAGATTCGAGTGAAGTCAGA
1 CATTAGTAGTAAATTTTTTAAGGAATAAGGATATCAAAGATACTTGAGATTCGAGTGAAGTCAGA
*
31877598 GCGTCCACTTTATGTATTCGAGTAAAGTTTTTAAGCAAAATTATTAAACC
66 GCATCCACTTTATGTATTCGAGTAAAGTTTTTAAGCAAAATTATTAAACC
*
31877648 CATTAGTAGTAAAGTTTTTA
1 CATTAGTAGTAAATTTTTTA
31877668 TGTATCTCGT
Statistics
Matches: 131, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
115 129 0.98
116 2 0.02
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (115 bp):
CATTAGTAGTAAATTTTTTAAGGAATAAGGATATCAAAGATACTTGAGATTCGAGTGAAGTCAGA
GCATCCACTTTATGTATTCGAGTAAAGTTTTTAAGCAAAATTATTAAACC
Found at i:31878644 original size:20 final size:20
Alignment explanation
Indices: 31878619--31878739 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 20
31878609 TATTTTAATA
31878619 TGGCCTTTGTGGCATTCTGT
1 TGGCCTTTGTGGCATTCTGT
*
31878639 TGGCCTTTGTGGCATTTTGT
1 TGGCCTTTGTGGCATTCTGT
* * *
31878659 TAGCCTTTAG-GTGTATTCTAAT
1 TGGCCTTT-GTG-GCATTCT-GT
* *
31878681 ATGGCCTTTGTGGCATTTTGC
1 -TGGCCTTTGTGGCATTCTGT
** *
31878702 TAACCTTTGTGGTATTCTGAT
1 TGGCCTTTGTGGCATTCTG-T
* *
31878723 ATGGCCTCTATGGCATT
1 -TGGCCTTTGTGGCATT
31878740 TTGTCAGTTT
Statistics
Matches: 74, Mismatches: 20, Indels: 12
0.70 0.19 0.11
Matches are distributed among these distances:
20 42 0.57
21 6 0.08
22 18 0.24
23 8 0.11
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (20 bp):
TGGCCTTTGTGGCATTCTGT
Found at i:31878737 original size:42 final size:42
Alignment explanation
Indices: 31878622--31878742 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
31878612 TTTAATATGG
* * *
31878622 CCTTTGTGGCATTCTG-T-TGGCCTTTGTGGCATTTTGTTAG
1 CCTTTGTGGTATTCTGATATGGCCTTTGTGGCATTTTGCTAA
*
31878662 CCTTTAG-GTGTATTCTAATATGGCCTTTGTGGCATTTTGCTAA
1 CCTTT-GTG-GTATTCTGATATGGCCTTTGTGGCATTTTGCTAA
* *
31878705 CCTTTGTGGTATTCTGATATGGCCTCTATGGCATTTTG
1 CCTTTGTGGTATTCTGATATGGCCTTTGTGGCATTTTG
31878743 TCAGTTTTAT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
40 6 0.09
41 7 0.10
42 29 0.42
43 27 0.39
ACGTcount: A:0.13, C:0.17, G:0.24, T:0.45
Consensus pattern (42 bp):
CCTTTGTGGTATTCTGATATGGCCTTTGTGGCATTTTGCTAA
Found at i:31896368 original size:42 final size:43
Alignment explanation
Indices: 31896288--31896401 Score: 106
Period size: 42 Copynumber: 2.6 Consensus size: 43
31896278 CATTTTCTCT
** * **
31896288 ATGCCATAGTCCAACTATGGTCTTACACATATTTACATAT-TG
1 ATGCCATAACCCAGCTATGGTCTTACACATATGCACATATCTG
31896330 ATGCCATAACCCAGCTATGGTCTTACACAGTA-GCACATATCACACTG
1 ATGCCATAACCCAGCTATGGTCTTACACA-TATGCACATAT----CTG
* *
31896377 ATGCCATAACCTAGATATGGTCTTA
1 ATGCCATAACCCAGCTATGGTCTTA
31896402 TACGAAAATC
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
42 32 0.54
43 2 0.03
47 25 0.42
ACGTcount: A:0.32, C:0.25, G:0.14, T:0.30
Consensus pattern (43 bp):
ATGCCATAACCCAGCTATGGTCTTACACATATGCACATATCTG
Found at i:31896429 original size:47 final size:47
Alignment explanation
Indices: 31896328--31896430 Score: 118
Period size: 47 Copynumber: 2.2 Consensus size: 47
31896318 ATTTACATAT
* ** *
31896328 TGATGCCATAACCCAGCTATGGTCTTACACAGTAGCACATATCACAC
1 TGATGCCATAACCCAGATATGGTCTTACACAAAAGCACATATAACAC
* * *
31896375 TGATGCCATAACCTAGATATGGTCTTATACGAAAATCACATATAACA-
1 TGATGCCATAACCCAGATATGGTCTTACAC-AAAAGCACATATAACAC
*
31896422 TGTTGCCAT
1 TGATGCCAT
31896431 GGTCCAACCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 35 0.74
48 12 0.26
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (47 bp):
TGATGCCATAACCCAGATATGGTCTTACACAAAAGCACATATAACAC
Found at i:31897914 original size:16 final size:16
Alignment explanation
Indices: 31897893--31897924 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
31897883 TGATTGAAAG
*
31897893 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
31897909 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
31897925 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:31900819 original size:445 final size:445
Alignment explanation
Indices: 31899983--31901329 Score: 2676
Period size: 445 Copynumber: 3.0 Consensus size: 445
31899973 CAATGCTCGA
*
31899983 TTAACTAAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
1 TTAACTGAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
31900048 CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
66 CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
31900113 CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
131 CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
31900178 TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
196 TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
31900243 GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
261 GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
31900308 TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
326 TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
31900373 GATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
391 GATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
31900428 TTAACTGAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
1 TTAACTGAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
31900493 CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
66 CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
31900558 CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
131 CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
31900623 TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
196 TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
31900688 GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
261 GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
31900753 TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
326 TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
31900818 GATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
391 GATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
31900873 TTAACTGAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
1 TTAACTGAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
31900938 CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
66 CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
31901003 CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
131 CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
31901068 TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
196 TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
31901133 GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
261 GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
31901198 TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
326 TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
*
31901263 TATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
391 GATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
31901318 TTAACTGAAAAT
1 TTAACTGAAAAT
31901330 TTTTTAAAAC
Statistics
Matches: 900, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
445 900 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (445 bp):
TTAACTGAAAATAATCATGCAATTACCTAAAATGAAACTAATTTTACTTAAGTAAAAGCAATTAA
CTAAGTCTAAAAGTATGAATTATAACTCATTTCAAGAGTTATCAGAGGCTAATAGTGCCTTTTCC
CGTATGATGTATGACATGTTTTTTGCATATATGAGAGCCATTTCCACAACTCAAAAATCTCTAAC
TCCTTGTCCTCAAAGCCCTAAACAAAGAAATATTCATCGGATTTCTATTGATAATGTTCAAAAAT
GCGGAGTTGAAGACTTTTATGGTAAGGTGGGTGATGATCTAGCCAATGCCAAATACTAGTTAGAC
TTTTATGGTAAGGTGGGTTATGTTCCCTGGAAGATTTTTTGAGATGTTCCATGTCCCTGTTAAAA
GATGAGGCTTTTTACTGGTGGTCGACTTTAATTGTGGTTGTGCTAAAAGAACGGG
Found at i:31901930 original size:31 final size:31
Alignment explanation
Indices: 31901895--31901957 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
31901885 TTATGGAAGA
31901895 TTGCCTGAATTGAGCTTAATTAAATAGAGAT
1 TTGCCTGAATTGAGCTTAATTAAATAGAGAT
31901926 TTGCCTGAATTGAGCTTAATTAAATAGAGAT
1 TTGCCTGAATTGAGCTTAATTAAATAGAGAT
31901957 T
1 T
31901958 AGAATGCAAA
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:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (31 bp):
TTGCCTGAATTGAGCTTAATTAAATAGAGAT
Found at i:31906720 original size:28 final size:28
Alignment explanation
Indices: 31906688--31906743 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
31906678 ATTTAATTTT
31906688 TTATCTATAAATATTCCTTTTATATGTA
1 TTATCTATAAATATTCCTTTTATATGTA
31906716 TTATCTATAAATATTCCTTTTATATGTA
1 TTATCTATAAATATTCCTTTTATATGTA
31906744 CGTATAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.54
Consensus pattern (28 bp):
TTATCTATAAATATTCCTTTTATATGTA
Found at i:31907036 original size:15 final size:15
Alignment explanation
Indices: 31907013--31907045 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31907003 TTTTTATGTC
31907013 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
31907028 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
31907043 ATT
1 ATT
31907046 ATAGCATTTG
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:31918627 original size:44 final size:44
Alignment explanation
Indices: 31918567--31918921 Score: 268
Period size: 44 Copynumber: 8.2 Consensus size: 44
31918557 TAGTGGCTGG
* *
31918567 GATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *** *
31918611 GATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-TCGCAT-TTA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
*
31918652 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * * *** *
31918695 GATCTTATCTCTCTGAAGTTACAG-AGAGCAGA-TCGCAT-TTA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
* * *
31918736 G-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTCA
* * **
31918780 G-TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATAACA
1 GATCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAAAATCTCA
* * * *
31918824 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAACCAACA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TCA
* * * * *
31918869 -ATCCTATCACCCTGAACTTGCGGTGGAGCGGATTAAAATCTCA
1 GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
31918912 GATCTTATCT
1 GATCTTATCT
31918922 TTCTGATCAA
Statistics
Matches: 238, Mismatches: 55, Indels: 36
0.72 0.17 0.11
Matches are distributed among these distances:
40 40 0.17
41 19 0.08
42 10 0.04
43 21 0.09
44 115 0.48
45 30 0.13
46 3 0.01
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (44 bp):
GATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTCA
Found at i:31918667 original size:40 final size:40
Alignment explanation
Indices: 31918613--31918754 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
31918603 AAATCTCAGA
*
31918613 TCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATTTAG
1 TCTTATCTCCCTGAAGTTACAGAGAGCAGATCGCATTTAG
* * * *** *
31918653 TCTTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAG
1 TCTTATCTCCCTGAAGTTACAG-AGAGCAGA-TCGCAT-TTAG
*
31918696 ATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATTTAG
1 -TCTTATCTCCCTGAAGTTACAGAGAGCAGATCGCATTTAG
31918737 TCTTATCTCCCTGAAGTT
1 TCTTATCTCCCTGAAGTT
31918755 GCAGTGGAGC
Statistics
Matches: 81, Mismatches: 17, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
40 37 0.46
41 9 0.11
42 6 0.07
43 9 0.11
44 20 0.25
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (40 bp):
TCTTATCTCCCTGAAGTTACAGAGAGCAGATCGCATTTAG
Found at i:31918798 original size:84 final size:84
Alignment explanation
Indices: 31918572--31918764 Score: 386
Period size: 84 Copynumber: 2.3 Consensus size: 84
31918562 GCTGGGATCC
31918572 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTACAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTACAGAG
31918637 AGCAGATCGCATTTAGTCT
66 AGCAGATCGCATTTAGTCT
31918656 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTACAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTACAGAG
31918721 AGCAGATCGCATTTAGTCT
66 AGCAGATCGCATTTAGTCT
31918740 TATCTCCCTGAAGTTGCAGTGGAGC
1 TATCTCCCTGAAGTTGCAGTGGAGC
31918765 AGACTAAGTA
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 109 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTCAGATCTTATCTCTCTGAAGTTACAGAG
AGCAGATCGCATTTAGTCT
Found at i:31918845 original size:45 final size:44
Alignment explanation
Indices: 31918737--31918856 Score: 165
Period size: 45 Copynumber: 2.7 Consensus size: 44
31918727 TCGCATTTAG
*
31918737 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
31918781 TCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATAA-CAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAG-TAAGCAAA
*
31918826 TCTTATCTCCCTGAAGTTGCAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
31918857 TTAAAACCAA
Statistics
Matches: 68, Mismatches: 2, Indels: 11
0.84 0.02 0.14
Matches are distributed among these distances:
43 3 0.04
44 28 0.41
45 31 0.46
46 6 0.09
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAA
Found at i:31920604 original size:15 final size:15
Alignment explanation
Indices: 31920581--31920613 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31920571 TTTTTATGTC
31920581 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
31920596 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
31920611 ATT
1 ATT
31920614 ATAGCATTTG
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:31933179 original size:32 final size:32
Alignment explanation
Indices: 31933138--31933201 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
31933128 TTTACAGATG
*
31933138 ATTAAGAGAAAAGTGATGGCTAAATATTGCAA
1 ATTAAGAGAAAAGTGATGCCTAAATATTGCAA
31933170 ATTAAGAGAAAAGTGATGCCTAAATATTGCAA
1 ATTAAGAGAAAAGTGATGCCTAAATATTGCAA
31933202 GGGTTTGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (32 bp):
ATTAAGAGAAAAGTGATGCCTAAATATTGCAA
Found at i:31935240 original size:25 final size:26
Alignment explanation
Indices: 31935212--31935265 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
31935202 TAATTCGTAT
*
31935212 AAAATATT-AATAATTTAAT-AAATTG
1 AAAA-ATTAAATAATTAAATAAAATTG
31935237 AAAAATTAAATAATTAAATAAAATTG
1 AAAAATTAAATAATTAAATAAAATTG
31935263 AAA
1 AAA
31935266 TTTGAGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 14 0.54
26 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAAAATTG
Found at i:31935790 original size:16 final size:15
Alignment explanation
Indices: 31935765--31935798 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
31935755 AAAGTTGATA
*
31935765 ATAATTAATATATATT
1 ATAATAAATATA-ATT
31935781 ATAATAAATATAATT
1 ATAATAAATATAATT
31935796 ATA
1 ATA
31935799 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:31943238 original size:45 final size:44
Alignment explanation
Indices: 31943141--31943258 Score: 146
Period size: 44 Copynumber: 2.7 Consensus size: 44
31943131 TTCTAATCCA
* * * *
31943141 CTCCACTACAACTTTAGGGAGATAGGATTTGTTTATTCAGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGCTTATTCAGTCTG
* * * *
31943185 CCCCACTGCAATTTTAGGGGGATAAGACTTGCTTATTCGGGTCTG
1 CTCCACTGCAACTTTAGGGAGATAAGACTTGCTTATTC-AGTCTG
*
31943230 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTTAGGGAGATAAGACT
31943259 AGATACGATC
Statistics
Matches: 61, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
44 31 0.51
45 30 0.49
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.31
Consensus pattern (44 bp):
CTCCACTGCAACTTTAGGGAGATAAGACTTGCTTATTCAGTCTG
Found at i:31943320 original size:173 final size:173
Alignment explanation
Indices: 31943085--31943510 Score: 510
Period size: 173 Copynumber: 2.5 Consensus size: 173
31943075 AAGATAAATT
* * *
31943085 TGATGCGATCTGCTCTACTGTAA-TTTCAGAGAGATAAGAT-TCATCA-TTCTAATCCACTCCAC
1 TGATACGATCTGCTCT-CTGCAACTTT-AGAGAGATAAGATCT-ATCACTT-TAATCCGCTCCAC
* * ** * *
31943147 TACAACTTTAGGGAGATAGGA-T-TTGTTTATTCAGTCTGCCCCACTGCAATTTTAGGG-GGATA
62 TGCAACTTCAGGGAGATAGGATTATTGGCT-TT-AATCTGCCCCACTGCAACTTTAGGGAGG-TA
* *
31943209 AGACTT-GCTTAT-TCGGGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-C
124 AGA-TTCGC-CATCTCAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACC
*
31943258 TAGATACGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGT
1 T-GATACGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGC
* * *
31943323 AACCTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCATTGCAACTTTAGGGAGGTAAGATTC
65 AACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTGCAACTTTAGGGAGGTAAGATTC
* *
31943388 GCCATCTTAGGTCTGCTCCACTGTAACTTCAGGGAGATAAGACC
130 GCCATCTCAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACC
* * * *
31943432 TGATATGATCTGCTCTCTACAACTTCAGAGAGATAAGATCTATCACTTTAATCTGCTCCACTGCA
1 TGATACGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCA
31943497 ACTTCAGGGAGATA
66 ACTTCAGGGAGATA
31943511 AGACTAGATG
Statistics
Matches: 220, Mismatches: 23, Indels: 20
0.84 0.09 0.08
Matches are distributed among these distances:
172 4 0.02
173 185 0.84
174 27 0.12
175 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (173 bp):
TGATACGATCTGCTCTCTGCAACTTTAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCA
ACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCCCCACTGCAACTTTAGGGAGGTAAGATTCG
CCATCTCAGGTCTGCTCCACTGCAACTTCAGGGAGATAAGACC
Found at i:31943335 original size:84 final size:84
Alignment explanation
Indices: 31943229--31943594 Score: 389
Period size: 84 Copynumber: 4.3 Consensus size: 84
31943219 ATTCGGGTCT
*
31943229 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTTAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATA
31943294 AGATCTATCACTTTAATCC
66 AGATCTATCACTTTAATCC
* * * * * *** * *
31943313 GCTCCACTGTAACCTCAGGGAGATAGGATTATTGGCTTTAATCTGCTC-CATTGCAACTTTAGGG
1 GCTCCACTGCAACTTCAGGGAGATAAGACTA---GATACGATCTGCTCTC--TGCAACTTCAGAG
* ** * *
31943377 AGGTAAGAT-TCGC-CATCTTAGGTCT
61 AGATAAGATCTATCAC-T-TTA-ATCC
* * *
31943402 GCTCCACTGTAACTTCAGGGAGATAAGACCT-GATATGATCTGCTCTCTACAACTTCAGAGAGAT
1 GCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATACGATCTGCTCTCTGCAACTTCAGAGAGAT
*
31943466 AAGATCTATCACTTTAATCT
65 AAGATCTATCACTTTAATCC
* * *
31943486 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGGTCTGCTCTCTGCATCTTCAGAGAGATA
1 GCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATA
* *
31943551 AGACCTATTACTTTAATCC
66 AGATCTATCACTTTAATCC
*
31943570 GCTCCACTGCAACTTCAAGGAGATA
1 GCTCCACTGCAACTTCAGGGAGATA
31943595 GGATTATGGT
Statistics
Matches: 232, Mismatches: 37, Indels: 26
0.79 0.13 0.09
Matches are distributed among these distances:
83 2 0.01
84 126 0.54
85 21 0.09
86 16 0.07
87 15 0.06
88 23 0.10
89 28 0.12
90 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (84 bp):
GCTCCACTGCAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATA
AGATCTATCACTTTAATCC
Found at i:31943377 original size:44 final size:44
Alignment explanation
Indices: 31943229--31943594 Score: 161
Period size: 44 Copynumber: 8.6 Consensus size: 44
31943219 ATTCGGGTCT
* * *** *
31943229 GCTCCACTGCAACTTCAGGGAGATAAGA-CTA-GA-TACGATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTATCACTTTAATCC
* *
31943270 GCT-CTCTGCAACTTTAGAGAGATAAGATCTATCACTTTAATCC
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTATCACTTTAATCC
* * * * ** *
31943313 GCTCCACTGTAACCTCAGGGAGATAGGAT-TATTGGCTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTA-TCACTTTAATCC
* * ** * *
31943357 GCTCCATTGCAACTTTAGGGAGGTAAGAT-TCGC-CATCTTAGGTCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTATCAC-T-TTA-ATCC
* * * * *
31943402 GCTCCACTGTAACTTCAGGGAGATAAGACCTGAT-A---TGATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATCT-ATCACTTTAATCC
* * * * *
31943443 GCT-CTCTACAACTTCAGAGAGATAAGATCTATCACTTTAATCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTATCACTTTAATCC
* * **** *
31943486 GCTCCACTGCAACTTCAGGGAGATAAGA-CTA-GA-TGCGGTCT
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTATCACTTTAATCC
* * * * * *
31943527 GCT-CTCTGCATCTTCAGAGAGATAAGACCTATTACTTTAATCC
1 GCTCCACTGCAACTTTAGGGAGATAAGATCTATCACTTTAATCC
* *
31943570 GCTCCACTGCAACTTCAAGGAGATA
1 GCTCCACTGCAACTTTAGGGAGATA
31943595 GGATTATGGT
Statistics
Matches: 242, Mismatches: 63, Indels: 37
0.71 0.18 0.11
Matches are distributed among these distances:
39 2 0.01
40 65 0.27
41 22 0.09
42 5 0.02
43 27 0.11
44 93 0.38
45 27 0.11
46 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
GCTCCACTGCAACTTTAGGGAGATAAGATCTATCACTTTAATCC
Found at i:31943458 original size:40 final size:40
Alignment explanation
Indices: 31943412--31943556 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 40
31943402 GCTCCACTGT
* *
31943412 AACTTCAGGGAGATAAGACCTGATATGATCTGCTCTCTAC
1 AACTTCAGAGAGATAAGACCTGATATGATCTGCTCTCTGC
* * *
31943452 AACTTCAGAGAGATAAGATCT-ATCACTTTAATCTGCTCCACTGC
1 AACTTCAGAGAGATAAGACCTGAT-A---TGATCTGCT-CTCTGC
* ** *
31943496 AACTTCAGGGAGATAAGA-CTAGATGCGGTCTGCTCTCTGC
1 AACTTCAGAGAGATAAGACCT-GATATGATCTGCTCTCTGC
*
31943536 ATCTTCAGAGAGATAAGACCT
1 AACTTCAGAGAGATAAGACCT
31943557 ATTACTTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 15
0.75 0.12 0.13
Matches are distributed among these distances:
39 2 0.02
40 41 0.49
41 8 0.10
43 10 0.12
44 21 0.25
45 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (40 bp):
AACTTCAGAGAGATAAGACCTGATATGATCTGCTCTCTGC
Found at i:31969121 original size:6 final size:6
Alignment explanation
Indices: 31969110--31969134 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
31969100 CAAATGAGTT
31969110 TATACA TATACA TATACA TATACA T
1 TATACA TATACA TATACA TATACA T
31969135 TACCAATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TATACA
Found at i:31970319 original size:12 final size:10
Alignment explanation
Indices: 31970287--31970313 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31970277 ATAAAACATT
31970287 TAACATAATA
1 TAACATAATA
31970297 TAACATAATA
1 TAACATAATA
31970307 TAACATA
1 TAACATA
31970314 TAATATTTTT
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:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (10 bp):
TAACATAATA
Found at i:31970340 original size:8 final size:9
Alignment explanation
Indices: 31970317--31970341 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31970307 TAACATATAA
31970317 TATTTTTCC
1 TATTTTTCC
31970326 TATTTTTCC
1 TATTTTTCC
31970335 TATTTTT
1 TATTTTT
31970342 ACTTTTAACA
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (9 bp):
TATTTTTCC
Found at i:31973494 original size:101 final size:102
Alignment explanation
Indices: 31973374--31973558 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
31973364 AAAGTGATGG
* *
31973374 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTCTACC-AAATGATAATGGTCACATGTGTAGT
*
31973437 ACTATGTGCAGGCTACTATGCGTACCAGATAGTTTCGA
65 ACTATGTGCAGACTACTATGCGTACCAGATAGTTTCGA
* * ** *
31973475 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTCTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTCTACCAAATGATAATGGTCACATGTGTAGTA
31973540 CTATGTGCAGACTACTATG
66 CTATGTGCAGACTACTATG
31973559 TGAATCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 37 0.50
102 33 0.45
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (102 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTCTACCAAATGATAATGGTCACATGTGTAGTA
CTATGTGCAGACTACTATGCGTACCAGATAGTTTCGA
Found at i:31973504 original size:51 final size:50
Alignment explanation
Indices: 31973374--31973507 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
31973364 AAAGTGATGG
* *
31973374 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAAAATGATAGA
* * * * * *
31973424 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-AGATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAAAAT-G-ATAGA
*
31973475 TCACGTGTGTAGTACTATGTGTAGGCTACTACG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACG
31973508 TCTATCGGAT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.04
50 36 0.51
51 31 0.44
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCAAAATGATAGA
Found at i:31973535 original size:51 final size:50
Alignment explanation
Indices: 31973370--31973556 Score: 198
Period size: 51 Copynumber: 3.7 Consensus size: 50
31973360 AGTGAAAGTG
* * * *
31973370 ATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAAAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTCTACC-AGATGGT
* * *
31973421 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATG-CGTACCAGATAGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTC-TACCAGATGGT
* * * * * *
31973470 TTCGATCACGTGTGTAGTACTATGTGTAGGCTACTACGTCTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTCTACCAGATGGT
*
31973521 AATGGTCACATGTGTAGTACTATGTGCAGACTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
31973557 TGTGAATCGA
Statistics
Matches: 110, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 4 0.04
50 36 0.33
51 68 0.62
52 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTCTACCAGATGGT
Found at i:31973618 original size:45 final size:45
Alignment explanation
Indices: 31973567--31973654 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
31973557 TGTGAATCGA
* * *
31973567 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAT
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCAT
31973612 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACC
31973655 GAGTATCTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGATGAATCCACCAT
Found at i:31977813 original size:19 final size:19
Alignment explanation
Indices: 31977784--31977834 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
31977774 AAAAATTACA
31977784 AAAAATT-AAAATA-ATATT
1 AAAAATTCAAAATATATA-T
*
31977802 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAATATATAT
31977821 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
31977835 TTATTTTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 7 0.24
19 12 0.41
20 10 0.34
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATATATAT
Found at i:31977825 original size:20 final size:19
Alignment explanation
Indices: 31977783--31977834 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
31977773 CAAAAATTAC
31977783 AAAAAATT-AAAATAATAT
1 AAAAAATTCAAAATAATAT
* *
31977801 TAAAAATTCAAAATATTTAT
1 AAAAAATTCAAAATA-ATAT
*
31977821 AAAAATTTCAAAAT
1 AAAAAATTCAAAAT
31977835 TTATTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 7 0.25
19 6 0.21
20 15 0.54
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAAATTCAAAATAATAT
Found at i:31977868 original size:10 final size:10
Alignment explanation
Indices: 31977855--31977880 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
31977845 AAAAAACTAT
31977855 AAAAATTCTA
1 AAAAATTCTA
31977865 AAAAATTCTA
1 AAAAATTCTA
31977875 AAAAAT
1 AAAAAT
31977881 ATATAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAATTCTA
Found at i:31982607 original size:21 final size:21
Alignment explanation
Indices: 31982583--31982625 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
31982573 CAAACACTTC
31982583 CCAAAACACTAACCACTGAAG
1 CCAAAACACTAACCACTGAAG
*
31982604 CCAAAACACTAACCATTGAAG
1 CCAAAACACTAACCACTGAAG
31982625 C
1 C
31982626 AGACATACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.33, G:0.09, T:0.12
Consensus pattern (21 bp):
CCAAAACACTAACCACTGAAG
Found at i:31990448 original size:17 final size:17
Alignment explanation
Indices: 31990426--31990480 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
31990416 TAGTTTATTG
31990426 ATTTTTATCATTTGTTT
1 ATTTTTATCATTTGTTT
* * *
31990443 ATTTTTCTTATTTATTT
1 ATTTTTATCATTTGTTT
31990460 A--TTT-TC-TTTGTTT
1 ATTTTTATCATTTGTTT
31990473 ATTTTTAT
1 ATTTTTAT
31990481 ATTCATTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
13 7 0.23
14 1 0.03
15 6 0.20
16 1 0.03
17 15 0.50
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (17 bp):
ATTTTTATCATTTGTTT
Found at i:31994979 original size:68 final size:68
Alignment explanation
Indices: 31994898--31995048 Score: 173
Period size: 68 Copynumber: 2.2 Consensus size: 68
31994888 CATAGCTCAA
* *
31994898 CTATGGTTTTACACAGTACGAACCAATGTTTAATGTCCT-G-GCAGACTCTATATG-TTCTCACA
1 CTATGGTCTTACACAGTACGAACCAATGTTTAATGTCCTAGTG-A-ACTCCATATGTTTC-CACA
31994960 GCCTAG
63 GCCTAG
* ** * * * *
31994966 CTATGGTCTTACACATTATTAACCCATGTTTAGTGTCCTAGTGAACTCCATTTGTTTCCATAGCC
1 CTATGGTCTTACACAGTACGAACCAATGTTTAATGTCCTAGTGAACTCCATATGTTTCCACAGCC
31995031 TAG
66 TAG
31995034 CTATGGTCTTACACA
1 CTATGGTCTTACACA
31995049 CTATGATCCC
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
68 65 0.92
69 5 0.07
70 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (68 bp):
CTATGGTCTTACACAGTACGAACCAATGTTTAATGTCCTAGTGAACTCCATATGTTTCCACAGCC
TAG
Found at i:31998256 original size:17 final size:17
Alignment explanation
Indices: 31998236--31998329 Score: 70
Period size: 17 Copynumber: 5.5 Consensus size: 17
31998226 TTTTAATAGT
*
31998236 TTTAATATTCAATTTAA
1 TTTAATATTAAATTTAA
31998253 TTTAATACTT-AATTTAA
1 TTTAATA-TTAAATTTAA
* **
31998270 --TAGTATTTTA-TTAA
1 TTTAATATTAAATTTAA
31998284 TTTAATATTAAACTGATTAA
1 TTTAATATTAAA-T--TTAA
* *
31998304 CTTAATATTAAATTTCA
1 TTTAATATTAAATTTAA
31998321 TTTAATATT
1 TTTAATATT
31998330 TATCTTGTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
14 6 0.10
15 5 0.08
16 7 0.11
17 25 0.41
18 2 0.03
19 1 0.02
20 15 0.25
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.52
Consensus pattern (17 bp):
TTTAATATTAAATTTAA
Found at i:32000663 original size:29 final size:29
Alignment explanation
Indices: 32000592--32000666 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
32000582 GTTTCTGTTA
* *
32000592 AAGGAATGCCTTTATAGAAAATCTCTAAT
1 AAGGAATGCCTTTGTGGAAAATCTCTAAT
* * *
32000621 AAGGAATGGCTTTGTGGCAAATCTCTGAT
1 AAGGAATGCCTTTGTGGAAAATCTCTAAT
*
32000650 AAGGAATACCTTTGTGG
1 AAGGAATGCCTTTGTGG
32000667 TAATCAATAA
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (29 bp):
AAGGAATGCCTTTGTGGAAAATCTCTAAT
Found at i:32010932 original size:18 final size:19
Alignment explanation
Indices: 32010899--32010935 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
32010889 AATTCAGTAT
32010899 TCAAAAAATAGTAAAAGAAG
1 TCAAAAAATAG-AAAAGAAG
32010919 TCAAAAAATA-AAAAGAA
1 TCAAAAAATAGAAAAGAA
32010936 ACGCCACTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (19 bp):
TCAAAAAATAGAAAAGAAG
Found at i:32012008 original size:7 final size:8
Alignment explanation
Indices: 32011981--32012007 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
32011971 AATAATTTTG
32011981 TTTTATTT
1 TTTTATTT
32011989 TTTTATTT
1 TTTTATTT
32011997 TTTTATTT
1 TTTTATTT
32012005 TTT
1 TTT
32012008 ACTGCAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTATTT
Found at i:32012278 original size:21 final size:22
Alignment explanation
Indices: 32012253--32012307 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
32012243 AACAGTGGTG
32012253 GCGGTGAGATTAGG-TACTATA
1 GCGGTGAGATTAGGATACTATA
*
32012274 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTATA
*
32012295 GCAGTGAGATTAG
1 GCGGTGAGATTAG
32012308 AAACAGCGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTATA
Found at i:32012630 original size:132 final size:132
Alignment explanation
Indices: 32012388--32012647 Score: 511
Period size: 132 Copynumber: 2.0 Consensus size: 132
32012378 TTAAGGACAT
32012388 TAGATTAAAAATGATATATAATAGAAGTTTTTAAAATTATTTAACAATTACAAAATTAATAAATG
1 TAGATTAAAAATGATATATAATAGAAGTTTTTAAAATTATTTAACAATTACAAAATTAATAAATG
32012453 ATTAAAAATTATTACAATTATATTTATTTTTAATAATAAAGAATTAAAAATGAATTAAAACTAGA
66 ATTAAAAATTATTACAATTATATTTATTTTTAATAATAAAGAATTAAAAATGAATTAAAACTAGA
32012518 AA
131 AA
32012520 TAGATTAAAAATGATATATAATAGAAGTTTTTAAAATTATTTAACAATTACAAAATTAATAAATG
1 TAGATTAAAAATGATATATAATAGAAGTTTTTAAAATTATTTAACAATTACAAAATTAATAAATG
*
32012585 ATTAAAAATTATTACAATTATATTTATTTTTAATAATAAATAATTAAAAATGAATTAAAACTA
66 ATTAAAAATTATTACAATTATATTTATTTTTAATAATAAAGAATTAAAAATGAATTAAAACTA
32012648 AAGAAAAATT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 127 1.00
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.38
Consensus pattern (132 bp):
TAGATTAAAAATGATATATAATAGAAGTTTTTAAAATTATTTAACAATTACAAAATTAATAAATG
ATTAAAAATTATTACAATTATATTTATTTTTAATAATAAAGAATTAAAAATGAATTAAAACTAGA
AA
Found at i:32015455 original size:6 final size:6
Alignment explanation
Indices: 32015440--32015493 Score: 81
Period size: 6 Copynumber: 9.0 Consensus size: 6
32015430 GCAACCCAAC
* * *
32015440 GGGAAG GGGAAA GGGAAG GGGAAG GGGAAA GGGAAG GGGAAG GGGAAA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG
32015488 GGGAAG
1 GGGAAG
32015494 AAGAAGGTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:32015500 original size:18 final size:18
Alignment explanation
Indices: 32015440--32015493 Score: 108
Period size: 18 Copynumber: 3.0 Consensus size: 18
32015430 GCAACCCAAC
32015440 GGGAAGGGGAAAGGGAAG
1 GGGAAGGGGAAAGGGAAG
32015458 GGGAAGGGGAAAGGGAAG
1 GGGAAGGGGAAAGGGAAG
32015476 GGGAAGGGGAAAGGGAAG
1 GGGAAGGGGAAAGGGAAG
32015494 AAGAAGGTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (18 bp):
GGGAAGGGGAAAGGGAAG
Found at i:32016532 original size:21 final size:21
Alignment explanation
Indices: 32016519--32016573 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
32016509 TTTAATTTAG
32016519 TTTTATTTTCTTTTAATACAA
1 TTTTATTTTCTTTTAATACAA
*
32016540 TTTTATTTTCTTTTAAAACAA
1 TTTTATTTTCTTTTAATACAA
32016561 TTTTATTTTCTTT
1 TTTTATTTTCTTT
32016574 GTTCTTCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTATTTTCTTTTAATACAA
Found at i:32017024 original size:17 final size:17
Alignment explanation
Indices: 32016998--32017031 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32016988 TATCTCGGTC
32016998 AAGAAAGTGAG-GTTGG
1 AAGAAAGTGAGTGTTGG
32017014 AAGATAAGTGAGTGTTGG
1 AAGA-AAGTGAGTGTTGG
32017032 TTAATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 7 0.44
18 5 0.31
ACGTcount: A:0.35, C:0.00, G:0.41, T:0.24
Consensus pattern (17 bp):
AAGAAAGTGAGTGTTGG
Found at i:32018789 original size:40 final size:39
Alignment explanation
Indices: 32018691--32018953 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
32018681 TCCTCGTTCA
* * * *
32018691 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
32018730 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32018769 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32018809 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
32018849 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
32018889 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
32018930 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32018954 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:32018913 original size:120 final size:119
Alignment explanation
Indices: 32018691--32018953 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
32018681 TCCTCGTTCA
* * *
32018691 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
32018756 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
32018809 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
32018874 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
32018930 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32018954 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:32018962 original size:41 final size:41
Alignment explanation
Indices: 32018885--32018962 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32018875 TTTGTATCTC
* * *
32018885 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32018926 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32018963 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32026739 original size:40 final size:39
Alignment explanation
Indices: 32026641--32026903 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
32026631 TCCTCGTTCA
* * * *
32026641 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
32026680 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32026719 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
32026759 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
32026799 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
32026839 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
32026880 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
32026904 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:32026863 original size:120 final size:119
Alignment explanation
Indices: 32026641--32026903 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
32026631 TCCTCGTTCA
* * *
32026641 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
32026706 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
32026759 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
32026824 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
32026880 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
32026904 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:32026912 original size:41 final size:41
Alignment explanation
Indices: 32026835--32026912 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
32026825 TTTGTATCTC
* * *
32026835 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
32026876 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
32026913 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:32029822 original size:74 final size:75
Alignment explanation
Indices: 32029730--32029978 Score: 243
Period size: 75 Copynumber: 3.3 Consensus size: 75
32029720 TCAAAACATG
*
32029730 TTTATAGATAAATTGCATAATGGTCACATGTCATATAAACATATATCACAATACACACTTTACAC
1 TTTATAGATAATTTGCATAATGGTCACATGTCATATAAACATATATCACAATACACACTTTACAC
32029795 ATATATACAA
66 ATATATACAA
***** * * * * * *
32029805 TTTA-AGATAATTTGCATAGCAACCACATACTCATTTAAGCATACATCACATTACACA-TATATC
1 TTTATAGATAATTTGCATAATGGTCACAT-GTCATATAAACATATATCACAATACACACTTTA-C
* *
32029868 ACAATACACGAAACCATA
64 AC-AT--A-TATA-CA-A
* *
32029886 TTTATCGATAATTTGCATAATGGTCACATGTCATATAAACACATATCACAATACACACTTTACAC
1 TTTATAGATAATTTGCATAATGGTCACATGTCATATAAACATATATCACAATACACACTTTACAC
32029951 ATATATACAA
66 ATATATACAA
* *
32029961 TTTA-ATATAATTTTCATA
1 TTTATAGATAATTTGCATA
32029979 GCAACTACAT
Statistics
Matches: 132, Mismatches: 32, Indels: 21
0.71 0.17 0.11
Matches are distributed among these distances:
74 32 0.24
75 35 0.27
76 4 0.03
77 2 0.02
78 2 0.02
79 2 0.02
80 4 0.03
81 30 0.23
82 21 0.16
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (75 bp):
TTTATAGATAATTTGCATAATGGTCACATGTCATATAAACATATATCACAATACACACTTTACAC
ATATATACAA
Found at i:32029916 original size:156 final size:155
Alignment explanation
Indices: 32029705--32030055 Score: 567
Period size: 156 Copynumber: 2.3 Consensus size: 155
32029695 AACATTCAAG
** * *
32029705 CATATATCACAATATTCAAAACATGTTTATAGATAAATTGCATAATGGTCACATGTCATATAAAC
1 CATATATCACAATACACAAAACATATTTATAGATAATTTGCATAATGGTCACATGTCATATAAAC
*
32029770 ATATATCACAATACACACTTTACACATATATACAATTTAAGATAATTTGCATAGCAACCACATAC
66 ACATATCACAATACACACTTTACACATATATACAATTTAAGATAATTTGCATAGCAACCACATAC
32029835 TCATTTAAGCATACATCACATTACA
131 TCATTTAAGCATACATCACATTACA
* *
32029860 CATATATCACAATACACGAAACCATATTTATCGATAATTTGCATAATGGTCACATGTCATATAAA
1 CATATATCACAATACAC-AAAACATATTTATAGATAATTTGCATAATGGTCACATGTCATATAAA
* * * *
32029925 CACATATCACAATACACACTTTACACATATATACAATTTAATATAATTTTCATAGCAACTACATC
65 CACATATCACAATACACACTTTACACATATATACAATTTAAGATAATTTGCATAGCAACCACATA
*
32029990 CTCATTTAGGCATACATCACATTACA
130 CTCATTTAAGCATACATCACATTACA
*
32030016 CATATATCACAATACACATAATCATATTTATAGATAATTT
1 CATATATCACAATACACA-AAACATATTTATAGATAATTT
32030056 CGCACTTGAG
Statistics
Matches: 180, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
155 16 0.09
156 164 0.91
ACGTcount: A:0.42, C:0.20, G:0.06, T:0.32
Consensus pattern (155 bp):
CATATATCACAATACACAAAACATATTTATAGATAATTTGCATAATGGTCACATGTCATATAAAC
ACATATCACAATACACACTTTACACATATATACAATTTAAGATAATTTGCATAGCAACCACATAC
TCATTTAAGCATACATCACATTACA
Found at i:32030024 original size:16 final size:15
Alignment explanation
Indices: 32030000--32030039 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
32029990 CTCATTTAGG
*
32030000 CATACATCACATTACA
1 CATA-ATCACAATACA
32030016 CATATATCACAATACA
1 CATA-ATCACAATACA
32030032 CATAATCA
1 CATAATCA
32030040 TATTTATAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (15 bp):
CATAATCACAATACA
Found at i:32037317 original size:27 final size:27
Alignment explanation
Indices: 32037282--32037423 Score: 131
Period size: 27 Copynumber: 5.3 Consensus size: 27
32037272 CCAGAAAAGG
* * *
32037282 GAAGTCTTTGTAGTAATCTATGAAAAC
1 GAAGCCTTTGTGGTAATCTATGAAAAT
*** *
32037309 GAAGCCTTTGTGACGATCTATGAAAAA
1 GAAGCCTTTGTGGTAATCTATGAAAAT
* * *
32037336 GAAGCTTTTGTGGAAATCTATCAAAAT
1 GAAGCCTTTGTGGTAATCTATGAAAAT
* * * *
32037363 GAAGCCTTTGTGGTGACCCATGAAAAG
1 GAAGCCTTTGTGGTAATCTATGAAAAT
** *
32037390 GAAGCCTTTGTGGCGATCCATGAAAAT
1 GAAGCCTTTGTGGTAATCTATGAAAAT
32037417 GAAGCCT
1 GAAGCCT
32037424 CTATTGCGAT
Statistics
Matches: 93, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.27
Consensus pattern (27 bp):
GAAGCCTTTGTGGTAATCTATGAAAAT
Found at i:32037456 original size:81 final size:81
Alignment explanation
Indices: 32037301--32037484 Score: 188
Period size: 81 Copynumber: 2.3 Consensus size: 81
32037291 GTAGTAATCT
* * * * * * * *
32037301 ATGAAAACGAAGCCTTTGTGACGATCTATGAAAAAGAAGCTTTTGTGGAAATCTATCAAAATGAA
1 ATGAAAAGGAAGCCTTTGTGGCGATCCATGAAAAAGAAGCCTCTATGGAAATCCATCAAAAGGAA
* * *
32037366 GCCTTTGTGGTGACCC
66 ACCTCTGTGGCGACCC
* * ** *
32037382 ATGAAAAGGAAGCCTTTGTGGCGATCCATGAAAATGAAGCCTCTATTGCGATCCATGAAAAGGAA
1 ATGAAAAGGAAGCCTTTGTGGCGATCCATGAAAAAGAAGCCTCTATGGAAATCCATCAAAAGGAA
* *
32037447 ACCTCTGTGGCGATCT
66 ACCTCTGTGGCGACCC
* *
32037463 ATAAAAAGGAAGTCTTTGTGGC
1 ATGAAAAGGAAGCCTTTGTGGC
32037485 CATCTATAAA
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.26
Consensus pattern (81 bp):
ATGAAAAGGAAGCCTTTGTGGCGATCCATGAAAAAGAAGCCTCTATGGAAATCCATCAAAAGGAA
ACCTCTGTGGCGACCC
Found at i:32037489 original size:27 final size:27
Alignment explanation
Indices: 32037297--32037494 Score: 164
Period size: 27 Copynumber: 7.3 Consensus size: 27
32037287 CTTTGTAGTA
* * *
32037297 ATCTATGAAAACGAAGCCTTTGTGACG
1 ATCTATAAAAAGGAAGCCTTTGTGGCG
* **
32037324 ATCTATGAAAAA-GAAGCTTTTGTGGAA
1 ATCTAT-AAAAAGGAAGCCTTTGTGGCG
* * *
32037351 ATCTATCAAAATGAAGCCTTTGTGGTG
1 ATCTATAAAAAGGAAGCCTTTGTGGCG
* * *
32037378 ACCCATGAAAAGGAAGCCTTTGTGGCG
1 ATCTATAAAAAGGAAGCCTTTGTGGCG
* * * * * *
32037405 ATCCATGAAAATGAAGCCTCTATTGCG
1 ATCTATAAAAAGGAAGCCTTTGTGGCG
* * * *
32037432 ATCCATGAAAAGGAAACCTCTGTGGCG
1 ATCTATAAAAAGGAAGCCTTTGTGGCG
* *
32037459 ATCTATAAAAAGGAAGTCTTTGTGGCC
1 ATCTATAAAAAGGAAGCCTTTGTGGCG
32037486 ATCTATAAA
1 ATCTATAAA
32037495 GAATGACCCT
Statistics
Matches: 140, Mismatches: 29, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
26 4 0.03
27 132 0.94
28 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.26
Consensus pattern (27 bp):
ATCTATAAAAAGGAAGCCTTTGTGGCG
Found at i:32040119 original size:17 final size:16
Alignment explanation
Indices: 32040091--32040143 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
32040081 AAAACTATAA
32040091 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32040107 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
32040124 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
32040140 TGTA
1 TGTA
32040144 ATAGCTAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:32040400 original size:18 final size:17
Alignment explanation
Indices: 32040379--32040413 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32040369 TTATTATTAA
*
32040379 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
32040397 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
32040414 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:32040496 original size:120 final size:120
Alignment explanation
Indices: 32040362--32040821 Score: 746
Period size: 120 Copynumber: 3.8 Consensus size: 120
32040352 ATCATATTTA
* *
32040362 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATT-A
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTAA
* *
32040426 ATATTCTTATATTAATTTAT-TGAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATGAATTT-TCTAAAATCATAATATATGATACTGTAAAATATAAATT
* * *
32040482 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAATAAAATTCTTAATAATT-A
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAAT-ATTAA
* * *
32040546 ATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
65 ATATTCTTATATGAATTTTCTAAAATCATAATATATGATACTGTAAAATATAAATT
*
32040602 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAGTAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
* * *
32040667 TATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAATTT
66 TATTCTTATATGAATTTTCTAAAATCATAATATATGATACTGTAAAATATAAATT
32040722 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
1 AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
32040787 TATTCTTATATGAATTTTCTAAAATCATAATATAT
66 TATTCTTATATGAATTTTCTAAAATCATAATATAT
32040822 ATAATACTAC
Statistics
Matches: 325, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
119 3 0.01
120 322 0.99
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAAA
TATTCTTATATGAATTTTCTAAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:32040948 original size:14 final size:15
Alignment explanation
Indices: 32040929--32040961 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32040919 CTTTATTCTT
*
32040929 AAAATTCAAAAA-TA
1 AAAATTAAAAAACTA
32040943 AAAATTAAAAAACTA
1 AAAATTAAAAAACTA
32040958 AAAA
1 AAAA
32040962 ATTTAAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAATTAAAAAACTA
Found at i:32041431 original size:58 final size:58
Alignment explanation
Indices: 32041308--32041457 Score: 212
Period size: 59 Copynumber: 2.6 Consensus size: 58
32041298 AAAGTTGCTA
* **
32041308 TGTTTTGGCACTAAAAGCAACCGCAAGCCACAACTACCAGCATGTCAAGGATTAAATT
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
* * * *
32041366 TGTTTTGGCACCAAAAGTAAACCACAAGTCACAAGAACCAGCATGTCAAGGATTGAATT
1 TGTTTTGGCACTAAAAG-CAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
*
32041425 TGTTTGGGCACTAAAAGCAACCGCAA-TCACAAG
1 TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAG
32041458 CCACAAGTAC
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.09
58 23 0.29
59 50 0.62
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.21
Consensus pattern (58 bp):
TGTTTTGGCACTAAAAGCAACCGCAAGTCACAAGAACCAGCATGTCAAGGATTAAATT
Found at i:32058055 original size:55 final size:54
Alignment explanation
Indices: 32057995--32058128 Score: 160
Period size: 55 Copynumber: 2.4 Consensus size: 54
32057985 AATAAGAAAT
* * * *
32057995 AGTATTCCACTATAACAATCGATTTAAACATATATACAATCGATTCAGAAGAAGC
1 AGTATTCAAC-ATAACAATCGATTTAAACATAAAAACAATCGATTCAAAAGAAGC
* * * *
32058050 AGTATTCTAACATGACAATCAATTTAAACATAAAAACAATCGATTTAAAAGAAGT
1 AGTATTC-AACATAACAATCGATTTAAACATAAAAACAATCGATTCAAAAGAAGC
*
32058105 AATATTTCAACATAACAATCGATT
1 AGTA-TTCAACATAACAATCGATT
32058129 CAATCTAAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
55 61 0.92
56 5 0.08
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (54 bp):
AGTATTCAACATAACAATCGATTTAAACATAAAAACAATCGATTCAAAAGAAGC
Found at i:32061519 original size:13 final size:13
Alignment explanation
Indices: 32061491--32061525 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
32061481 AGTATTGAAC
*
32061491 TTTTATTATATTTA
1 TTTTA-TATATATA
32061505 TTTTATATATATA
1 TTTTATATATATA
32061518 TTTTATAT
1 TTTTATAT
32061526 TTGGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 15 0.75
14 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATATATATA
Found at i:32061864 original size:50 final size:50
Alignment explanation
Indices: 32061789--32061942 Score: 163
Period size: 50 Copynumber: 3.1 Consensus size: 50
32061779 TGTGATGTCG
* *
32061789 GGGAAGCAAGATTCGCTATTATAGCTTTAATCTGTTTCGCTGCATTATCT
1 GGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTTCGCTGCATTATCT
* * *
32061839 GGGAAGTAAGATTCGCTGTTGTAGCTTTAATCT-TCTT-GACTGCAATGTC-
1 GGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGT-TTCG-CTGCATTATCT
* * * *
32061888 GGGAAAGCAAGATTCGCCGTTGTGGCTTTAATCTGCTTCAG-TACATTATCT
1 GGG-AAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTTC-GCTGCATTATCT
32061939 GGGA
1 GGGA
32061943 GATAAGGTCT
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
49 5 0.06
50 76 0.89
51 3 0.04
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (50 bp):
GGGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTTCGCTGCATTATCT
Found at i:32062295 original size:175 final size:173
Alignment explanation
Indices: 32061939--32062299 Score: 596
Period size: 175 Copynumber: 2.1 Consensus size: 173
32061929 TACATTATCT
* *
32061939 GGGAGATAAGGTCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACTTGATAC
1 GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
* * *
32062004 GATCTACTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCTACTCTACTGTAATCTCAT
66 GATCTACTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAG
*
32062069 GGAGATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCA
131 GGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCA
* *
32062112 AGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
1 GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
*
32062177 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCATTCCACTGTAATCTC
66 GATCTACTCTACTGTAACTTC--AGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTC
* * *
32062242 AGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTTA
129 AGGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCA
32062287 GGGAGATAAGATC
1 GGGAGATAAGATC
32062300 CGCCATCTTC
Statistics
Matches: 173, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
173 82 0.47
175 91 0.53
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (173 bp):
GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
GATCTACTCTACTGTAACTTCAGAGATAAGATCCTTTATTTTAATCCACTCCACTGTAATCTCAG
GGAAATAGGATTACTAGCTTCAATCTGCTCCGCTATAATCTCA
Found at i:32063611 original size:64 final size:65
Alignment explanation
Indices: 32063505--32063669 Score: 278
Period size: 64 Copynumber: 2.6 Consensus size: 65
32063495 CCCTTTGGTC
* *
32063505 TCAAGGCGCCCTTTGCGGGTTTTCACCTTAGCCTCTCCATTTTTACTTTAC-TTTTTTTAAGGAA
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTACTTTACTTTTTTTTAAGGAA
*
32063569 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCTATTTTTACTTTACTTTTTTTTAAGGAA
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTACTTTACTTTTTTTTAAGGAA
* *
32063634 TCAAAGCGCCCTTTGCGGGTTTTCACTTTGGTCTCT
1 TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCT
32063670 TTCCTTCAAG
Statistics
Matches: 95, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
64 48 0.51
65 47 0.49
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (65 bp):
TCAAAGCGCCCTTTGCGGGTTTTCACCTTGGCCTCTCCATTTTTACTTTACTTTTTTTTAAGGAA
Found at i:32074901 original size:21 final size:21
Alignment explanation
Indices: 32074858--32074901 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
32074848 AATCGAAGCT
* *
32074858 TAAATAAAATTAGAATAATAA
1 TAAATAAAAATAAAATAATAA
32074879 TAAATAAAAATAAAACTAA-AA
1 TAAATAAAAATAAAA-TAATAA
32074900 TA
1 TA
32074902 CAATTGACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.25
Consensus pattern (21 bp):
TAAATAAAAATAAAATAATAA
Found at i:32078529 original size:40 final size:41
Alignment explanation
Indices: 32078446--32078591 Score: 176
Period size: 40 Copynumber: 3.6 Consensus size: 41
32078436 TTGAATGATG
* * * *
32078446 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
32078486 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32078526 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
32078567 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
32078592 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 1 0.01
40 82 0.89
41 9 0.10
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:32078598 original size:80 final size:80
Alignment explanation
Indices: 32078446--32078624 Score: 186
Period size: 80 Copynumber: 2.2 Consensus size: 80
32078436 TTGAATGATG
* *
32078446 TCCGGGCTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
32078511 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * * *
32078526 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
32078589 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
32078606 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
32078625 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 7
0.81 0.13 0.07
Matches are distributed among these distances:
79 17 0.20
80 60 0.72
81 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTGGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:32088277 original size:50 final size:50
Alignment explanation
Indices: 32088215--32088491 Score: 197
Period size: 50 Copynumber: 5.6 Consensus size: 50
32088205 TTGAAAAGTA
* *
32088215 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAATGCAGTGG
* * ** *** * * **
32088265 AACAGATTGAAGCTATGACGGCGGATCTGGTTTCCCT-G-ATATAGCAATTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCA-AT-GCAGTGG
* *
32088315 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAATGCAGTGG
* * * * *** * **
32088365 AACAGATTGAAGCTACGATGGCGGATCTGGTTTCGC-T-G-ATATAGCAATTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTC-CTTAGCA-AT-GCAGTGG
*
32088415 AAAAGATTGAAGCCACAACGGCGGATCTTACTT-CTTAGCAATGCGGTGG
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAATGCAGTGG
* ** *
32088464 AATAGATTGAAGTTACGACGGCGGATCT
1 AAAAGATTGAAGCCACAACGGCGGATCT
32088492 GGTTTCCCCG
Statistics
Matches: 164, Mismatches: 53, Indels: 21
0.69 0.22 0.09
Matches are distributed among these distances:
48 3 0.02
49 32 0.20
50 124 0.76
51 4 0.02
52 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (50 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAATGCAGTGG
Found at i:32088341 original size:100 final size:100
Alignment explanation
Indices: 32088213--32088499 Score: 495
Period size: 100 Copynumber: 2.9 Consensus size: 100
32088203 GGTTGAAAAG
32088213 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
*
32088278 TATGACGGCGGATCTGGTTTCCCTGATATAGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATAGCAAT
32088313 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
* *
32088378 TACGATGGCGGATCTGGTTTCGCTGATATAGCAAT
66 TACGACGGCGGATCTGGTTTCCCTGATATAGCAAT
* * * * *
32088413 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CTTAGCAATGCGGTGGAATAGATTGAAGT
1 TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
32088477 TACGACGGCGGATCTGGTTTCCC
66 TACGACGGCGGATCTGGTTTCCC
32088500 CGACATTGCA
Statistics
Matches: 177, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
99 45 0.25
100 132 0.75
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (100 bp):
TAAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCTTAGCAGTGCAGCGGAACAGATTGAAGC
TACGACGGCGGATCTGGTTTCCCTGATATAGCAAT
Found at i:32090491 original size:27 final size:28
Alignment explanation
Indices: 32090456--32090509 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
32090446 ACAATTCAAA
*
32090456 ATACATTTTTTTA-TATTATACATATAT
1 ATACATTTTTTTAGTATTATAAATATAT
*
32090483 ATACGTTTTTTTAGTTATTATAAATAT
1 ATACATTTTTTTAG-TATTATAAATAT
32090510 TTCTCTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
29 11 0.48
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (28 bp):
ATACATTTTTTTAGTATTATAAATATAT
Found at i:32098659 original size:34 final size:34
Alignment explanation
Indices: 32098613--32098680 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
32098603 TAAATTCTAC
* * *
32098613 CCCCATCTGCTACACATCAACTCTGTTCAACCAA
1 CCCCATCCGCTACACACCAACTCTGTCCAACCAA
*
32098647 CCCCATCCGCTACATACCAACTCTGTCCAACCAA
1 CCCCATCCGCTACACACCAACTCTGTCCAACCAA
32098681 TCATACCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.29, C:0.44, G:0.06, T:0.21
Consensus pattern (34 bp):
CCCCATCCGCTACACACCAACTCTGTCCAACCAA
Found at i:32099768 original size:21 final size:20
Alignment explanation
Indices: 32099742--32099816 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
32099732 AAATTTAAAC
32099742 AACAAAAAGAAAGAAAGAAAA
1 AACAAAAAGAAA-AAAGAAAA
*
32099763 AACAAAAAGAATAAAGAGAAAG
1 AACAAAAAGAA-AAA-AGAAAA
* *
32099785 AA-AGAAAGAAAAAA-CAAA
1 AACAAAAAGAAAAAAGAAAA
*
32099803 AACAAAAACAAAAA
1 AACAAAAAGAAAAA
32099817 CAAAAAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
18 4 0.09
19 10 0.22
20 3 0.07
21 20 0.44
22 8 0.18
ACGTcount: A:0.80, C:0.07, G:0.12, T:0.01
Consensus pattern (20 bp):
AACAAAAAGAAAAAAGAAAA
Done.