Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 116 of 144
Found at i:35949181 original size:16 final size:16
Alignment explanation
Indices: 35949156--35949201 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
35949146 CACATTAAAA
35949156 TTACCA-AAAATTACT
1 TTACCATAAAATTACT
*
35949171 TTACCATAAAAACTACT
1 TTACCAT-AAAATTACT
35949188 TTA-CATTAAAATTA
1 TTACCA-TAAAATTA
35949202 ACAAACAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.23
16 8 0.31
17 12 0.46
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.35
Consensus pattern (16 bp):
TTACCATAAAATTACT
Found at i:35951331 original size:25 final size:25
Alignment explanation
Indices: 35951297--35951347 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35951287 CTTTTTAATG
35951297 AATGACAGCCATTGCATGCATGCTA
1 AATGACAGCCATTGCATGCATGCTA
35951322 AATGACAGCCATTGCATGCATGCTA
1 AATGACAGCCATTGCATGCATGCTA
35951347 A
1 A
35951348 GGATGCCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
AATGACAGCCATTGCATGCATGCTA
Found at i:35955634 original size:13 final size:13
Alignment explanation
Indices: 35955616--35955642 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35955606 ATAAACCAAT
35955616 AAACTCCTAACAC
1 AAACTCCTAACAC
35955629 AAACTCCTAACAC
1 AAACTCCTAACAC
35955642 A
1 A
35955643 TCATATCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.37, G:0.00, T:0.15
Consensus pattern (13 bp):
AAACTCCTAACAC
Found at i:35958450 original size:21 final size:21
Alignment explanation
Indices: 35958426--35958469 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
35958416 GAATCTTTAG
*
35958426 TATTTATTGTATCATTT-TATT
1 TATTTAAT-TATCATTTCTATT
*
35958447 TATTTAATTATCCTTTCTATT
1 TATTTAATTATCATTTCTATT
35958468 TA
1 TA
35958470 ATTAGGTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.25, C:0.09, G:0.02, T:0.64
Consensus pattern (21 bp):
TATTTAATTATCATTTCTATT
Found at i:35960721 original size:22 final size:22
Alignment explanation
Indices: 35960694--35960737 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
35960684 CTCTCGATTT
35960694 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
35960716 TTTTATTGCTCCTTTTCAATCA
1 TTTTATTGCTCCTTTTCAATCA
35960738 AAAGAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTATTGCTCCTTTTCAATCA
Found at i:35964898 original size:32 final size:32
Alignment explanation
Indices: 35964862--35964923 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
35964852 AGCTTTTGGT
35964862 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
35964894 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
35964924 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:35969161 original size:82 final size:82
Alignment explanation
Indices: 35969071--35969235 Score: 224
Period size: 82 Copynumber: 2.0 Consensus size: 82
35969061 AACTATGTGA
* * ** * *
35969071 CAACTAAGGTACTTGTGGCATATTAACAATTTAAATTCCT-AGTATGAAATAAATCTAATTTCTC
1 CAACTAAGGTACTTATAGCATATTAACAATTTAAACCCCTCACT-TGAAATAAATCTAACTTCTC
35969135 ACCATTTAGACATTGACC
65 ACCATTTAGACATTGACC
* *
35969153 CAACTAAGGTACTTATAGCATATTAACAATTTAAACCCCTCACTTGAACTAAATCTAACTTCTTA
1 CAACTAAGGTACTTATAGCATATTAACAATTTAAACCCCTCACTTGAAATAAATCTAACTTCTCA
* *
35969218 TCATTTAGACTTTGACC
66 CCATTTAGACATTGACC
35969235 C
1 C
35969236 CACTTATTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 70 0.97
83 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (82 bp):
CAACTAAGGTACTTATAGCATATTAACAATTTAAACCCCTCACTTGAAATAAATCTAACTTCTCA
CCATTTAGACATTGACC
Found at i:35970527 original size:17 final size:17
Alignment explanation
Indices: 35970505--35970542 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
35970495 TTGTAACTAT
*
35970505 CCATACCATCCACATAC
1 CCATACCATCCAAATAC
35970522 CCATACCATCCAAATAC
1 CCATACCATCCAAATAC
35970539 CCAT
1 CCAT
35970543 GGTCACCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.45, G:0.00, T:0.18
Consensus pattern (17 bp):
CCATACCATCCAAATAC
Found at i:35974020 original size:5 final size:5
Alignment explanation
Indices: 35974010--35974063 Score: 58
Period size: 5 Copynumber: 10.8 Consensus size: 5
35974000 AAATACTACA
* *
35974010 AAAAG AAAAG AAAAG AAAA- AGACAG AAAAG AAGAG AAAAG AAAA- AAAATG
1 AAAAG AAAAG AAAAG AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA-G
35974060 AAAA
1 AAAA
35974064 CCTAAACTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
4 5 0.12
5 31 0.76
6 5 0.12
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:35974062 original size:25 final size:25
Alignment explanation
Indices: 35974010--35974063 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
35974000 AAATACTACA
*
35974010 AAAAGAAAAGAAAAGAAAAAGACAG
1 AAAAGAAAAGAAAAGAAAAAGAAAG
*
35974035 AAAAGAAGAGAAAAGAAAAA-AAATG
1 AAAAGAAAAGAAAAGAAAAAGAAA-G
35974060 AAAA
1 AAAA
35974064 CCTAAACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 2 0.08
25 24 0.92
ACGTcount: A:0.78, C:0.02, G:0.19, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAGAAAAGAAAAAGAAAG
Found at i:35980700 original size:37 final size:37
Alignment explanation
Indices: 35980650--35980728 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
35980640 TTATTACGAA
* * *
35980650 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
35980687 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
35980724 GTCTT
1 GTCTT
35980729 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:35980925 original size:47 final size:47
Alignment explanation
Indices: 35980847--35981257 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
35980837 CCCTTCGGGA
* * * * * *
35980847 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
35980894 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35980941 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35980988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35981035 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35981082 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35981129 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35981176 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35981223 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
35981258 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35982419 original size:18 final size:18
Alignment explanation
Indices: 35982396--35982437 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
35982386 CATATGCATT
35982396 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
35982414 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
35982432 TTTAAT
1 TTTAAT
35982438 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:35985206 original size:40 final size:40
Alignment explanation
Indices: 35985174--35985401 Score: 366
Period size: 40 Copynumber: 5.7 Consensus size: 40
35985164 CCAGCATGAT
* * *
35985174 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
35985214 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
35985254 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
35985294 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
35985334 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
35985374 TGCTCTTCGGGACTTAGCCCAGATATAT
1 TGCTCTTCGGGACTTAGCCCGGATATAT
35985402 TACTCTCAAT
Statistics
Matches: 172, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 172 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:35992361 original size:15 final size:15
Alignment explanation
Indices: 35992341--35992374 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
35992331 GTATCTTACC
35992341 ATTCTAA-CCTCATTG
1 ATTCTAACCCTC-TTG
35992356 ATTCTAACCCTCTTG
1 ATTCTAACCCTCTTG
35992371 ATTC
1 ATTC
35992375 ATTGCTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.24, C:0.29, G:0.06, T:0.41
Consensus pattern (15 bp):
ATTCTAACCCTCTTG
Found at i:35993219 original size:19 final size:19
Alignment explanation
Indices: 35993183--35993222 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35993173 TTAAGCCACC
* **
35993183 TTAACATTAATCGTAATAA
1 TTAACATTAAGCACAATAA
35993202 TTAACATTAAGCACAATAA
1 TTAACATTAAGCACAATAA
35993221 TT
1 TT
35993223 CCAAGCATCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (19 bp):
TTAACATTAAGCACAATAA
Found at i:35998455 original size:23 final size:23
Alignment explanation
Indices: 35998412--35998455 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
35998402 TTTATAATTT
*
35998412 TGATTAAATTGAATGTTAATATG
1 TGATTAAATTGAATGTAAATATG
*
35998435 TGATTATATTGTAAT-TAAATA
1 TGATTAAATTG-AATGTAAATA
35998456 AATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (23 bp):
TGATTAAATTGAATGTAAATATG
Found at i:35998803 original size:23 final size:25
Alignment explanation
Indices: 35998699--35998794 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
35998689 CGTTCTGACC
* *
35998699 CACAGCTCGTGTGAGCATGTC-CATTT
1 CACAGCTTGTGTGAGCAT-TCTGA-TT
* *
35998725 CCACAACTCGTGTGAGCATTCTGATT
1 -CACAGCTTGTGTGAGCATTCTGATT
35998751 CACAGCTTGTGTGAGCATTCTGATT
1 CACAGCTTGTGTGAGCATTCTGATT
35998776 CACAGCTTGTGTGAGCATT
1 CACAGCTTGTGTGAGCATT
35998795 GATGTACAGG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
25 42 0.66
26 4 0.06
27 18 0.28
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (25 bp):
CACAGCTTGTGTGAGCATTCTGATT
Found at i:36005714 original size:20 final size:20
Alignment explanation
Indices: 36005666--36005712 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
36005656 TAAGCTAAAG
36005666 AATGTAAATGCAATAGAAAAT
1 AATG-AAATGCAATAGAAAAT
36005687 AATGAAATGCAA-ATGAAAAT
1 AATGAAATGCAATA-GAAAAT
36005707 AA-GAAA
1 AATGAAA
36005713 ATTTGAAAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.62, C:0.04, G:0.15, T:0.19
Consensus pattern (20 bp):
AATGAAATGCAATAGAAAAT
Found at i:36006181 original size:15 final size:15
Alignment explanation
Indices: 36006161--36006189 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36006151 TGGTGCCTTG
36006161 TTGATATGTGTTAAT
1 TTGATATGTGTTAAT
36006176 TTGATATGTGTTAA
1 TTGATATGTGTTAA
36006190 ATTATGTTTG
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:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTGATATGTGTTAAT
Found at i:36007694 original size:14 final size:14
Alignment explanation
Indices: 36007672--36007705 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
36007662 GCTGCTAAAC
*
36007672 TCATATCATACATT
1 TCATTTCATACATT
*
36007686 TCATTTCATACTTT
1 TCATTTCATACATT
36007700 TCATTT
1 TCATTT
36007706 AGATAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (14 bp):
TCATTTCATACATT
Found at i:36011605 original size:41 final size:41
Alignment explanation
Indices: 36011560--36011663 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 41
36011550 AAGTGTAAAC
36011560 AGGGGCAAGTATGTGCAATTCAAGGGTACCAAAGTACAAAT
1 AGGGGCAAGTATGTGCAATTCAAGGGTACCAAAGTACAAAT
* * *
36011601 AGGGGCACGTATGTGCAATTCAGGGGTACCTAAGTACAAAT
1 AGGGGCAAGTATGTGCAATTCAAGGGTACCAAAGTACAAAT
** *
36011642 TCGGGCACA-CATGTGCAATTCA
1 AGGGGCA-AGTATGTGCAATTCA
36011664 GTGAATAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (41 bp):
AGGGGCAAGTATGTGCAATTCAAGGGTACCAAAGTACAAAT
Found at i:36011643 original size:22 final size:22
Alignment explanation
Indices: 36011576--36011643 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
36011566 AAGTATGTGC
* *
36011576 AATTCAAGGGTACCAAAGTACA
1 AATTCAGGGGTACCTAAGTACA
* * * *
36011598 AA-T-AGGGGCACGTATGTGC-
1 AATTCAGGGGTACCTAAGTACA
36011617 AATTCAGGGGTACCTAAGTACA
1 AATTCAGGGGTACCTAAGTACA
36011639 AATTC
1 AATTC
36011644 GGGCACACAT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 11 0.33
21 13 0.39
22 7 0.21
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (22 bp):
AATTCAGGGGTACCTAAGTACA
Found at i:36014266 original size:13 final size:15
Alignment explanation
Indices: 36014248--36014279 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
36014238 GTACAAGGGA
36014248 CACATGG-C-TGTGT
1 CACATGGCCGTGTGT
36014261 CACATGGCCGTGTGT
1 CACATGGCCGTGTGT
36014276 CACA
1 CACA
36014280 CACGGCTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (15 bp):
CACATGGCCGTGTGT
Found at i:36020391 original size:53 final size:53
Alignment explanation
Indices: 36020311--36020418 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
36020301 CCACTAGGTG
36020311 TCGTTGCCACGATAATGTTTCACTTCCTGTATTTTACTTCTACATCTTCTACA
1 TCGTTGCCACGATAATGTTTCACTTCCTGTATTTTACTTCTACATCTTCTACA
36020364 TCGTTGCCACGATAATGTTTCACTTCCTGTATTTTACTTCTACATCTTCTACA
1 TCGTTGCCACGATAATGTTTCACTTCCTGTATTTTACTTCTACATCTTCTACA
36020417 TC
1 TC
36020419 CTCTTCTTCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.20, C:0.27, G:0.09, T:0.44
Consensus pattern (53 bp):
TCGTTGCCACGATAATGTTTCACTTCCTGTATTTTACTTCTACATCTTCTACA
Found at i:36044616 original size:50 final size:50
Alignment explanation
Indices: 36044496--36044790 Score: 256
Period size: 50 Copynumber: 5.9 Consensus size: 50
36044486 GACATTTGGG
*
36044496 TAAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTTGGCACCGAGA
1 TAAA-AGGTCCCATGTAAGACCATGTCTGGGACATGGC-GTTGGCACCGAGA
* * * *
36044548 TAAGAGGTCCCATCTAAGACCATGTCTAGGACATGGCGTTGGTACCGAGA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
* *
36044598 TAAAAGGTCTCATGTAAGACCATGTCTGGGACATGGAGTTGGCACCGAGA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
* * *** * * * ** * * *
36044648 TGAGAGGTCCCCCATAAGACCATATATAGGACATGGAATGGGCACCAATA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
* * * * * **
36044698 TGAGAA-CTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGCATAGGA
1 T-AAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CCGA-GA
* *
36044750 -AAAA--TCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
36044791 TGTTATTATC
Statistics
Matches: 196, Mismatches: 44, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
49 33 0.17
50 125 0.64
51 34 0.17
52 4 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (50 bp):
TAAAAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
Found at i:36044678 original size:100 final size:102
Alignment explanation
Indices: 36044496--36044741 Score: 297
Period size: 100 Copynumber: 2.5 Consensus size: 102
36044486 GACATTTGGG
* *
36044496 TAAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTTGGCACCGAGATAAGAGGTCCCAT
1 TAAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAGTTGGCACCGAGATAAGAGGTCCCAC
* *
36044561 CTAAGACCATGTCTAGGACATGGCGTTGGTACCGAGA
66 CTAAGACCATATATAGGACATGGCGTTGGTACCGAGA
* *
36044598 TAAA-AGGTCTCATGTAAGACCATGTCTGGGACATGG-AGTTGGCACCGAGATGAGAGGTCCC-C
1 TAAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAGTTGGCACCGAGATAAGAGGTCCCAC
** * *
36044660 CATAAGACCATATATAGGACATGGAATGGGCACC-A-A
66 C-TAAGACCATATATAGGACATGGCGTTGGTACCGAGA
* ** * *
36044696 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCA-TTGGCA
1 TA-AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAGTTGGCA
36044742 GCATAGGAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
98 3 0.02
99 3 0.02
100 82 0.66
101 32 0.26
102 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (102 bp):
TAAAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAGTTGGCACCGAGATAAGAGGTCCCAC
CTAAGACCATATATAGGACATGGCGTTGGTACCGAGA
Found at i:36062789 original size:10 final size:10
Alignment explanation
Indices: 36062774--36062814 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
36062764 ATCGAAAATG
36062774 ATTAAAATTT
1 ATTAAAATTT
36062784 ATTAAAATTT
1 ATTAAAATTT
*
36062794 ATTATAAAATTA
1 A-T-TAAAATTT
36062806 ATTAAAATT
1 ATTAAAATT
36062815 CAACATGTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 18 0.64
11 2 0.07
12 8 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
ATTAAAATTT
Found at i:36066908 original size:41 final size:41
Alignment explanation
Indices: 36066851--36067073 Score: 205
Period size: 41 Copynumber: 5.4 Consensus size: 41
36066841 CATTGAATGT
* * *
36066851 AAGGGGTTGCTAAGTGCAGACTCCCAGAATCACTTATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATAAAA
* ** *
36066892 AAGGGGTTACTAAGTGCAGATTCCTTGAATCGCTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATAAAA
* *
36066933 AAGGGGTTGCTAAGTGCAGATTCCCCA-AAACTCTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATT-CCCAGAATCACTGATAAAA
* * * * ** *
36066974 AAGGTGTTGCTAAGTGCAGATTCCCCGAAACTCTGAGCAAC
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATAAAA
* * * * * ***
36067015 AAGGAGTTGCTAACTGCAGATTCCCTGAATTATTGATTCTA
1 AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATAAAA
36067056 AAGGTGGTTGCTAAGTGC
1 AAGG-GGTTGCTAAGTGC
36067074 TGACTCCACC
Statistics
Matches: 148, Mismatches: 31, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
40 3 0.02
41 132 0.89
42 13 0.09
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCAGAATCACTGATAAAA
Found at i:36067162 original size:41 final size:43
Alignment explanation
Indices: 36067054--36067166 Score: 108
Period size: 43 Copynumber: 2.7 Consensus size: 43
36067044 TTATTGATTC
* * * *
36067054 TAAAGGTGGTTGCTAAGTGCTGACTCCACCGTACCCTTGATTG
1 TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTACACTTGAATA
* * * *
36067097 TGAAAGG-GCTTGTTATGTGTTGATTCC-CCGTATCAC-TGAATA
1 T-AAAGGTGGTTGCTAAGTGCTGATTCCACCGTA-CACTTGAATA
36067139 T-AAGGTGGTTGCTAAGTGCTGATTCCAC
1 TAAAGGTGGTTGCTAAGTGCTGATTCCAC
36067167 TGATTAACGA
Statistics
Matches: 54, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
40 4 0.07
41 16 0.30
42 11 0.20
43 18 0.33
44 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (43 bp):
TAAAGGTGGTTGCTAAGTGCTGATTCCACCGTACACTTGAATA
Found at i:36070721 original size:104 final size:104
Alignment explanation
Indices: 36070532--36070901 Score: 564
Period size: 104 Copynumber: 3.6 Consensus size: 104
36070522 AACCGTTATC
** *
36070532 GGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
* * *
36070597 ATCAGCACATAGCAACCCCCTTTTTA-ATTTCAAAGACAC
66 ATCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATAT
* * * *
36070636 GGTCGATATCGCACTTAGCATCAGCAATGAATCGGGGAATCAGTACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
36070701 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
*
36070740 GGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
36070805 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
* * * **
36070844 GGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
36070902 TTTATATACA
Statistics
Matches: 243, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
103 4 0.02
104 238 0.98
105 1 0.00
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAT
Found at i:36071263 original size:29 final size:29
Alignment explanation
Indices: 36071230--36071293 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
36071220 TAATCCACCA
36071230 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
36071259 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
36071289 CCCAA
1 CCCAA
36071294 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:36071267 original size:30 final size:30
Alignment explanation
Indices: 36071237--36071293 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36071227 CCACCCAACT
36071237 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
36071266 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
36071294 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:36079732 original size:29 final size:29
Alignment explanation
Indices: 36079699--36079762 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
36079689 TAATCCACCA
36079699 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
36079728 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
36079758 CCCAA
1 CCCAA
36079763 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:36079736 original size:30 final size:30
Alignment explanation
Indices: 36079706--36079762 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36079696 CCACCCAACT
36079706 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
36079735 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
36079763 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:36085794 original size:41 final size:41
Alignment explanation
Indices: 36085733--36085883 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
36085723 CATTGAATGT
* * *
36085733 AAGGGGTTGCTAAGTTCAGATTCCCCGAATCACTAATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTAATCAAA
**
36085774 AAGGGGTTGCTAAGTGCAGATTCCTGGAAACTCTAATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTAATCAAA
* *
36085815 AAGGGGTTGCTAAGTGTAGATTCCCCGAAACTCTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTAATCAAA
* *
36085856 CAGGGTTTGCTAAGTGCAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
36085884 TGGGTTGCTA
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAAACTCTAATCAAA
Found at i:36086346 original size:22 final size:22
Alignment explanation
Indices: 36086318--36086365 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
36086308 TGAGATATTT
*
36086318 GAATTTTAGTGAGATAGGGTTA
1 GAATTTTAGTGAGATAGGGTCA
36086340 GAATTTTAGTGAGATAGGGTCA
1 GAATTTTAGTGAGATAGGGTCA
36086362 GAAT
1 GAAT
36086366 ACATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.31, T:0.33
Consensus pattern (22 bp):
GAATTTTAGTGAGATAGGGTCA
Found at i:36088841 original size:15 final size:14
Alignment explanation
Indices: 36088821--36088863 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
36088811 AAATAAAAAG
36088821 AAATTAAACAAATAA
1 AAATTAAA-AAATAA
*
36088836 AAATTAAAGAATAA
1 AAATTAAAAAATAA
36088850 AAATT-AAAAATAA
1 AAATTAAAAAATAA
36088863 A
1 A
36088864 TGAAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 8 0.31
14 10 0.38
15 8 0.31
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATTAAAAAATAA
Found at i:36091685 original size:35 final size:35
Alignment explanation
Indices: 36091639--36091710 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
36091629 ATTAGAAGAG
36091639 ATAGAAATCTATAAGGCAATAATGATGTTGGTGAT
1 ATAGAAATCTATAAGGCAATAATGATGTTGGTGAT
*
36091674 ATAGAAATCTATAAGGCAATGATGATGTTGGTGAT
1 ATAGAAATCTATAAGGCAATAATGATGTTGGTGAT
36091709 AT
1 AT
36091711 TTTAGGTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.32
Consensus pattern (35 bp):
ATAGAAATCTATAAGGCAATAATGATGTTGGTGAT
Found at i:36092797 original size:62 final size:62
Alignment explanation
Indices: 36092722--36092847 Score: 207
Period size: 62 Copynumber: 2.0 Consensus size: 62
36092712 AGAAGAGAAA
* *
36092722 GTGAATGAAAGAGAGAGAGATGTGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATTGG
1 GTGAATGAAAGAGAGAGAGATATGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATGGG
* * *
36092784 GTGAGTGAAAGAGAGAGAGATATGAGGAATGAGAGGTGTGTTGATATGAATAGGTGAATGGG
1 GTGAATGAAAGAGAGAGAGATATGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATGGG
36092846 GT
1 GT
36092848 ATTTATAGGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.37, C:0.00, G:0.40, T:0.23
Consensus pattern (62 bp):
GTGAATGAAAGAGAGAGAGATATGAGGAATGAAAGGTGTGTTGAAATGAATAGGTGAATGGG
Found at i:36095340 original size:3 final size:3
Alignment explanation
Indices: 36095332--36095366 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
36095322 CTTTGTAGGA
36095332 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
36095367 AGGATCCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:36099249 original size:21 final size:21
Alignment explanation
Indices: 36099223--36099295 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
36099213 AATTCAATCT
36099223 ATTTAATTCACACACTATTCA
1 ATTTAATTCACACACTATTCA
* * * * *
36099244 ATTTAATCCAAAAATCATACATCT
1 ATTTAATTCACACA-C-TA-TTCA
36099268 ATTTAATTCACACACTATTCA
1 ATTTAATTCACACACTATTCA
36099289 ATTTAAT
1 ATTTAAT
36099296 CCAAAAATCA
Statistics
Matches: 39, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
21 20 0.51
22 3 0.08
23 3 0.08
24 13 0.33
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTAATTCACACACTATTCA
Found at i:36099268 original size:45 final size:45
Alignment explanation
Indices: 36099219--36099308 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
36099209 AGAAAATTCA
36099219 ATCTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
1 ATCTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
36099264 ATCTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
1 ATCTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
36099309 TTTCACAAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (45 bp):
ATCTATTTAATTCACACACTATTCAATTTAATCCAAAAATCATAC
Found at i:36100074 original size:21 final size:20
Alignment explanation
Indices: 36100034--36100074 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
36100024 ATTAAGCATG
* *
36100034 CAAACTTTAAAATTCCTTAA
1 CAAAATTTAAAATACCTTAA
36100054 CAAAATTTAAAATGACCTTAA
1 CAAAATTTAAAAT-ACCTTAA
36100075 TATAGTTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.49, C:0.17, G:0.02, T:0.32
Consensus pattern (20 bp):
CAAAATTTAAAATACCTTAA
Found at i:36106709 original size:23 final size:23
Alignment explanation
Indices: 36106682--36106757 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
36106672 AGTGTTATTG
36106682 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
36106705 TTCAGTGGTAGCTAT-GGCTACGT
1 ATCAGTGGTAGCT-TCGGCTACAT
36106728 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
36106751 ATCAGTG
1 ATCAGTG
36106758 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
22 1 0.02
23 45 0.96
24 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:36111801 original size:18 final size:17
Alignment explanation
Indices: 36111768--36111806 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
36111758 TTTTATAAAT
36111768 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
36111786 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
36111803 TGTG
1 TGTG
36111807 TAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:36111938 original size:8 final size:8
Alignment explanation
Indices: 36111925--36111961 Score: 74
Period size: 8 Copynumber: 4.6 Consensus size: 8
36111915 CACTAGAGAC
36111925 CAGTGTTA
1 CAGTGTTA
36111933 CAGTGTTA
1 CAGTGTTA
36111941 CAGTGTTA
1 CAGTGTTA
36111949 CAGTGTTA
1 CAGTGTTA
36111957 CAGTG
1 CAGTG
36111962 AGTCCTGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (8 bp):
CAGTGTTA
Found at i:36112074 original size:23 final size:23
Alignment explanation
Indices: 36112048--36112146 Score: 135
Period size: 23 Copynumber: 4.3 Consensus size: 23
36112038 AGTGTTATTG
36112048 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
36112071 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
* * *
36112094 TTTAGTGGTAGCTACGGCTACGT
1 ATCAGTGGTAGCTACGGCTACAT
* *
36112117 ATCAGTGGTGGCTTCGGCTACAT
1 ATCAGTGGTAGCTACGGCTACAT
*
36112140 ACCAGTG
1 ATCAGTG
36112147 TGGCACTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 65 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTACGGCTACAT
Found at i:36112104 original size:46 final size:46
Alignment explanation
Indices: 36112051--36112139 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
36112041 GTTATTGATC
36112051 AGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTT
1 AGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTT
* *
36112097 AGTGGTAGCTACGGCTACGTATCAGTGGTGGCTTCGGCTACAT
1 AGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACAT
36112140 ACCAGTGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
AGTGGTAGCTACGGCTACATATCAGTGGTAGCTTCGGCTACATTTT
Found at i:36127797 original size:27 final size:27
Alignment explanation
Indices: 36127759--36127971 Score: 162
Period size: 27 Copynumber: 7.9 Consensus size: 27
36127749 ACACGCTAGA
* ***
36127759 AAAATAGAAGCCTTTGTAATAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
* *
36127786 AAAATGGAAGCCTTTTTTGCAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
*
36127813 AAAATGGAAGCCTTTGTGGCAATCTTT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
* * * *
36127840 AAAGTGAAAGCCTTAGTGGTAATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
* *
36127867 AAAATCGAAGCCTTTGTGGCAATATAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
* * * * * *
36127894 GAAATGAAAGCATATGTGACGATCTAT
1 AAAATGGAAGCCTTTGTGGCAATCTAT
** * *
36127921 GGAATGGAACGTCTTTGTGGCACAT-TCT
1 AAAATGGAA-GCCTTTGTGGCA-ATCTAT
*
36127949 AAAA--GAAGGCCCTTGTGGCAATC
1 AAAATGGAA-GCCTTTGTGGCAATC
36127972 ATCTGAATGA
Statistics
Matches: 143, Mismatches: 40, Indels: 7
0.75 0.21 0.04
Matches are distributed among these distances:
25 2 0.01
26 13 0.09
27 115 0.80
28 11 0.08
29 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.30
Consensus pattern (27 bp):
AAAATGGAAGCCTTTGTGGCAATCTAT
Found at i:36130403 original size:40 final size:39
Alignment explanation
Indices: 36130354--36130502 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 39
36130344 AAGTTATCAG
* * *
36130354 AGTATAAACAGGGACACTTATGTGCATTCAAGGGTATCGA
1 AGTACAAACAGGG-CACGTATGTGCATTCAAGGGTACCGA
* **
36130394 AGTACAAACAAGGCACGTATGTGCATTCCGGGGTACCGA
1 AGTACAAACAGGGCACGTATGTGCATTCAAGGGTACCGA
* * * * *
36130433 AGTACCAATAGAGGCACATATGTGCGTTCAAGGGTACCAA
1 AGTACAAACAG-GGCACGTATGTGCATTCAAGGGTACCGA
36130473 AGTACAAACAGGGACACGTATGTGCATTCA
1 AGTACAAACAGGG-CACGTATGTGCATTCA
36130503 TTCAATAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 32 0.36
40 57 0.64
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (39 bp):
AGTACAAACAGGGCACGTATGTGCATTCAAGGGTACCGA
Found at i:36131477 original size:16 final size:16
Alignment explanation
Indices: 36131439--36131480 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
36131429 CAAGTTTTTC
* *
36131439 TCCTTTCTCAATCTAG
1 TCCTTTTTCTATCTAG
36131455 TCCTTTTTCTATCTAG
1 TCCTTTTTCTATCTAG
36131471 TCCTTTTTCT
1 TCCTTTTTCT
36131481 TTAATTAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.12, C:0.29, G:0.05, T:0.55
Consensus pattern (16 bp):
TCCTTTTTCTATCTAG
Found at i:36133192 original size:53 final size:51
Alignment explanation
Indices: 36133133--36133274 Score: 167
Period size: 53 Copynumber: 2.7 Consensus size: 51
36133123 CCTGAAAGAG
36133133 AAGAATGATAAGTATGACAAGCCCTAGAAGAATGATATGCATGGCTAACTTTA
1 AAGAATG-TAAGTATGACAAGCCCTAG-AGAATGATATGCATGGCTAACTTTA
* * * *
36133186 AAGAATGGTAAGTATGACAAACCTTGGGAGAATGATATGCATGGCTAACTTTG
1 AAGAAT-GTAAGTATGACAAGCCCT-AGAGAATGATATGCATGGCTAACTTTA
* * *
36133239 AATAATTGTAAGTATGGCAGGCCCTAGAGAAATGAT
1 AAGAA-TGTAAGTATGACAAGCCCTAGAG-AATGAT
36133275 GTGTGGCTAG
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
52 3 0.04
53 69 0.92
54 3 0.04
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (51 bp):
AAGAATGTAAGTATGACAAGCCCTAGAGAATGATATGCATGGCTAACTTTA
Found at i:36133333 original size:27 final size:27
Alignment explanation
Indices: 36133303--36133403 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
36133293 GACTAGAAGG
* *
36133303 TATGGTAAACTTTGAGAGAATAGTACA
1 TATGGCAAACTCTGAGAGAATAGTACA
**
36133330 TATGGTGAA-TACTGA-AGGAATAGTACA
1 TATGGCAAACT-CTGAGA-GAATAGTACA
* * * *
36133357 TATGGCAAACTCTGAAAGATTAATACG
1 TATGGCAAACTCTGAGAGAATAGTACA
*
36133384 TATGGCAAACACTGAGAGAA
1 TATGGCAAACTCTGAGAGAA
36133404 ACTGTTTCAT
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
26 2 0.03
27 56 0.93
28 2 0.03
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.25
Consensus pattern (27 bp):
TATGGCAAACTCTGAGAGAATAGTACA
Found at i:36135240 original size:8 final size:8
Alignment explanation
Indices: 36135193--36135247 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
36135183 AATCATAAAA
36135193 TTAATAAT
1 TTAATAAT
*
36135201 GTTAACAAT
1 -TTAATAAT
*
36135210 ATAAT-AT
1 TTAATAAT
* *
36135217 TTAACAAA
1 TTAATAAT
36135225 TT-ATAAT
1 TTAATAAT
36135232 TTAATAAT
1 TTAATAAT
36135240 TTAATAAT
1 TTAATAAT
36135248 ATTTTCTAAC
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
7 10 0.28
8 19 0.53
9 7 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (8 bp):
TTAATAAT
Found at i:36139995 original size:11 final size:11
Alignment explanation
Indices: 36139979--36140004 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36139969 ACTTGAACAG
36139979 AAATAAAAATA
1 AAATAAAAATA
36139990 AAATAAAAATA
1 AAATAAAAATA
36140001 AAAT
1 AAAT
36140005 TTCATAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:36140011 original size:16 final size:17
Alignment explanation
Indices: 36139992--36140023 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36139982 TAAAAATAAA
36139992 ATAA-AAATAAAATTTC
1 ATAAGAAATAAAATTTC
36140008 ATAAGAAATAAAATTT
1 ATAAGAAATAAAATTT
36140024 TTCGACCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (17 bp):
ATAAGAAATAAAATTTC
Found at i:36149326 original size:29 final size:29
Alignment explanation
Indices: 36149263--36149328 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
36149253 ATTTAATCTT
* *
36149263 ATTTAATTTTTTTAATAATACATGAATTA
1 ATTTAATTTATTTAATAATACATGAACTA
* *
36149292 AATTAATTTATTTAATAATAATATG-ACTA
1 ATTTAATTTATTTAATAAT-ACATGAACTA
36149321 ATTTAATT
1 ATTTAATT
36149329 AATTCCTCTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (29 bp):
ATTTAATTTATTTAATAATACATGAACTA
Found at i:36156890 original size:27 final size:27
Alignment explanation
Indices: 36156828--36156890 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
36156818 TCGCCAGAAA
*
36156828 GCTTGGCGAGTTGGTGTTCACAAGTAG
1 GCTTGGCGAGTTGGTATTCACAAGTAG
* * * * *
36156855 GCCTAGCGAGTTGGTATTCGCTAGTGG
1 GCTTGGCGAGTTGGTATTCACAAGTAG
36156882 GCTTGGCGA
1 GCTTGGCGA
36156891 AGTAGGGATC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.17, G:0.38, T:0.29
Consensus pattern (27 bp):
GCTTGGCGAGTTGGTATTCACAAGTAG
Found at i:36157966 original size:27 final size:27
Alignment explanation
Indices: 36157904--36157966 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
36157894 TCGCCAGAAA
*
36157904 GCTTGGCGAGTTGGTGTTCACAAGTAG
1 GCTTGGCGAGTTGGTATTCACAAGTAG
* * * * *
36157931 GCCTAGCGAGTTGGTATTCGCTAGTGG
1 GCTTGGCGAGTTGGTATTCACAAGTAG
36157958 GCTTGGCGA
1 GCTTGGCGA
36157967 AGTAGGGATC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.16, C:0.17, G:0.38, T:0.29
Consensus pattern (27 bp):
GCTTGGCGAGTTGGTATTCACAAGTAG
Found at i:36159586 original size:22 final size:22
Alignment explanation
Indices: 36159557--36159608 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
36159547 AATGGCTAAG
* *
36159557 AGCCATAAACAGGATAGCTATA
1 AGCCATAAACAGAATAGCTACA
* *
36159579 AGCTATAAACAGAATCGCTACA
1 AGCCATAAACAGAATAGCTACA
36159601 AGCCATAA
1 AGCCATAA
36159609 GTATAGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.21, G:0.15, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAGCTACA
Found at i:36159704 original size:32 final size:32
Alignment explanation
Indices: 36159630--36159770 Score: 151
Period size: 32 Copynumber: 4.4 Consensus size: 32
36159620 TGATTGGCTG
* * *
36159630 AAAGCCATCAGTAGCAGTGA-TATGATC-AGCAT
1 AAAGCCATCAGTAACGGT-ATTATGATCGA-CAC
* * *
36159662 ACAGCCATCAGCAATGGTATTATGATCGACAC
1 AAAGCCATCAGTAACGGTATTATGATCGACAC
* * *
36159694 AAAGCTATCAGTAACAGTATTACGATCGACAC
1 AAAGCCATCAGTAACGGTATTATGATCGACAC
* *
36159726 AAAGCCATCAGTAACGGTAATATGATCGGCAC
1 AAAGCCATCAGTAACGGTATTATGATCGACAC
36159758 AAAGCCATCAGTA
1 AAAGCCATCAGTA
36159771 GCATCGCAAC
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
31 1 0.01
32 88 0.98
33 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (32 bp):
AAAGCCATCAGTAACGGTATTATGATCGACAC
Found at i:36159704 original size:64 final size:64
Alignment explanation
Indices: 36159630--36159773 Score: 175
Period size: 64 Copynumber: 2.2 Consensus size: 64
36159620 TGATTGGCTG
* * * * *
36159630 AAAGCCATCAGTAGCAGTGA-TATGATC-AGCATACAGCCATCAGCAATGGTATTATGATCGACA
1 AAAGCCATCAGTAGCAGT-ATTACGATCGA-CACAAAGCCATCAGCAACGGTAATATGATCGACA
36159693 C
64 C
* * * *
36159694 AAAGCTATCAGTAACAGTATTACGATCGACACAAAGCCATCAGTAACGGTAATATGATCGGCAC
1 AAAGCCATCAGTAGCAGTATTACGATCGACACAAAGCCATCAGCAACGGTAATATGATCGACAC
36159758 AAAGCCATCAGTAGCA
1 AAAGCCATCAGTAGCA
36159774 TCGCAACAAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 1 0.01
64 65 0.97
65 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.20
Consensus pattern (64 bp):
AAAGCCATCAGTAGCAGTATTACGATCGACACAAAGCCATCAGCAACGGTAATATGATCGACAC
Found at i:36160024 original size:24 final size:24
Alignment explanation
Indices: 36159942--36160050 Score: 110
Period size: 24 Copynumber: 4.5 Consensus size: 24
36159932 CCTTGCTCAG
**
36159942 AATCAGTCATGCAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* ***
36159966 AACCAGTCATACCAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
36159990 AATTAGTCATTTAAATCACAAACA
1 AATCAGTCATTTAAATCACAGACA
* **
36160014 AATCAGTCATTTACATCATGGACA
1 AATCAGTCATTTAAATCACAGACA
*
36160038 AATCAATCATTTA
1 AATCAGTCATTTA
36160051 CACTCGAGGG
Statistics
Matches: 70, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.24
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:36160123 original size:27 final size:27
Alignment explanation
Indices: 36160089--36160375 Score: 222
Period size: 27 Copynumber: 10.6 Consensus size: 27
36160079 CTCCATGGGC
* *
36160089 ATTATGGTAATTTTACCTTATAGGGGT
1 ATTATGGTCATTTTACCCTATAGGGGT
* * * *
36160116 ATTTTGGTCATTTAACCCTATAAGAGT
1 ATTATGGTCATTTTACCCTATAGGGGT
* * *
36160143 TTTTTGATCATTTTACCCTACT-GGGGT
1 ATTATGGTCATTTTACCCTA-TAGGGGT
* * * *
36160170 ATTACGGTCATTTTACCTTACAGGGGC
1 ATTATGGTCATTTTACCCTATAGGGGT
*
36160197 ATTACGGTCATTTTACCCTAT-GAGGGT
1 ATTATGGTCATTTTACCCTATAG-GGGT
* **
36160224 TTTCCGGTCATTTTACCCTATAGGGGT
1 ATTATGGTCATTTTACCCTATAGGGGT
* * * *
36160251 ATTATGGTCATTTTACCTTACAGAGGC
1 ATTATGGTCATTTTACCCTATAGGGGT
* *
36160278 ATTACGGTCATTTTAACCTATAGGGGT
1 ATTATGGTCATTTTACCCTATAGGGGT
* * * *
36160305 -TTTTCGGTCATTTTACCCTACAAGGGC
1 ATTAT-GGTCATTTTACCCTATAGGGGT
* * *
36160332 ATTACGGTCATTTTATCTTATAGGGGT
1 ATTATGGTCATTTTACCCTATAGGGGT
* *
36160359 -TTTTCAGTCATTTTACC
1 ATTAT-GGTCATTTTACC
36160376 TATTTTATGG
Statistics
Matches: 200, Mismatches: 53, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
26 5 0.03
27 191 0.95
28 4 0.02
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.41
Consensus pattern (27 bp):
ATTATGGTCATTTTACCCTATAGGGGT
Found at i:36160208 original size:54 final size:54
Alignment explanation
Indices: 36160150--36160375 Score: 249
Period size: 54 Copynumber: 4.2 Consensus size: 54
36160140 AGTTTTTTGA
* * * *
36160150 TCATTTTACCCTACTGGGGTATTACGGTCATTTTACCTTACAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTATAGGGGTATTACGG
* ** * * *
36160204 TCATTTTACCCTA-TGAGGGTTTTCCGGTCATTTTACCCTATAGGGGTATTATGG
1 TCATTTTACCCTACAG-GGGCATTACGGTCATTTTACCTTATAGGGGTATTACGG
* * * *
36160258 TCATTTTACCTTACAGAGGCATTACGGTCATTTTAACC-TATAGGGGTTTTTCGG
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTT-ACCTTATAGGGGTATTACGG
* * * * *
36160312 TCATTTTACCCTACAAGGGCATTACGGTCATTTTATCTTATAGGGGTTTTTCAG
1 TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTATAGGGGTATTACGG
36160366 TCATTTTACC
1 TCATTTTACC
36160376 TATTTTATGG
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
53 4 0.03
54 140 0.95
55 4 0.03
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (54 bp):
TCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTATAGGGGTATTACGG
Found at i:36160373 original size:81 final size:81
Alignment explanation
Indices: 36160069--36160357 Score: 332
Period size: 81 Copynumber: 3.6 Consensus size: 81
36160059 GGGAAAAATA
* * * * * * **
36160069 GTCA-TTTACCCTCCATGGGCATTATGGTAATTTTACCTTATAGGGGTATTTTGGTCA-TTTAAC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGCATTACGGTCATTTTAA-
* * *
36160132 CCTATAAGAGTTTTTTG
65 CCTATAGGGGTTTTTCG
* * * *
36160149 ATCATTTTACCCTACTGGGGTATTACGGTCATTTTACCTTACAGGGGCATTACGGTCATTTTACC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGCATTACGGTCATTTTAAC
*
36160214 CTAT-GAGGGTTTTCCG
66 CTATAG-GGGTTTTTCG
* * * *
36160230 GTCATTTTACCCTATAGGGGTATTATGGTCATTTTACCTTACAGAGGCATTACGGTCATTTTAAC
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGCATTACGGTCATTTTAAC
36160295 CTATAGGGGTTTTTCG
66 CTATAGGGGTTTTTCG
* * *
36160311 GTCATTTTACCCTACAAGGGCATTACGGTCATTTTATCTTATAGGGG
1 GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGG
36160358 TTTTTCAGTC
Statistics
Matches: 175, Mismatches: 30, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 167 0.95
82 5 0.03
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (81 bp):
GTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTACAGGGGCATTACGGTCATTTTAAC
CTATAGGGGTTTTTCG
Found at i:36163614 original size:43 final size:44
Alignment explanation
Indices: 36163566--36163650 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 44
36163556 AAAGCGATAG
36163566 GAGGGACAATTGATGATATTAAA-GAATCAATCCTACGTTTTAA
1 GAGGGACAATTGATGATATTAAAGGAATCAATCCTACGTTTTAA
* *
36163609 GAGGGACAATTGATGATATTAAAGGAATCAATCTTGCGTTTT
1 GAGGGACAATTGATGATATTAAAGGAATCAATCCTACGTTTT
36163651 GTGAACGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 23 0.59
44 16 0.41
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (44 bp):
GAGGGACAATTGATGATATTAAAGGAATCAATCCTACGTTTTAA
Found at i:36163640 original size:22 final size:22
Alignment explanation
Indices: 36163572--36163640 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
36163562 ATAGGAGGGA
36163572 CAATTGATGATATTAAA-GAAT
1 CAATTGATGATATTAAAGGAAT
* * *
36163593 CAATCCT-ACG-TTTTAAGAGGGA-
1 CAAT--TGATGATATTAA-AGGAAT
36163615 CAATTGATGATATTAAAGGAAT
1 CAATTGATGATATTAAAGGAAT
36163637 CAAT
1 CAAT
36163641 CTTGCGTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 13
0.65 0.11 0.24
Matches are distributed among these distances:
20 1 0.03
21 15 0.43
22 16 0.46
23 3 0.09
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (22 bp):
CAATTGATGATATTAAAGGAAT
Found at i:36169385 original size:556 final size:556
Alignment explanation
Indices: 36168333--36169431 Score: 1400
Period size: 556 Copynumber: 2.0 Consensus size: 556
36168323 AAACGTGCAA
* * * *
36168333 GAGACCATTAGAAGGCATTTTAGAACGACACAATATGCTATTTCACAACATGGGAGGACTGATGT
1 GAGACCATTAGAAGGCATTTTAGAACGACACAAGATGCTATGTCACAACACGGGAGGACTAATGT
* * * * *
36168398 TGCAACATGGGGAACATAATGAGAAAATCTCAAGTCTGCCTTCGATGTCGTGACACAGACTGAGT
66 CGCAACATAGGGAACAAAATGAGAAAATCTCAAGTCTGCCTTCGATGTCGCGACACAGACTGAGG
* ** * *
36168463 GTGTCACGACATGTCCCTAAAAATGGCTATAGAGAAGCATACTGGTTGCTATGTTGCGACACAGG
131 GTGTCACAACATACCCCTAAAAATGGCTACAGAGAAGCATACTGGTTGCTATGTTGCGACACAGA
* *
36168528 TCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACATAGAGCATGGGTATTTTGGTCC
196 TCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACATAGAGCAGGGGCATTTTGGTCC
* * ** * *
36168593 ACACAATCAAAATTATAGCTCAAGAATGTCAGCATACCTAGGGTTAAGGATGACAACCACCTGAA
261 ACACAATCAAAATGAAAGCTCAAGAACATCAGCATACCTAGGGTTAAGGACGACAACCACCTAAA
* * * * *
36168658 GGCTATAAATAAGCTTATTTAGCACATGTTAAAGACATTTTCCCATCAAGCTAGTTTCTTCCGTT
326 GGCTATAAATAAGCTCATTTAGCACATGTTAAAAACATTTTCACATCAACCTAGTTTCTTCCATT
* * * * * * *
36168723 AAATTTAGTTTTGTTTTATTTATTTCTTAAGATTTTAGAGTTTAGTTTATTTTTTCATTATTTTA
391 AAACTTAGTTTTATTTTATTTATTTCATAAGATTTAAAAGTTAAGTTTATTTGTTCATTATTTTA
* * *
36168788 TTTCAAGTGATTTTGATTGTGGACTAATTCAACTCTGTGGATTTATGCTTAATATCAACACAATC
456 TTTCAAGAGATTTTGATTATGGACTAATTCAACTCTGTGGATTTACGCTTAATATCAACACAATC
* *
36168853 AGGCTCTGTCATTTGCTCTATCTTGTAAGTGTGTAG
521 AAGCTCTGTCATTTACTCTATCTTGTAAGTGTGTAG
* * **
36168889 GAGACCATTAGAAGGCATTTTAGAATGATACTGGATGCTATGTCACAACACGGGAGGACTAATGT
1 GAGACCATTAGAAGGCATTTTAGAACGACACAAGATGCTATGTCACAACACGGGAGGACTAATGT
* * *
36168954 CG-AAGCATAGGGAATAAAATGATGAAAA-CTCAAGTCTGCCTTTGATGTTGCGACACAGACTGA
66 CGCAA-CATAGGGAACAAAATGA-GAAAATCTCAAGTCTGCCTTCGATGTCGCGACACAGACTGA
* * * * * * * *
36169017 GGGTTTCACAATATACCCCTGAAGATGGCTACAGAGGAGCATACTGGTTGCTATGTTGTGATAGA
129 GGGTGTCACAACATACCCCTAAAAATGGCTACAGAGAAGCATACTGGTTGCTATGTTGCGACACA
* * ** *
36169082 GATCCTGGTGTGTCGCGACATTGACTCTAGGATAGAAATTAGACAT-GAAGCAGGGGCGTTTTGG
194 GATCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACATAG-AGCAGGGGCATTTTGG
* * * *
36169146 TCTACACAATCAAACTGAAAGCT-AGGTAACATCAGC-TGACCTAGGGTTAAGGACGACGACCAC
258 TCCACACAATCAAAATGAAAGCTCAAG-AACATCAGCAT-ACCTAGGGTTAAGGACGACAACCAC
* * * *
36169209 CTAAAGGCTATAAATAGGCTCCTTTGGCACATGTTAAAAACACTTTT-ACATTAACCTAGTTTCT
321 CTAAAGGCTATAAATAAGCTCATTTAGCACATGTTAAAAACA-TTTTCACATCAACCTAGTTTCT
* * *
36169273 TCCATTAAACTTAGTTTTATTTTCTTTCTTTCATAGGATTTAAAAGTTAAGTTTATTTGTTCATT
385 TCCATTAAACTTAGTTTTATTTTATTTATTTCATAAGATTTAAAAGTTAAGTTTATTTGTTCATT
* * * * * *
36169338 GTTTTCTTTCAAGAGATTTTGATTATGGACTCATTCAACTCTGTGGATTTGCGCTTTATATCAAT
450 ATTTTATTTCAAGAGATTTTGATTATGGACTAATTCAACTCTGTGGATTTACGCTTAATATCAAC
* *
36169403 ACAATCAAGCTCTTTTATTTACTCTATCT
515 ACAATCAAGCTCTGTCATTTACTCTATCT
36169432 AGTCAATTTA
Statistics
Matches: 459, Mismatches: 78, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
555 6 0.01
556 444 0.97
557 9 0.02
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (556 bp):
GAGACCATTAGAAGGCATTTTAGAACGACACAAGATGCTATGTCACAACACGGGAGGACTAATGT
CGCAACATAGGGAACAAAATGAGAAAATCTCAAGTCTGCCTTCGATGTCGCGACACAGACTGAGG
GTGTCACAACATACCCCTAAAAATGGCTACAGAGAAGCATACTGGTTGCTATGTTGCGACACAGA
TCCTGGTGTGTCACAACATCAACTCTAGGATAGAAATTAGACATAGAGCAGGGGCATTTTGGTCC
ACACAATCAAAATGAAAGCTCAAGAACATCAGCATACCTAGGGTTAAGGACGACAACCACCTAAA
GGCTATAAATAAGCTCATTTAGCACATGTTAAAAACATTTTCACATCAACCTAGTTTCTTCCATT
AAACTTAGTTTTATTTTATTTATTTCATAAGATTTAAAAGTTAAGTTTATTTGTTCATTATTTTA
TTTCAAGAGATTTTGATTATGGACTAATTCAACTCTGTGGATTTACGCTTAATATCAACACAATC
AAGCTCTGTCATTTACTCTATCTTGTAAGTGTGTAG
Found at i:36174500 original size:76 final size:76
Alignment explanation
Indices: 36174412--36174642 Score: 392
Period size: 76 Copynumber: 3.0 Consensus size: 76
36174402 ACTTTCCTAC
* * *
36174412 TTTCTCTCTTAGTCTACTGTGTAAATCTTGGAGTACTATTTATTTAGGTGTAGACTCTAACTATA
1 TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
36174477 GACATATTGAA
66 GACATATTGAA
* *
36174488 TTTCTCTCTTAGTCTACTCTATACTTCTTGGA-TGACTATTTATTTAGGTGCAGACTCTAACTAT
1 TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGT-ACTATTTATTTAGGTGCAGACTCTAACTAT
36174552 AGACATATTGAA
65 AGACATATTGAA
*
36174564 TTTCTCTCTTAGTCTACTTTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
1 TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
36174629 GACATATTGAA
66 GACATATTGAA
36174640 TTT
1 TTT
36174643 TGACTCCATT
Statistics
Matches: 145, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
75 1 0.01
76 143 0.99
77 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.14, T:0.43
Consensus pattern (76 bp):
TTTCTCTCTTAGTCTACTCTGTACATCTTGGAGTACTATTTATTTAGGTGCAGACTCTAACTATA
GACATATTGAA
Found at i:36177552 original size:19 final size:18
Alignment explanation
Indices: 36177521--36177559 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
36177511 GGAAAATAGC
36177521 ATAAAGAGTTGAGAGAATG
1 ATAAAGAGTTGAGAG-ATG
36177540 ATAAATGAG-TGAGAGATG
1 ATAAA-GAGTTGAGAGATG
36177558 AT
1 AT
36177560 GGGATGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.26
19 11 0.58
20 3 0.16
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (18 bp):
ATAAAGAGTTGAGAGATG
Found at i:36189513 original size:43 final size:42
Alignment explanation
Indices: 36189453--36189590 Score: 150
Period size: 43 Copynumber: 3.2 Consensus size: 42
36189443 GTATTACATG
** *
36189453 GAAATCTCGTATCGATGCCAATAGCTCAACTATGATCTTACAC
1 GAAATCTCAAATCGATGCCAATAGCCCAACTATG-TCTTACAC
* * * *
36189496 GAAATCTCAAGTTGATGCCAATAGCCCAGCTATTGTCTTACGC
1 GAAATCTCAAATCGATGCCAATAGCCCAACTA-TGTCTTACAC
* * * *
36189539 AAAATCTCAAATCGATGCCAATAACCCAACTGTGGTCTTACAT
1 GAAATCTCAAATCGATGCCAATAGCCCAACTAT-GTCTTACAC
36189582 GAAATCTCA
1 GAAATCTCA
36189591 CCTCGGAAGT
Statistics
Matches: 77, Mismatches: 16, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
42 1 0.01
43 74 0.96
44 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.14, T:0.27
Consensus pattern (42 bp):
GAAATCTCAAATCGATGCCAATAGCCCAACTATGTCTTACAC
Found at i:36189746 original size:31 final size:30
Alignment explanation
Indices: 36189705--36189787 Score: 96
Period size: 31 Copynumber: 2.7 Consensus size: 30
36189695 ATCCAATGCT
* *
36189705 CAAATCAATTCGACAATATATATCCATATA
1 CAAATCAATTCGACAATGTATATCCACATA
* * *
36189735 CGAATCAAATTC-AGCAATGTATATCTACATG
1 CAAATC-AATTCGA-CAATGTATATCCACATA
36189766 CAAATCAATTCGACAATGTATA
1 CAAATCAATTCGACAATGTATA
36189788 AAACATATAC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 20 0.45
31 24 0.55
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (30 bp):
CAAATCAATTCGACAATGTATATCCACATA
Found at i:36190229 original size:164 final size:164
Alignment explanation
Indices: 36189958--36190285 Score: 656
Period size: 164 Copynumber: 2.0 Consensus size: 164
36189948 AATCACCTAT
36189958 TCATTCAATTTCATCCAAAAATACCTATTTGGACATTTTTTCACTTTAGCCCTTAAAGTTTCACA
1 TCATTCAATTTCATCCAAAAATACCTATTTGGACATTTTTTCACTTTAGCCCTTAAAGTTTCACA
36190023 TTTATTCAATTTATTCCCTATTTCACAAATACACAAAATTCACACAATTCAATATAACCCAAGCT
66 TTTATTCAATTTATTCCCTATTTCACAAATACACAAAATTCACACAATTCAATATAACCCAAGCT
36190088 TAGCCGAATTACTATAGTGCGCCTAGCAACCCAA
131 TAGCCGAATTACTATAGTGCGCCTAGCAACCCAA
36190122 TCATTCAATTTCATCCAAAAATACCTATTTGGACATTTTTTCACTTTAGCCCTTAAAGTTTCACA
1 TCATTCAATTTCATCCAAAAATACCTATTTGGACATTTTTTCACTTTAGCCCTTAAAGTTTCACA
36190187 TTTATTCAATTTATTCCCTATTTCACAAATACACAAAATTCACACAATTCAATATAACCCAAGCT
66 TTTATTCAATTTATTCCCTATTTCACAAATACACAAAATTCACACAATTCAATATAACCCAAGCT
36190252 TAGCCGAATTACTATAGTGCGCCTAGCAACCCAA
131 TAGCCGAATTACTATAGTGCGCCTAGCAACCCAA
36190286 AACTTTCATT
Statistics
Matches: 164, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
164 164 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.34
Consensus pattern (164 bp):
TCATTCAATTTCATCCAAAAATACCTATTTGGACATTTTTTCACTTTAGCCCTTAAAGTTTCACA
TTTATTCAATTTATTCCCTATTTCACAAATACACAAAATTCACACAATTCAATATAACCCAAGCT
TAGCCGAATTACTATAGTGCGCCTAGCAACCCAA
Found at i:36213280 original size:11 final size:11
Alignment explanation
Indices: 36213266--36213302 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
36213256 CTTCATTCAT
*
36213266 CATCCCTCAAT
1 CATCCCTCAAG
36213277 CATCCCTCAAG
1 CATCCCTCAAG
*
36213288 CATCCATCAAG
1 CATCCCTCAAG
36213299 CATC
1 CATC
36213303 ATTCTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.30, C:0.43, G:0.05, T:0.22
Consensus pattern (11 bp):
CATCCCTCAAG
Found at i:36215595 original size:170 final size:170
Alignment explanation
Indices: 36215313--36215654 Score: 666
Period size: 170 Copynumber: 2.0 Consensus size: 170
36215303 TTATAGTACC
*
36215313 AAATATCATAACAAAAAATATTTGCAAGAAAATTAAATATGATAATCGAAAGACCAAATTGTAAA
1 AAATATCATAACAAAAAATATTTGCAAGAAAATTAAATATGATAATCGAAAGACCAAATTATAAA
36215378 GCATACAAAACTAAGAAATTAACCAATAAATGATTAAAGGTGGTTTCTTGATTTTGATGTGGTTT
66 GCATACAAAACTAAGAAATTAACCAATAAATGATTAAAGGTGGTTTCTTGATTTTGATGTGGTTT
*
36215443 TTCGGTCCTCGAATGAGAGACTTATATCGCTGAAATTACT
131 TTCGGTCCTCAAATGAGAGACTTATATCGCTGAAATTACT
36215483 AAATATCATAACAAAAAATATTTGCAAGAAAATTAAATATGATAATCGAAAGACCAAATTATAAA
1 AAATATCATAACAAAAAATATTTGCAAGAAAATTAAATATGATAATCGAAAGACCAAATTATAAA
36215548 GCATACAAAACTAAGAAATTAACCAATAAATGATTAAAGGTGGTTTCTTGATTTTGATGTGGTTT
66 GCATACAAAACTAAGAAATTAACCAATAAATGATTAAAGGTGGTTTCTTGATTTTGATGTGGTTT
36215613 TTCGGTCCTCAAATGAGAGACTTATATCGCTGAAATTACT
131 TTCGGTCCTCAAATGAGAGACTTATATCGCTGAAATTACT
36215653 AA
1 AA
36215655 GTGGCTCCAT
Statistics
Matches: 170, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
170 170 1.00
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (170 bp):
AAATATCATAACAAAAAATATTTGCAAGAAAATTAAATATGATAATCGAAAGACCAAATTATAAA
GCATACAAAACTAAGAAATTAACCAATAAATGATTAAAGGTGGTTTCTTGATTTTGATGTGGTTT
TTCGGTCCTCAAATGAGAGACTTATATCGCTGAAATTACT
Found at i:36220991 original size:49 final size:50
Alignment explanation
Indices: 36220946--36221119 Score: 197
Period size: 50 Copynumber: 3.5 Consensus size: 50
36220936 CATCTCAAAT
* * **
36220946 ATGGTCTTACATGGGAGTTCTCATATCAGT-CCCATGCCATGTCTCAGAC
1 ATGGTCTTACATGGGACTTCTCATATCAGTGCCAACACCATGTCTCAGAC
** * * *
36220995 ATGGTCTTACGGGGGACTTCTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGGGACTTCTCATATCAGTGCCAACACCATGTCTCAGAC
* * * * *
36221045 ATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACACCCTGTCCCAGAC
1 ATGGTCTTACATGGGACTTCTCATATCAGTGCCAACACCATGTCTCAGAC
* *
36221095 ATGGTCTTAGATGGGACCTCTCATA
1 ATGGTCTTACATGGGACTTCTCATA
36221120 ATTTCAATAA
Statistics
Matches: 109, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
49 25 0.23
50 84 0.77
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACATGGGACTTCTCATATCAGTGCCAACACCATGTCTCAGAC
Found at i:36221049 original size:50 final size:50
Alignment explanation
Indices: 36220982--36221118 Score: 211
Period size: 50 Copynumber: 2.7 Consensus size: 50
36220972 CAGTCCCATG
* * *
36220982 CCATGTCTCAGACATGGTCTTACGGGGGACTTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACA
*
36221032 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACA
* * *
36221082 CCCTGTCCCAGACATGGTCTTAGATGGGACCTCTCAT
1 CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT
36221119 AATTTCAATA
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.20, C:0.32, G:0.22, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACA
Found at i:36224737 original size:27 final size:27
Alignment explanation
Indices: 36224686--36224752 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
36224676 TTGCTCGCTA
* *
36224686 AGATAGTAACCACGGGATAGCCCATCG
1 AGATAGTAAACATGGGATAGCCCATCG
* * *
36224713 AGATAGTAAACATGGGGTAGTCCATTG
1 AGATAGTAAACATGGGATAGCCCATCG
* *
36224740 GGAAAGTAAACAT
1 AGATAGTAAACAT
36224753 TGGTTTACAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.27, T:0.19
Consensus pattern (27 bp):
AGATAGTAAACATGGGATAGCCCATCG
Found at i:36226348 original size:79 final size:82
Alignment explanation
Indices: 36226237--36226421 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
36226227 GCTACTCGTT
* * *
36226237 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
36226300 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
36226317 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
36226380 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
36226397 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
36226422 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:36226421 original size:40 final size:40
Alignment explanation
Indices: 36226218--36226421 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
36226208 CGGAATTTAA
** *
36226218 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
36226258 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
36226298 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
36226337 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
36226377 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
36226417 CCGGA
1 CCGGA
36226422 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:36231541 original size:14 final size:14
Alignment explanation
Indices: 36231522--36231548 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
36231512 AAGTATATAA
36231522 TAAATTTGAATATT
1 TAAATTTGAATATT
36231536 TAAATTTGAATAT
1 TAAATTTGAATAT
36231549 ATTATCTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
TAAATTTGAATATT
Found at i:36231891 original size:19 final size:20
Alignment explanation
Indices: 36231855--36231899 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
36231845 TTACCCTAAA
*
36231855 CTCCCAAACTTCTTTACTTT
1 CTCCCAAAATTCTTTACTTT
36231875 CTCCCAAAATT-TTTACTTT
1 CTCCCAAAATTCTTTACTTT
36231894 CTCCCA
1 CTCCCA
36231900 CTTTCCCCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.22, C:0.36, G:0.00, T:0.42
Consensus pattern (20 bp):
CTCCCAAAATTCTTTACTTT
Found at i:36233527 original size:22 final size:22
Alignment explanation
Indices: 36233502--36233544 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
36233492 TATCCAAACA
36233502 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
36233524 ATAATAGTAAAATGGTAGCAA
1 ATAACAATAAAATAGTAGCAA
36233545 AATAGAGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:36233557 original size:22 final size:22
Alignment explanation
Indices: 36233509--36233557 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
36233499 ACAATAACAA
* *
36233509 TAAAATAGTAGCAACATAATAG
1 TAAAATAGTAGCAAAATAAGAG
*
36233531 TAAAATGGTAGCAAAATAGAGAG
1 TAAAATAGTAGCAAAATA-AGAG
36233554 -AAAA
1 TAAAA
36233558 CAAGAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.57, C:0.06, G:0.18, T:0.18
Consensus pattern (22 bp):
TAAAATAGTAGCAAAATAAGAG
Found at i:36248452 original size:27 final size:27
Alignment explanation
Indices: 36248384--36248445 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
36248374 GTTGAGATAG
36248384 TAAATACAGGGTAGTCTGTCGAGACAT
1 TAAATACAGGGTAGTCTGTCGAGACAT
* * * *
36248411 TAAACACGGGGTAGTTTGTCGGGACAT
1 TAAATACAGGGTAGTCTGTCGAGACAT
36248438 TAAATACA
1 TAAATACA
36248446 AGCTAGTCCG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (27 bp):
TAAATACAGGGTAGTCTGTCGAGACAT
Found at i:36249527 original size:26 final size:26
Alignment explanation
Indices: 36249491--36249540 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
36249481 ACATATTTTC
*
36249491 TCAAAATTTTACTAGGGGTAAAATCA
1 TCAAAAATTTACTAGGGGTAAAATCA
*
36249517 TCAAAAATTTACTGGGGGTAAAAT
1 TCAAAAATTTACTAGGGGTAAAAT
36249541 AGATTTGAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (26 bp):
TCAAAAATTTACTAGGGGTAAAATCA
Found at i:36257502 original size:20 final size:19
Alignment explanation
Indices: 36257473--36257510 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
36257463 AGTTTATGCA
*
36257473 GTTTTAATTTAATTTTCTG
1 GTTTTAATTTAAATTTCTG
36257492 GTTTCTAATTTAAATTTCT
1 GTTT-TAATTTAAATTTCT
36257511 ATATTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.61
Consensus pattern (19 bp):
GTTTTAATTTAAATTTCTG
Found at i:36265326 original size:3 final size:3
Alignment explanation
Indices: 36265318--36265366 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
36265308 GCTTGGATAG
36265318 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
36265366 A
1 A
36265367 AAGAATCAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:36266009 original size:10 final size:9
Alignment explanation
Indices: 36265989--36266048 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 9
36265979 TTTTAATTAA
36265989 TTTATTAATT
1 TTTA-TAATT
36265999 TCTTATAATT
1 T-TTATAATT
36266009 TTTAATAATT
1 TTT-ATAATT
36266019 TTTGAGTAA-T
1 TTT-A-TAATT
36266029 TTTATACATTT
1 TTTATA-A-TT
36266040 TTTATAATT
1 TTTATAATT
36266049 ATATAAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
8 2 0.05
9 6 0.14
10 22 0.51
11 13 0.30
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:36266047 original size:19 final size:18
Alignment explanation
Indices: 36265989--36266054 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
36265979 TTTTAATTAA
*
36265989 TTTATTAATTTCTTATAATT
1 TTTA-TAATTTTTTATAA-T
*
36266009 TTTAATAATTTTTGAGTAAT
1 TTT-ATAATTTTTTA-TAAT
36266029 TTTATACATTTTTTATAAT
1 TTTATA-ATTTTTTATAAT
*
36266048 TATATAA
1 TTTATAA
36266055 AAAATCATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.03
19 12 0.31
20 22 0.56
21 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTATAATTTTTTATAAT
Found at i:36266601 original size:24 final size:25
Alignment explanation
Indices: 36266574--36266621 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
36266564 ACAAGATTAC
36266574 TAAAATAACATAT-TACTAAAATTT
1 TAAAATAACATATATACTAAAATTT
* *
36266598 TAAAATAATATATATCCTAAAATT
1 TAAAATAACATATATACTAAAATT
36266622 AAAATTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAATAACATATATACTAAAATTT
Found at i:36270226 original size:30 final size:30
Alignment explanation
Indices: 36270192--36270255 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
36270182 TTAGTTAATA
36270192 AAATTATTCAAGAATTACATTAATGGAAGC
1 AAATTATTCAAGAATTACATTAATGGAAGC
*
36270222 AAATTATTCATGAATTACATTAATGGAAGC
1 AAATTATTCAAGAATTACATTAATGGAAGC
36270252 AAAT
1 AAAT
36270256 GTTATTCATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (30 bp):
AAATTATTCAAGAATTACATTAATGGAAGC
Found at i:36271323 original size:6 final size:6
Alignment explanation
Indices: 36271312--36271347 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
36271302 AAGTTGCTCA
*
36271312 AAATGG AAATGG AAATAG AAATGG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG
36271348 ATTCATTTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:36285556 original size:22 final size:22
Alignment explanation
Indices: 36285528--36285572 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
36285518 CACAAATGAG
36285528 TAAGTTTACTAATGTCGCATAT
1 TAAGTTTACTAATGTCGCATAT
36285550 TAAGTTTACTAATGTCGCATAT
1 TAAGTTTACTAATGTCGCATAT
36285572 T
1 T
36285573 TATTGACCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (22 bp):
TAAGTTTACTAATGTCGCATAT
Found at i:36287923 original size:50 final size:50
Alignment explanation
Indices: 36287759--36287990 Score: 304
Period size: 50 Copynumber: 4.6 Consensus size: 50
36287749 GATGAACACT
* ** *** * *
36287759 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACG
* * * *
36287810 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AAAAGCTTTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAA-C-TTGATCACG
36287861 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACG
*
36287911 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATAACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACG
*
36287961 TGTGTAGTACTATGTGAAGGCTACTGCGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
36287991 TATCGAATGA
Statistics
Matches: 162, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
49 3 0.02
50 86 0.53
51 69 0.43
52 4 0.02
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACG
Found at i:36288021 original size:100 final size:100
Alignment explanation
Indices: 36287759--36287990 Score: 252
Period size: 101 Copynumber: 2.3 Consensus size: 100
36287749 GATGAACACT
* ** ** * * * *
36287759 TGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTACTAAG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACA-GATAACATGCGTAGTACTATG
* * * *
36287824 TGAAGGCTACTATGTGTACCGAAAAGCTTTGGTCACG
64 TGAAGGCTACTACGTGAACCGAAAAGCTTTGATAACG
* * * *
36287861 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACTTGATCACGTGTGTAGTACTATGT
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAAC-AGATAACATGCGTAGTACTATGT
36287926 GAAGGCTACTACGTGAACCGTAAAA-C-TTGATAACG
65 GAAGGCTACTACGTGAACCG-AAAAGCTTTGATAACG
*
36287961 TGTGTAGTACTATGTGAAGGCTACTGCGTG
1 TGTGTAGTACTATGTGAAGGCTACTACGTG
36287991 TATCGAATGA
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
100 36 0.32
101 42 0.37
102 36 0.32
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (100 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAACCGTAAAACAGATAACATGCGTAGTACTATGTG
AAGGCTACTACGTGAACCGAAAAGCTTTGATAACG
Found at i:36289246 original size:225 final size:224
Alignment explanation
Indices: 36288830--36289278 Score: 871
Period size: 225 Copynumber: 2.0 Consensus size: 224
36288820 TGACTGAAAT
*
36288830 AGACAACTTTGAATTTAAATATAAGGAATAGTGAAATTATGTATAATGTTATTTAAGCATGTTTT
1 AGACAACTTTGAATTTAAATATAAGGAATAGTGAAATTATGTATAATGCTATTTAAGCATGTTTT
36288895 ATACATAAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAATTAATTATATATATGAATGATTAGT
66 ATACATAAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAATTAATTATATATATGAATGATTAGT
36288960 GTATAATTGGTTATATGCTCCATTATAATCGATAAACATTAAAATAGAAATGATGCTTACATTTG
131 GTATAATTGGTTATATGCTCCATTATAATCGATAAACATTAAAATAGAAATGATGCTTACATTTG
36289025 TGTATTATTGATCATGATTTAAGCTCATA
196 TGTATTATTGATCATGATTTAAGCTCATA
*
36289054 AGACAGCTTTGAATTTAAATATAAGTGAATAGTGAAATTATGTATAATGCTATTTAAGCATGTTT
1 AGACAACTTTGAATTTAAATATAAG-GAATAGTGAAATTATGTATAATGCTATTTAAGCATGTTT
36289119 TATACATAAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAATTAATTATATATATGAATGATTAG
65 TATACATAAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAATTAATTATATATATGAATGATTAG
36289184 TGTATAATTGGTTATATGCTCCATTATAATCGATAAACATTAAAATAGAAATGATGCTTACATTT
130 TGTATAATTGGTTATATGCTCCATTATAATCGATAAACATTAAAATAGAAATGATGCTTACATTT
36289249 GTGTATTATTGATCATGATTTAAGCTCATA
195 GTGTATTATTGATCATGATTTAAGCTCATA
36289279 TGGGAAAATA
Statistics
Matches: 222, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
224 24 0.11
225 198 0.89
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (224 bp):
AGACAACTTTGAATTTAAATATAAGGAATAGTGAAATTATGTATAATGCTATTTAAGCATGTTTT
ATACATAAAGGATGTGGAATGGAGAGGAGGAGGAGGAAAATTAATTATATATATGAATGATTAGT
GTATAATTGGTTATATGCTCCATTATAATCGATAAACATTAAAATAGAAATGATGCTTACATTTG
TGTATTATTGATCATGATTTAAGCTCATA
Found at i:36294209 original size:47 final size:47
Alignment explanation
Indices: 36294158--36294256 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
36294148 GGTTGGACCG
** *
36294158 TGGCAACA-TGTGATATGTGATTTTCGTATAAGACCATATCTGGGATA
1 TGGCAACAGTGTGATATGTGATACT-GTATAAGACCATAGCTGGGATA
* * * *
36294205 TGGCATCAGTGTGATATGTGCTACTGTGTAAGACCATAGCTGGGCTA
1 TGGCAACAGTGTGATATGTGATACTGTATAAGACCATAGCTGGGATA
36294252 TGGCA
1 TGGCA
36294257 TTGATATGTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 31 0.70
48 13 0.30
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (47 bp):
TGGCAACAGTGTGATATGTGATACTGTATAAGACCATAGCTGGGATA
Found at i:36297261 original size:51 final size:51
Alignment explanation
Indices: 36297200--36297641 Score: 423
Period size: 51 Copynumber: 8.7 Consensus size: 51
36297190 GATGAACACT
* * *
36297200 TGTGTTGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGTCACG
* * * * * *
36297251 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGAT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGTTGGTCACG
* * * *
36297302 TGTATAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGTCACG
* * * * * *
36297353 TGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGAT-TTGGTCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAA-ATGTTGGTCACG
* * * * *
36297404 TGTATAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTTACA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGTCACG
* * * *
36297455 TGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CTGA-AAA-GCTTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATC-GATAAATG--TTGGTCACG
* ** *
36297506 TGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGTCACG
* ** *
36297556 TGTGTAGTACTATGTGAAGGCTACTACATGAA-CTG-TAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATC-GATAAATGTTGGTCACG
* * *
36297606 TGTATAGTACTATGTGAAGGCTACTACATGTATCGA
1 TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
36297642 ATGATAAAAG
Statistics
Matches: 322, Mismatches: 56, Indels: 26
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.01
50 95 0.30
51 220 0.68
52 5 0.02
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (51 bp):
TGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGTCACG
Found at i:36297382 original size:102 final size:102
Alignment explanation
Indices: 36297206--36297641 Score: 617
Period size: 102 Copynumber: 4.3 Consensus size: 102
36297196 CACTTGTGTT
36297206 GTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
1 GTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
*
36297271 CTACAATGTGTACCGAGAAGATTTGGTCACGTGTATA
66 CTACAATGTGTACCGAGAAGATTTGATCACGTGTATA
*
36297308 GTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
1 GTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
*
36297373 CTACAATGTGTACCGAGAAGATTTGGTCACGTGTATA
66 CTACAATGTGTACCGAGAAGATTTGATCACGTGTATA
* *
36297410 GTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTTACATGTGTAGTACTAAGTGAAGG
1 GTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
* * * * *
36297475 CTACTATGTGTACTGAAAAGCTTTGATCACGTGTGTA
66 CTACAATGTGTACCGAGAAGATTTGATCACGTGTATA
* *** * * *
36297512 GTACTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTAGTACTATGTGAAGG
1 GTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
* ** * * *
36297576 CTACTACATGAACTGTA-AA-ACTTGATCACGTGTATA
66 CTACAATGTGTACCG-AGAAGATTTGATCACGTGTATA
* *
36297612 GTACTATGTGAAGGCTACTACATGTATCGA
1 GTACTATGTGAAGGCTACTACGTGAATCGA
36297642 ATGATAAAAG
Statistics
Matches: 306, Mismatches: 26, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
100 40 0.13
101 42 0.14
102 224 0.73
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (102 bp):
GTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTACTAAGTGAAGG
CTACAATGTGTACCGAGAAGATTTGATCACGTGTATA
Found at i:36299792 original size:16 final size:16
Alignment explanation
Indices: 36299753--36299792 Score: 66
Period size: 14 Copynumber: 2.6 Consensus size: 16
36299743 AATCGGAGTC
36299753 TTACTTTGTGTAGGAA
1 TTACTTTGTGTAGGAA
36299769 TTAC--TGTGTAGGAA
1 TTACTTTGTGTAGGAA
36299783 TTACTTTGTG
1 TTACTTTGTG
36299793 AGATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.64
16 8 0.36
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (16 bp):
TTACTTTGTGTAGGAA
Found at i:36301816 original size:29 final size:29
Alignment explanation
Indices: 36301756--36301918 Score: 154
Period size: 29 Copynumber: 5.6 Consensus size: 29
36301746 AATGGTCGAA
*
36301756 ACCATCCCTTTTCATTAATTGATGGTCGTC
1 ACCATCCCTTTTCA-TAATTGATGGTCATC
*
36301786 ACCATCCCTTTTCATAGTTGATGGTCATC
1 ACCATCCCTTTTCATAATTGATGGTCATC
***
36301815 ACCATCCCTTTTCATAATTGATAACCGA--
1 ACCATCCCTTTTCATAATTGATGGTC-ATC
* * * *
36301843 AGCTATACCTTTT--TTATTCTATGGTCATC
1 A-CCATCCCTTTTCATAATT-GATGGTCATC
* * *
36301872 ACCATCCCTTTTTATATTTGATTGTCATC
1 ACCATCCCTTTTCATAATTGATGGTCATC
36301901 ACCATCCCTTTTCATAAT
1 ACCATCCCTTTTCATAAT
36301919 CGATAGTCGA
Statistics
Matches: 105, Mismatches: 21, Indels: 15
0.74 0.15 0.11
Matches are distributed among these distances:
27 5 0.05
28 13 0.12
29 69 0.66
30 18 0.17
ACGTcount: A:0.23, C:0.26, G:0.09, T:0.41
Consensus pattern (29 bp):
ACCATCCCTTTTCATAATTGATGGTCATC
Found at i:36301882 original size:86 final size:86
Alignment explanation
Indices: 36301777--36301941 Score: 249
Period size: 86 Copynumber: 1.9 Consensus size: 86
36301767 TCATTAATTG
* *
36301777 ATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATTGATAACCG
1 ATGGTCATCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAACCG
*
36301842 AAGCTATACCTTTTTTATTCT
66 AAACTATACCTTTTTTATTCT
* * * **
36301863 ATGGTCATCACCATCCCTTTTTATATTTGATTGTCATCACCATCCCTTTTCATAATCGATAGTCG
1 ATGGTCATCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAACCG
*
36301928 AAACTATCCCTTTT
66 AAACTATACCTTTT
36301942 CCTATTCGAT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 70 1.00
ACGTcount: A:0.24, C:0.26, G:0.10, T:0.40
Consensus pattern (86 bp):
ATGGTCATCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAACCG
AAACTATACCTTTTTTATTCT
Found at i:36301911 original size:57 final size:58
Alignment explanation
Indices: 36301756--36301916 Score: 159
Period size: 57 Copynumber: 2.8 Consensus size: 58
36301746 AATGGTCGAA
* *
36301756 ACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATC
1 ACCATCCCTTTTCA-TAATTGATAGTCATCACCATCCCTTTTCATAGTTGATGGTCATC
** * * * *
36301815 ACCATCCCTTTTCATAATTGATAACCGA--AGCTATACCTTTT-TTA-TTCTATGGTCATC
1 ACCATCCCTTTTCATAATTGATAGTC-ATCA-CCATCCCTTTTCATAGTT-GATGGTCATC
* * *
36301872 ACCATCCCTTTTTATATTTGATTGTCATCACCATCCCTTTTCATA
1 ACCATCCCTTTTCATAATTGATAGTCATCACCATCCCTTTTCATA
36301917 ATCGATAGTC
Statistics
Matches: 80, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
56 3 0.04
57 42 0.52
58 21 0.26
59 14 0.17
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (58 bp):
ACCATCCCTTTTCATAATTGATAGTCATCACCATCCCTTTTCATAGTTGATGGTCATC
Found at i:36301936 original size:29 final size:29
Alignment explanation
Indices: 36301904--36301981 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
36301894 TGTCATCACC
36301904 ATCCCTTTTCATAATCGATAGTCGAAACT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
* * *
36301933 ATCCCTTTTCCTATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATCGATAGTCGAAACT
36301962 ATCCCTTTTCATTAATCGAT
1 ATCCCTTTTCA-TAATCGAT
36301982 GATCATTGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 36 0.84
30 7 0.16
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.38
Consensus pattern (29 bp):
ATCCCTTTTCATAATCGATAGTCGAAACT
Found at i:36301959 original size:115 final size:116
Alignment explanation
Indices: 36301756--36301970 Score: 274
Period size: 115 Copynumber: 1.9 Consensus size: 116
36301746 AATGGTCGAA
* * * * *
36301756 ACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATC
1 ACCATCCCTTTTCATTAATTGATGGTCATCACCATCCCTTTTCATAATCGATAGTCATAACCATC
36301821 CCTTTTCATAATTGATAACCGAAGCTATACCTTTTTTATTCTATGGTCATC
66 CCTTTTCATAATTGATAACCGAAGCTATACCTTTTTTATTCTATGGTCATC
* * * *
36301872 ACCATCCCTTTTTA-TATTTGATTGTCATCACCATCCCTTTTCATAATCGATAGTCGA-AACTAT
1 ACCATCCCTTTTCATTAATTGATGGTCATCACCATCCCTTTTCATAATCGATAGTC-ATAACCAT
* ** *
36301935 CCCTTTTCCT-ATTCGATAGTCGAAGCTATCCCTTTT
65 CCCTTTTCATAATT-GATAACCGAAGCTATACCTTTT
36301971 CATTAATCGA
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
114 3 0.04
115 67 0.80
116 14 0.17
ACGTcount: A:0.23, C:0.27, G:0.10, T:0.40
Consensus pattern (116 bp):
ACCATCCCTTTTCATTAATTGATGGTCATCACCATCCCTTTTCATAATCGATAGTCATAACCATC
CCTTTTCATAATTGATAACCGAAGCTATACCTTTTTTATTCTATGGTCATC
Found at i:36308222 original size:21 final size:20
Alignment explanation
Indices: 36308196--36308251 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
36308186 ATACCAACTA
* *
36308196 AAAAATATTGATACTTTTTTT
1 AAAAATATTAATAC-CTTTTT
* *
36308217 TAAAATATCAATACCTTTTT
1 AAAAATATTAATACCTTTTT
36308237 AAAAATATTAATACC
1 AAAAATATTAATACC
36308252 ACGGGGTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.43
Consensus pattern (20 bp):
AAAAATATTAATACCTTTTT
Found at i:36319826 original size:4 final size:4
Alignment explanation
Indices: 36319817--36319841 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36319807 TTTTTAAAGT
36319817 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
36319842 AGTTCGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:36333616 original size:13 final size:13
Alignment explanation
Indices: 36333600--36333636 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
36333590 TTTTATTATT
36333600 TTATTTATCTTAA
1 TTATTTATCTTAA
*
36333613 TTATTTATTTTAA
1 TTATTTATCTTAA
36333626 TTATTTTATCT
1 TTA-TTTATCT
36333637 GACTTGGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:36338266 original size:26 final size:26
Alignment explanation
Indices: 36338208--36338266 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
36338198 CAATGCTCAC
* * *
36338208 ACGAGCTGTGAAATGGGCCTACTTAC
1 ACGAGCTGTGAAATGGGCCTAATCAA
*
36338234 ACAAGCTGTGAAATGGGCCTAATCAA
1 ACGAGCTGTGAAATGGGCCTAATCAA
36338260 ACGAGCT
1 ACGAGCT
36338267 ATAGGTCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (26 bp):
ACGAGCTGTGAAATGGGCCTAATCAA
Found at i:36341998 original size:29 final size:28
Alignment explanation
Indices: 36341936--36341998 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 28
36341926 ATAGTACATT
* *
36341936 ATAAAATTAAATAATAATACTTGATAAA
1 ATAAAACTAAATAATAATACTAGATAAA
* *
36341964 AAAAAACTAGAATAATAATACATAG-TAGA
1 ATAAAACTA-AATAATAATAC-TAGATAAA
36341993 ATAAAA
1 ATAAAA
36341999 TTATATATAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
28 7 0.25
29 19 0.68
30 2 0.07
ACGTcount: A:0.63, C:0.05, G:0.06, T:0.25
Consensus pattern (28 bp):
ATAAAACTAAATAATAATACTAGATAAA
Found at i:36343671 original size:44 final size:44
Alignment explanation
Indices: 36343481--36344024 Score: 285
Period size: 44 Copynumber: 12.7 Consensus size: 44
36343471 GTTTGATGCG
* * **
36343481 ATCTGCTCTATTGCAA-TTCATAGAGATAAGATCTG-CAATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTC-ATTTTA
* * * * *
36343524 ATCCGCTCCACTGCAACTTTAAGGAGATAGGAT-TGGT--TTCTTCT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTCATT-TT-A
* * ** * ***
36343568 GTCTGTTCCACTATAACTTCAGGGAGATAAGA-CTG-GA-TGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCATTTTA
* *
36343609 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTCATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCATTTTA
** * * *
36343653 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGC--TTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-CTGTCATTTTA
* *
36343697 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTCAT-TTTA
* * * * * ***
36343742 GTCTACCCCACTGCAACTTTAGGGGGATAAGA-C--T-AGTTGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCA-TTTTA
* * **
36343783 ATCTG-TTCTCTGCAACTTCAGAAAGATAAGATCTGTCATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCATTTTA
* * * *
36343826 ATCCGCTCCGCTGCAACTTCAGGGAGATAGGAT-TGGC--TTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCATTTTA
* * *
36343867 ATCTGCTCCACTGTAACTTCAGGGAGATAAGAT-TCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-GTCAT-TTTA
* * * *
36343912 GTCTGCCCCACTGCAACTTCAAGGG-GATAAGA-C--T-AGTTGTG
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGATCTGTCA-TTTTA
* ** * *
36343953 ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCTATTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCATTTTA
* *
36343996 ATCCGCTCCGCTGCAACTTCAGGGAGATA
1 ATCTGCTCCACTGCAACTTCAGGGAGATA
36344025 GGTTGGCTTT
Statistics
Matches: 372, Mismatches: 92, Indels: 73
0.69 0.17 0.14
Matches are distributed among these distances:
39 2 0.01
40 37 0.10
41 76 0.20
42 11 0.03
43 40 0.11
44 141 0.38
45 58 0.16
46 7 0.02
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTCATTTTA
Found at i:36343707 original size:129 final size:128
Alignment explanation
Indices: 36343475--36343728 Score: 352
Period size: 129 Copynumber: 2.0 Consensus size: 128
36343465 ACTGAGGTTT
* * *
36343475 GATGCGATCTGCTCTATTGCAATTCATAGAGATAAGATCTGCAATTTTAATCCGCTCCACTGCAA
1 GATGCGATCTGCTCTACTGCAATTCAGAGAGATAAGATCTGCAATTTTAATCCACTCCACTGCAA
* * * * * *
36343540 CTTTAAGGAGATAGGATTGGTTTCTTCTGTCTGTTCCACTATAACTTCAGGGAGATAAGACTG
66 CTTCAAGGAGATAGGATTGATTGCTTCTATCTGCTCCACTACAACTTCAGGGAGATAAGACTG
36343603 GATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTC-ATTTTAATCCACTCCACTGC
1 GATGCGATCTGCTCTACTGCAA-TTCAGAGAGATAAGATCTG-CAATTTTAATCCACTCCACTGC
* *
36343667 AACTTCAGGGAGATAGGATT-ATTGGCTT-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
64 AACTTCAAGGAGATAGGATTGATT-GCTTCT-ATCTGCTCCACTACAACTTCAGGGAGATAAGA
36343729 TTCGCCATCT
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
128 24 0.22
129 86 0.77
130 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (128 bp):
GATGCGATCTGCTCTACTGCAATTCAGAGAGATAAGATCTGCAATTTTAATCCACTCCACTGCAA
CTTCAAGGAGATAGGATTGATTGCTTCTATCTGCTCCACTACAACTTCAGGGAGATAAGACTG
Found at i:36343923 original size:170 final size:170
Alignment explanation
Indices: 36343520--36344073 Score: 745
Period size: 170 Copynumber: 3.2 Consensus size: 170
36343510 GATCTGCAAT
* * * * *** * ** **
36343520 TTTAATCCGCTCCACTGCAACTTTAAGGAGATAGGATT-GGTTTCTTCTGTCTGTTCCACTATAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
* * * *
36343584 CTTCAGGGAGATAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTCAT
66 CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCT-CTGCAACTTCAGAAAGATAAGATCTGTCAT
* *
36343649 TTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGC
130 TTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGG---ATTGGC
*
36343693 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTACCCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
* *
36343758 CTTTAGGGGGATAAGACTAGTTGCGATCTGTTCTCTGCAACTTCAGAAAGATAAGATCTGTCATT
66 CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGTCATT
36343823 TTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGGC
131 TTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGGC
*
36343863 TTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
* * * *
36343928 CTTCAAGGGGATAAGACTAGTTGTGATCTGCTCTCTGCAACTTCA-AAGAGATAAGATCTATTAT
66 CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCTCTGCAACTTCAGAA-AGATAAGATCTGTCAT
36343992 TTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGG-TTGGC
130 TTTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGGC
* * *
36344032 TTTAATCAGTCTGCCCCATTGCAACTTCAGGGAGATAGGATT
1 TTT-A--A-TCTGCTCCACTGCAACTTCAGGGAGATAAGATT
36344074 TGCGGTTTCA
Statistics
Matches: 342, Mismatches: 33, Indels: 12
0.88 0.09 0.03
Matches are distributed among these distances:
169 10 0.03
170 160 0.47
172 1 0.00
173 125 0.37
174 46 0.13
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (170 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAA
CTTCAGGGGGATAAGACTAGTTGCGATCTGCTCTCTGCAACTTCAGAAAGATAAGATCTGTCATT
TTAATCCGCTCCGCTGCAACTTCAGGGAGATAGGATTGGC
Found at i:36343932 original size:45 final size:43
Alignment explanation
Indices: 36343609--36344073 Score: 238
Period size: 44 Copynumber: 10.8 Consensus size: 43
36343599 ACTGGATGCG
* * * *
36343609 ATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTCATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-CCTTTCA
** * * *
36343653 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCTTTCA
36343697 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCC-T-TTCA
* * * * * * * * *
36343742 GTCTACCCCACTGCAACTTTAGGGGGATAAGACTAG--TTGCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCTTTCA
* * ** * *
36343783 ATCTG-TTCTCTGCAACTTCAGAAAGATAAGA-TCTGTCATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-G-CCTTTCA
* * * *
36343826 ATCCGCTCCGCTGCAACTTCAGGGAGATAGGATT-GGCTTT-A
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCTTTCA
*
36343867 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTCGCCATCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCC-T-TTCA
* * * * *
36343912 GTCTGCCCCACTGCAACTTCAAGGG-GATAAGACTAG--TTGT-G
1 ATCTGCTCCACTGCAACTTC-AGGGAGATAAGATTCGCCTT-TCA
* ** **** *
36343953 ATCTGCT-CTCTGCAACTTCAAAGAGATAAGATCTATTATTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCTTTCA
* * * * *
36343996 ATCCGCTCCGCTGCAACTTCAGGGAGAT-AGGTTGGCTTTAATCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCTT--TCA
* * * *
36344040 GTCTGCCCCATTGCAACTTCAGGGAGATAGGATT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
36344074 TGCGGTTTCA
Statistics
Matches: 315, Mismatches: 79, Indels: 53
0.70 0.18 0.12
Matches are distributed among these distances:
39 3 0.01
40 38 0.12
41 44 0.14
42 15 0.05
43 21 0.07
44 124 0.39
45 64 0.20
46 5 0.02
47 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCTTTCA
Found at i:36349791 original size:315 final size:312
Alignment explanation
Indices: 36349196--36349820 Score: 1151
Period size: 315 Copynumber: 2.0 Consensus size: 312
36349186 ACACCCATAC
* *
36349196 TAATGAGCATTTTAATAAGCTTTTTAAAGGCGGTGCAATTTTCTATAGAATGCCTTGTAATTCCT
1 TAATGAGCATTTCAATAAGCTTTTTAAAGGCAGTGCAATTTTCTATAGAATGCCTTGTAATTCCT
*
36349261 GCATGGTAGTCGCACTGTGCATTCATGTCATACCATTTGGGATATGGAGGTTGTAAAGGTTTCAA
66 GCATGGTAGTCGCACTGTGCATTCATGTCATACCATTTGAGATATGGAGGTTGTAAAGGTTTCAA
* *
36349326 ATAAGAAGGGAAAACGTGTGAATTGAATAAACTCTAATATAGCTCTTTATATGACATTGGGATTG
131 ATAAGAAGGGAAAACGTGTGAATCGAATAAACTCTAATATAGCTCCTTATATGACATTGGGATTG
*
36349391 GTGTGAACTGGAGCTTCTCAGCGTTTTGCCTCATGCCAAATTCTTGTCTTGATGAACCCTGTTGA
196 GTGTGAACTGGAGCTTCTCAGCGTTTTGCCTCATGCCAAATTCTTGTCTTGATGAACCCTGTTAA
36349456 CTAGCAACCACCTTTCTTGGCTGATTCACCGTAATCGATTTGTTGTATGTTT
261 CTAGCAACCACCTTTCTTGGCTGATTCACCGTAATCGATTTGTTGTATGTTT
*
36349508 TAATGAGCCTTTCAATAAGCTTTTTAAAGGCAGTGCAATTTTCTATAGAATGCCTTGTAATTCCT
1 TAATGAGCATTTCAATAAGCTTTTTAAAGGCAGTGCAATTTTCTATAGAATGCCTTGTAATTCCT
36349573 GCATGGTAGTCGCACTGTGCATTCATGTCATACCATTTGAGATATGGAGGTTGTAAAGGTTTCAA
66 GCATGGTAGTCGCACTGTGCATTCATGTCATACCATTTGAGATATGGAGGTTGTAAAGGTTTCAA
*
36349638 ATAAGAAGGGGAAACAACGTGTGCATCGAATAAACTCTAATATAGCTCCTTATATGACATTGGGA
131 ATAAGAA-GGG-AA-AACGTGTGAATCGAATAAACTCTAATATAGCTCCTTATATGACATTGGGA
36349703 TTGGTGTGAACTGGAGCTTCTCAGCGTTTTGCCTCATGCCAAATTCTTGTCTTGATGAACCCTGT
193 TTGGTGTGAACTGGAGCTTCTCAGCGTTTTGCCTCATGCCAAATTCTTGTCTTGATGAACCCTGT
36349768 TAACTAGCAACCACCTTTCTTGGCTGATTCACCGTAATCGATTTGTTGTATGT
258 TAACTAGCAACCACCTTTCTTGGCTGATTCACCGTAATCGATTTGTTGTATGT
36349821 ATTCACGATG
Statistics
Matches: 302, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
312 133 0.44
313 3 0.01
314 2 0.01
315 164 0.54
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (312 bp):
TAATGAGCATTTCAATAAGCTTTTTAAAGGCAGTGCAATTTTCTATAGAATGCCTTGTAATTCCT
GCATGGTAGTCGCACTGTGCATTCATGTCATACCATTTGAGATATGGAGGTTGTAAAGGTTTCAA
ATAAGAAGGGAAAACGTGTGAATCGAATAAACTCTAATATAGCTCCTTATATGACATTGGGATTG
GTGTGAACTGGAGCTTCTCAGCGTTTTGCCTCATGCCAAATTCTTGTCTTGATGAACCCTGTTAA
CTAGCAACCACCTTTCTTGGCTGATTCACCGTAATCGATTTGTTGTATGTTT
Found at i:36353618 original size:3 final size:3
Alignment explanation
Indices: 36353610--36353634 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36353600 GTACTTACGC
36353610 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
36353635 TTTTTTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:36357521 original size:111 final size:112
Alignment explanation
Indices: 36357250--36357647 Score: 532
Period size: 111 Copynumber: 3.5 Consensus size: 112
36357240 TTTAGTAAAA
* * * * * * **
36357250 AAAAAACACAATAGAAGTATTAACTTCTCAATTTTCATAAAGTAGAGGGATCGATTATGTTCTTA
1 AAAAAA-ACAATATAGGTACTAACTTCTCAATTTTCATAAAGTAGAGGGACCAATTTTGTAGTTA
* *
36357315 GACATTGTTTTGAAAAAGAAGAA-GAGAAATAACAACTTGAACATTTCGT
65 GACATTGTTTTGAAAAA-AA-AAGGAGAAATAACAACTTGAGCATTTAGT
*
36357364 AAAAAAACAATATAGGTACTAACTTTTCAATTTTCATAAAGTAGAGGGACCAATTTTGTAGTTAG
1 AAAAAAACAATATAGGTACTAACTTCTCAATTTTCATAAAGTAGAGGGACCAATTTTGTAGTTAG
*
36357429 ACATTGTTTTGAAAAAAAAAGGAGAAACAACAACTTGAGC-TTTAGT
66 ACATTGTTTTGAAAAAAAAAGGAGAAATAACAACTTGAGCATTTAGT
* *
36357475 AAAAAAACAATATAGGTATTAACTTTTCAATTTTCATAAAGTAGAGGGACCAATTTTGTAGTTAG
1 AAAAAAACAATATAGGTACTAACTTCTCAATTTTCATAAAGTAGAGGGACCAATTTTGTAGTTAG
* *
36357540 ACATTGTTTTGGAAGAAAAAGGAGAAATAACAACTTGAGCATTTAGTTT
66 ACATTGTTTTGAAAAAAAAAGGAGAAATAACAACTTGAGCATTTAG--T
* * **
36357589 AAAAAAAACAATAAAGAG-GCTAACTTCTCAATTTTCATAAAGTAGAGGGATAAATTTTG
1 -AAAAAAACAATATAG-GTACTAACTTCTCAATTTTCATAAAGTAGAGGGACCAATTTTG
36357648 GAATTAGAAC
Statistics
Matches: 256, Mismatches: 22, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
111 108 0.42
112 24 0.09
113 66 0.26
114 7 0.03
115 50 0.20
116 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (112 bp):
AAAAAAACAATATAGGTACTAACTTCTCAATTTTCATAAAGTAGAGGGACCAATTTTGTAGTTAG
ACATTGTTTTGAAAAAAAAAGGAGAAATAACAACTTGAGCATTTAGT
Done.