Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 122 of 206
Found at i:36503145 original size:35 final size:35
Alignment explanation
Indices: 36503102--36503224 Score: 147
Period size: 35 Copynumber: 3.5 Consensus size: 35
36503092 TGATATTCTT
* *
36503102 ATTCGCATGTTAAGCATGTTATTATTCTGGTTATG
1 ATTCGCATGTTAAGCATGCTATTATTCTGATTATG
* * *
36503137 ATTTGCATGTTAAGAATGCTATTATTCTAATTATG
1 ATTCGCATGTTAAGCATGCTATTATTCTGATTATG
* * **
36503172 ATTCACATGTTAAGCATGCCATTATTCTGAAAATG
1 ATTCGCATGTTAAGCATGCTATTATTCTGATTATG
* *
36503207 ACTCACATGTTAAGCATG
1 ATTCGCATGTTAAGCATG
36503225 TCACTATGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 75 1.00
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (35 bp):
ATTCGCATGTTAAGCATGCTATTATTCTGATTATG
Found at i:36504302 original size:22 final size:22
Alignment explanation
Indices: 36504274--36504338 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
36504264 AAAGCTGCCA
36504274 GTAAACAGAATGGCTA-AGAGCT
1 GTAAACAGAATGGCTATA-AGCT
* *
36504296 GTAAACAGGATAGCTATAAGCT
1 GTAAACAGAATGGCTATAAGCT
* *
36504318 ATAAACAGAATGGCTACAAGC
1 GTAAACAGAATGGCTATAAGC
36504339 CATAAGTACA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 35 0.97
23 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (22 bp):
GTAAACAGAATGGCTATAAGCT
Found at i:36504343 original size:22 final size:21
Alignment explanation
Indices: 36504270--36504343 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 21
36504260 CAGCAAAGCT
36504270 GCCAGTAAACAGAATGGCTAAGA
1 GCCA-TAAACAGAATGGCTAA-A
** * *
36504293 GCTGTAAACAGGATAGCTATAA
1 GCCATAAACAGAATGGCTA-AA
*
36504315 GCTATAAACAGAATGGCTACAA
1 GCCATAAACAGAATGGCTA-AA
36504337 GCCATAA
1 GCCATAA
36504344 GTACAGTAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
22 38 0.93
23 3 0.07
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.18
Consensus pattern (21 bp):
GCCATAAACAGAATGGCTAAA
Found at i:36504409 original size:29 final size:30
Alignment explanation
Indices: 36504335--36504473 Score: 100
Period size: 32 Copynumber: 4.4 Consensus size: 30
36504325 GAATGGCTAC
* ** *
36504335 AAGCCATAAGTACAGTAATATGATTAGTACA
1 AAGCCATCAGTA-AGTAATATGATCGGCACA
* *
36504366 AAGTCATTCGTAGTAA-TGATATGATCGGCACA
1 AAGCCA-TC--AGTAAGTAATATGATCGGCACA
*
36504398 CAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAA--GTAATATGATCGGCACA
* ** *
36504430 AAGCCATCAGTAACGGTAATATGTTCAACATA
1 AAGCCATCAGTAA--GTAATATGATCGGCACA
36504462 AAGCCATCAGTA
1 AAGCCATCAGTA
36504474 GCATCACAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
29 5 0.06
31 7 0.08
32 71 0.81
33 1 0.01
34 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.24
Consensus pattern (30 bp):
AAGCCATCAGTAAGTAATATGATCGGCACA
Found at i:36504420 original size:32 final size:32
Alignment explanation
Indices: 36504384--36504473 Score: 135
Period size: 32 Copynumber: 2.8 Consensus size: 32
36504374 CGTAGTAATG
*
36504384 ATATGATCGGCACACAGCCATCAGTAACGGTA
1 ATATGATCGGCACAAAGCCATCAGTAACGGTA
36504416 ATATGATCGGCACAAAGCCATCAGTAACGGTA
1 ATATGATCGGCACAAAGCCATCAGTAACGGTA
* ** *
36504448 ATATGTTCAACATAAAGCCATCAGTA
1 ATATGATCGGCACAAAGCCATCAGTA
36504474 GCATCACAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 53 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (32 bp):
ATATGATCGGCACAAAGCCATCAGTAACGGTA
Found at i:36504713 original size:24 final size:24
Alignment explanation
Indices: 36504645--36504753 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
36504635 CCATGCTCAG
**
36504645 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
36504669 AATTAGT-AATAACAATCACAGACA
1 AATCAGTCATTTA-AATCACAGACA
*
36504693 AATCAGTCATTTAAATTACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
36504717 AATCAATCATTTACATCACGGACA
1 AATCAGTCATTTAAATCACAGACA
*
36504741 AATCAATCATTTA
1 AATCAGTCATTTA
36504754 CACTCGAGAG
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
23 2 0.03
24 66 0.93
25 3 0.04
ACGTcount: A:0.48, C:0.20, G:0.07, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:36504815 original size:27 final size:27
Alignment explanation
Indices: 36504772--36504888 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 27
36504762 AGGTAAAATA
* *
36504772 GTCA-TTTACCCTCTAGGGGCATTATG
1 GTCATTTTACCTTATAGGGGCATTATG
** *
36504798 GTCATTTTACCTTATAGGGATATT-TCA
1 GTCATTTTACCTTATAGGGGCATTAT-G
* * * *
36504825 GTCATTTAACCTTATAAGGGTATTACG
1 GTCATTTTACCTTATAGGGGCATTATG
* * * *
36504852 ATAATTTTATCTTATAGGGGCATTAAG
1 GTCATTTTACCTTATAGGGGCATTATG
36504879 GTCATTTTAC
1 GTCATTTTAC
36504889 AAATATTACG
Statistics
Matches: 68, Mismatches: 20, Indels: 5
0.73 0.22 0.05
Matches are distributed among these distances:
26 5 0.07
27 63 0.93
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.40
Consensus pattern (27 bp):
GTCATTTTACCTTATAGGGGCATTATG
Found at i:36518780 original size:20 final size:21
Alignment explanation
Indices: 36518741--36518784 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
36518731 TGAACATAGG
36518741 ATAGGATATAATTGGCATGCCA
1 ATAGGATATAATTGGCATG-CA
*
36518763 ATAGGTTAT-ATT-GCATGCA
1 ATAGGATATAATTGGCATGCA
36518782 ATA
1 ATA
36518785 TAAGATTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 5 0.24
21 3 0.14
22 8 0.38
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (21 bp):
ATAGGATATAATTGGCATGCA
Found at i:36527322 original size:30 final size:29
Alignment explanation
Indices: 36527286--36527528 Score: 132
Period size: 30 Copynumber: 8.1 Consensus size: 29
36527276 ATCGATAGTT
*
36527286 GATAGTCGAAGCTATCCCTTTTCATAATTC
1 GATAGTCGAA-CCATCCCTTTTCATAATTC
* *
36527316 GATAGTCGAAGCTATCCCTTTTCATAATTTT
1 GATAGTCGAA-CCATCCCTTTTCATAA-TTC
* * * * **
36527347 GATGGCCGTTACCATCCCTTTTCGTTGTT-
1 GATAGTCG-AACCATCCCTTTTCATAATTC
* * * * *
36527376 AATGGTCGTCACCATCCTTTTTCATAATTT
1 GATAGTCG-AACCATCCCTTTTCATAATTC
* * * *
36527406 GATAGCCAGAGCTATCCCTTTTCATGATTC
1 GATAGTC-GAACCATCCCTTTTCATAATTC
* * * *
36527436 AACAGACGAACCCATCCCTTTTCGT-ATATC
1 GATAGTCGAA-CCATCCCTTTTCATAAT-TC
* *
36527466 GATGGTCGTCACCATCCCTTTTCATAATTC
1 GATAGTCG-AACCATCCCTTTTCATAATTC
* *
36527496 AATAGTCGAAACTATCCCTTTTCATTAA-TC
1 GATAGTCG-AACCATCCCTTTTCA-TAATTC
36527526 GAT
1 GAT
36527529 GATCATCGAT
Statistics
Matches: 162, Mismatches: 42, Indels: 18
0.73 0.19 0.08
Matches are distributed among these distances:
29 26 0.16
30 108 0.67
31 27 0.17
32 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
GATAGTCGAACCATCCCTTTTCATAATTC
Found at i:36527367 original size:31 final size:31
Alignment explanation
Indices: 36527329--36527405 Score: 86
Period size: 29 Copynumber: 2.5 Consensus size: 31
36527319 AGTCGAAGCT
* *
36527329 ATCCCTTTTCATAATTTTGATGGCCGTTACC
1 ATCCCTTTTCATAATTTTAATGGCCGTCACC
* * *
36527360 ATCCCTTTTCGT--TGTTAATGGTCGTCACC
1 ATCCCTTTTCATAATTTTAATGGCCGTCACC
*
36527389 ATCCTTTTTCATAATTT
1 ATCCCTTTTCATAATTT
36527406 GATAGCCAGA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
29 23 0.64
31 13 0.36
ACGTcount: A:0.18, C:0.25, G:0.12, T:0.45
Consensus pattern (31 bp):
ATCCCTTTTCATAATTTTAATGGCCGTCACC
Found at i:36527471 original size:90 final size:89
Alignment explanation
Indices: 36527299--36527520 Score: 232
Period size: 90 Copynumber: 2.5 Consensus size: 89
36527289 AGTCGAAGCT
* * * * ** ** * *
36527299 ATCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAATTTTGATGGCCGTTA-CCATC
1 ATCCCTTTTCATAATTCAATAGCCGAAACTATCCCTTTTCATGA-TTCAACAGACG-AACCCATC
* *
36527363 CCTTTTCGTTGTTAATGGTCGTCACC
64 CCTTTTCGTTATCAATGGTCGTCACC
* ** *
36527389 ATCCTTTTTCATAATTTGATAGCC-AGAGCTATCCCTTTTCATGATTCAACAGACGAACCCATCC
1 ATCCCTTTTCATAATTCAATAGCCGA-AACTATCCCTTTTCATGATTCAACAGACGAACCCATCC
*
36527453 CTTTTCGTATATCGATGGTCGTCACC
65 CTTTTCGT-TATCAATGGTCGTCACC
*
36527479 ATCCCTTTTCATAATTCAATAGTCGAAACTATCCCTTTTCAT
1 ATCCCTTTTCATAATTCAATAGCCGAAACTATCCCTTTTCAT
36527521 TAATCGATGA
Statistics
Matches: 110, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
88 1 0.01
89 21 0.19
90 87 0.79
91 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (89 bp):
ATCCCTTTTCATAATTCAATAGCCGAAACTATCCCTTTTCATGATTCAACAGACGAACCCATCCC
TTTTCGTTATCAATGGTCGTCACC
Found at i:36527527 original size:60 final size:59
Alignment explanation
Indices: 36527299--36527529 Score: 182
Period size: 60 Copynumber: 3.9 Consensus size: 59
36527289 AGTCGAAGCT
* * * *
36527299 ATCCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATAATTTTGATGGCCGTTACC
1 ATCCCTTTTCATAATTCAATAGTCGAAACCATCCCTTTTCATAA-TTCGATGGCCG-TACC
* ** * ** * * * *
36527360 ATCCCTTTTCGTTGTT-AATGGTCGTCACCATCCTTTTTCATAATTTGATAGCCAG-AGCT
1 ATCCCTTTTCATAATTCAATAGTCGAAACCATCCCTTTTCATAATTCGATGGCC-GTA-CC
* * * * * *
36527419 ATCCCTTTTCATGATTCAACAGACGAACCCATCCCTTTTCGT-ATATCGATGGTCGTCACC
1 ATCCCTTTTCATAATTCAATAGTCGAAACCATCCCTTTTCATAAT-TCGATGGCCGT-ACC
*
36527479 ATCCCTTTTCATAATTCAATAGTCGAAACTATCCCTTTTCATTAA-TCGATG
1 ATCCCTTTTCATAATTCAATAGTCGAAACCATCCCTTTTCA-TAATTCGATG
36527530 ATCATCGATA
Statistics
Matches: 129, Mismatches: 33, Indels: 17
0.72 0.18 0.09
Matches are distributed among these distances:
58 1 0.01
59 26 0.20
60 86 0.67
61 15 0.12
62 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (59 bp):
ATCCCTTTTCATAATTCAATAGTCGAAACCATCCCTTTTCATAATTCGATGGCCGTACC
Found at i:36532169 original size:8 final size:8
Alignment explanation
Indices: 36532156--36532186 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
36532146 TTATCAGCTC
36532156 TTATTATT
1 TTATTATT
36532164 TTATTATT
1 TTATTATT
36532172 TTATTA-T
1 TTATTATT
36532179 TTATTATT
1 TTATTATT
36532187 CTGAATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTATT
Found at i:36533816 original size:20 final size:20
Alignment explanation
Indices: 36533756--36533817 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
36533746 TACTAATTAG
* * *
36533756 AACATATTTAATAGACTTAA
1 AACATATTTAACACACATAA
* **
36533776 GACATATTAATAACATGCATAA
1 AACATATT--TAACACACATAA
36533798 AACATATTTAACACACATAA
1 AACATATTTAACACACATAA
36533818 TTAAATTTGT
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 17 0.53
22 15 0.47
ACGTcount: A:0.52, C:0.15, G:0.05, T:0.29
Consensus pattern (20 bp):
AACATATTTAACACACATAA
Found at i:36534289 original size:26 final size:27
Alignment explanation
Indices: 36534239--36534289 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
36534229 ACTTCATAAA
*
36534239 TTCTCTTTGAGTTTTCTTTTTAAGAAT
1 TTCTCTTTGAGTTTTCTTTTGAAGAAT
36534266 TTCTC-TTGAG-TTTCTTTTAGAAGA
1 TTCTCTTTGAGTTTTCTTTT-GAAGA
36534290 GTTTTAGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 8 0.36
26 9 0.41
27 5 0.23
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.55
Consensus pattern (27 bp):
TTCTCTTTGAGTTTTCTTTTGAAGAAT
Found at i:36537088 original size:14 final size:12
Alignment explanation
Indices: 36537062--36537108 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 12
36537052 TCTATAAAAA
36537062 TAAAATAAAATAT
1 TAAAA-AAAATAT
36537075 TAAAAAAATGATAT
1 TAAAAAAA--ATAT
36537089 TAAAATAAAATAT
1 TAAAA-AAAATAT
36537102 TAAAAAA
1 TAAAAAA
36537109 TAAGGTTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
12 5 0.16
13 14 0.45
14 9 0.29
15 3 0.10
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (12 bp):
TAAAAAAAATAT
Found at i:36537117 original size:26 final size:27
Alignment explanation
Indices: 36537062--36537117 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
36537052 TCTATAAAAA
* *
36537062 TAAAATAAAATATTAAAAAAATGATAT
1 TAAAATAAAATATTAAAAAAATAAGAT
*
36537089 TAAAATAAAATATT-AAAAAATAAGGT
1 TAAAATAAAATATTAAAAAAATAAGAT
36537115 TAA
1 TAA
36537118 CTTTAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 12 0.46
27 14 0.54
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (27 bp):
TAAAATAAAATATTAAAAAAATAAGAT
Found at i:36544008 original size:77 final size:77
Alignment explanation
Indices: 36543888--36544030 Score: 250
Period size: 77 Copynumber: 1.9 Consensus size: 77
36543878 ATTCCCATAC
* * *
36543888 TTTTTTAGGGGGTTTCTTAAAGTATTCATTAGGGCAAGTCTAGTGATTAATCCTTCACGTTCTGT
1 TTTTTTAGGGGATTTCTTAAAGTAATCATTAGGGCAAGCCTAGTGATTAATCCTTCACGTTCTGT
36543953 AAGCTCATACTT
66 AAGCTCATACTT
*
36543965 TTTTTTATGGGATTTCTTAAAGTAATCATTAGGGCAAGCCTAGTGATTAATCCTTCACGTTCTGT
1 TTTTTTAGGGGATTTCTTAAAGTAATCATTAGGGCAAGCCTAGTGATTAATCCTTCACGTTCTGT
36544030 A
66 A
36544031 GACCCATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
77 62 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.41
Consensus pattern (77 bp):
TTTTTTAGGGGATTTCTTAAAGTAATCATTAGGGCAAGCCTAGTGATTAATCCTTCACGTTCTGT
AAGCTCATACTT
Found at i:36544642 original size:22 final size:23
Alignment explanation
Indices: 36544601--36544643 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
36544591 AATTAATAAC
36544601 ATATAATTGATATATCATATTTA
1 ATATAATTGATATATCATATTTA
36544624 ATAT-ATTAGATA-ATCATATT
1 ATATAATT-GATATATCATATT
36544644 GTTTTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (23 bp):
ATATAATTGATATATCATATTTA
Found at i:36545497 original size:26 final size:27
Alignment explanation
Indices: 36545466--36545518 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
36545456 CATTAATTAC
36545466 TTTAATTAAAAATGT-AATA-TTAAAAT
1 TTTAATTAAAAAT-TAAATATTTAAAAT
*
36545492 TTTAATTAAATATTAAATATTTAAAAT
1 TTTAATTAAAAATTAAATATTTAAAAT
36545519 CGCATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TTTAATTAAAAATTAAATATTTAAAAT
Found at i:36545961 original size:30 final size:30
Alignment explanation
Indices: 36545927--36545989 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
36545917 TTCCAGAGCA
*
36545927 TGGGTTGTTCGGAAAATTACTCGAAGGGAT
1 TGGGTTGTTCGGAAAATTACTCGAAGAGAT
*
36545957 TGGGTTGTTTGGAAAATTACTCGAAGAGAT
1 TGGGTTGTTCGGAAAATTACTCGAAGAGAT
36545987 TGG
1 TGG
36545990 ATCATCTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.08, G:0.33, T:0.32
Consensus pattern (30 bp):
TGGGTTGTTCGGAAAATTACTCGAAGAGAT
Found at i:36549789 original size:41 final size:41
Alignment explanation
Indices: 36549732--36549882 Score: 257
Period size: 41 Copynumber: 3.7 Consensus size: 41
36549722 TTAATTATTT
36549732 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
1 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
*
36549773 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCTGTACC
1 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * *
36549814 CCTAAATTGCACATACGTGCCCCTGTTTGCACTTTGATACC
1 CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
36549855 CCTGAATTGCACATACGTGCCCCTGTTT
1 CCTGAATTGCACATACGTGCCCCTGTTT
36549883 ACACTTTGGT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 103 1.00
ACGTcount: A:0.19, C:0.32, G:0.17, T:0.32
Consensus pattern (41 bp):
CCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
Found at i:36549797 original size:21 final size:21
Alignment explanation
Indices: 36549732--36549879 Score: 110
Period size: 21 Copynumber: 7.2 Consensus size: 21
36549722 TTAATTATTT
36549732 CCTGAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTGCC
* * * *
36549753 CCTG-TTTGTAC-TTCGGTACC
1 CCTGAATTGCACATAC-GTGCC
36549773 CCTGAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTGCC
* * * *
36549794 CCTG-TTTGTAC-TTCTGTACC
1 CCTGAATTGCACATAC-GTGCC
*
36549814 CCTAAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTGCC
* ** *
36549835 CCTG-TTTGCAC-TTTGATACC
1 CCTGAATTGCACATACG-TGCC
36549855 CCTGAATTGCACATACGTGCC
1 CCTGAATTGCACATACGTGCC
36549876 CCTG
1 CCTG
36549880 TTTACACTTT
Statistics
Matches: 92, Mismatches: 26, Indels: 18
0.68 0.19 0.13
Matches are distributed among these distances:
19 6 0.07
20 38 0.41
21 42 0.46
22 6 0.07
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (21 bp):
CCTGAATTGCACATACGTGCC
Found at i:36549845 original size:20 final size:20
Alignment explanation
Indices: 36549738--36549882 Score: 98
Period size: 20 Copynumber: 7.1 Consensus size: 20
36549728 ATTTCCTGAA
36549738 TTGCACATACGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
* * * *
36549758 TTGTAC-TTCGGTACCCCTGAA
1 TTGCACATAC-GTGCCCCTG-T
36549779 TTGCACATACGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
* * * **
36549799 TTGTAC-TTCTGTACCCCTAAA
1 TTGCACATAC-GTGCCCCT-GT
36549820 TTGCACATACGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
** * *
36549840 TTGCAC-TTTGATACCCCTGAA
1 TTGCACATACG-TGCCCCTG-T
36549861 TTGCACATACGTGCCCCTGT
1 TTGCACATACGTGCCCCTGT
36549881 TT
1 TT
36549883 ACACTTTGGT
Statistics
Matches: 90, Mismatches: 26, Indels: 18
0.67 0.19 0.13
Matches are distributed among these distances:
19 6 0.07
20 40 0.44
21 38 0.42
22 6 0.07
ACGTcount: A:0.18, C:0.32, G:0.17, T:0.33
Consensus pattern (20 bp):
TTGCACATACGTGCCCCTGT
Found at i:36553520 original size:35 final size:35
Alignment explanation
Indices: 36553476--36553543 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
36553466 AATTGTCATT
* *
36553476 ACAGTTCTATTCTATTACAACTTTATTCCATTACA
1 ACAGCTCTATTCCATTACAACTTTATTCCATTACA
* *
36553511 ACAGCTCTATTCCATTATAGCTTTATTCCATTA
1 ACAGCTCTATTCCATTACAACTTTATTCCATTA
36553544 TAGTGAACCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.04, T:0.43
Consensus pattern (35 bp):
ACAGCTCTATTCCATTACAACTTTATTCCATTACA
Found at i:36553537 original size:16 final size:16
Alignment explanation
Indices: 36553513--36553546 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
36553503 CCATTACAAC
36553513 AGCTCTATTCCATTAT
1 AGCTCTATTCCATTAT
*
36553529 AGCTTTATTCCATTAT
1 AGCTCTATTCCATTAT
36553545 AG
1 AG
36553547 TGAACCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (16 bp):
AGCTCTATTCCATTAT
Found at i:36561521 original size:19 final size:19
Alignment explanation
Indices: 36561497--36561535 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
36561487 AATAAATTAC
* *
36561497 TCATCTTAGTTAATTGAGT
1 TCATCTTAATTAATTAAGT
36561516 TCATCTTAATTAATTAAGT
1 TCATCTTAATTAATTAAGT
36561535 T
1 T
36561536 GTTGGAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (19 bp):
TCATCTTAATTAATTAAGT
Found at i:36561555 original size:35 final size:35
Alignment explanation
Indices: 36561516--36561605 Score: 162
Period size: 35 Copynumber: 2.6 Consensus size: 35
36561506 TTAATTGAGT
* *
36561516 TCATCTTAATTAATTAAGTTGTTGGAATAAATTAC
1 TCATCTTAGTTAATTAAGTTGCTGGAATAAATTAC
36561551 TCATCTTAGTTAATTAAGTTGCTGGAATAAATTAC
1 TCATCTTAGTTAATTAAGTTGCTGGAATAAATTAC
36561586 TCATCTTAGTTAATTAAGTT
1 TCATCTTAGTTAATTAAGTT
36561606 CAACTTAGTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TCATCTTAGTTAATTAAGTTGCTGGAATAAATTAC
Found at i:36567973 original size:19 final size:19
Alignment explanation
Indices: 36567949--36567987 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
36567939 AATAAATTAC
*
36567949 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
36567968 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
36567987 T
1 T
36567988 GCTAGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:36568042 original size:54 final size:53
Alignment explanation
Indices: 36567928--36568029 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 53
36567918 GAGTAAGTAT
* *
36567928 TTAGTTGCTGGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAA
1 TTAGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTAA
36567981 TTAAGTTGCTAGAATAAATTACTCATCTTAGTTAATT-ACGTTCAACTTA
1 TT-AGTTGCTAGAATAAATTACTCATCTTAGTTAATTGA-GTTCAACTTA
36568030 TTTCACTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
53 3 0.07
54 42 0.93
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (53 bp):
TTAGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCAACTTAGTTAA
Found at i:36571055 original size:28 final size:28
Alignment explanation
Indices: 36571005--36571058 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
36570995 ATCATTACAA
* *
36571005 TGTGGGCCTTAGCCCATTTCAGTAATAG
1 TGTGGGCCTTAGCCCAATACAGTAATAG
*
36571033 TGTGGGCCTTAGCTCAATACAGTAAT
1 TGTGGGCCTTAGCCCAATACAGTAAT
36571059 TAATACAATG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTAATAG
Found at i:36571554 original size:81 final size:80
Alignment explanation
Indices: 36571427--36571800 Score: 443
Period size: 81 Copynumber: 4.6 Consensus size: 80
36571417 GGTATAACAA
* * *
36571427 TCATTTTACCCT-TGGCGGTATTTCGCTCATTTTA-CCTCAT-AGGGGTATTTAAGTCATTTTAC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCT-ATGA-GGGTATTT-GGTCATTTTAC
* *
36571489 CATATAGGGGTATTTTC-G
63 CCTATGGGGGTA-TTTCAG
* * * *
36571507 TCATTCTATCCTATGGGGGTATTTTGGTCATTTTACCCTATGAGGGTATTTTGGTCATTTTATCC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTA-TTTGGTCATTTTACCC
* **
36571572 TATGGGTGTATTTTGG
65 TATGGGGGTATTTCAG
* ** * *
36571588 TCATTTTACCCTATAGGGGTATTTTAGTCATTTTACCTTATGAGGGTATTTTGATCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTA-TTTGGTCATTTTACCC
36571653 TATGGGGGTATTTCAG
65 TATGGGGGTATTTCAG
* *
36571669 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCC
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTT-GGTCATTTTACCC
36571734 TATGGGGGTATTTCAG
65 TATGGGGGTATTTCAG
* * *
36571750 TCATTTTACCCTATGAGGGTATTTCGGTCATTCTATCCTAT-AGTGGTATTT
1 TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAG-GGTATTT
36571801 CAGCCATAAC
Statistics
Matches: 256, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
80 17 0.07
81 232 0.91
82 7 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (80 bp):
TCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGAGGGTATTTGGTCATTTTACCCT
ATGGGGGTATTTCAG
Found at i:36571774 original size:27 final size:27
Alignment explanation
Indices: 36571427--36571803 Score: 380
Period size: 27 Copynumber: 14.0 Consensus size: 27
36571417 GGTATAACAA
36571427 TCATTTTACCCT-TG-GCGGTATTTC-G
1 TCATTTTACCCTATGAG-GGTATTTCAG
*
36571452 CTCATTTTA-CCTCAT-AGGGGTATTTAAG
1 -TCATTTTACCCT-ATGA-GGGTATTTCAG
*
36571480 TCATTTTACCATAT-AGGGGTATTTTC-G
1 TCATTTTACCCTATGA-GGGTA-TTTCAG
* * * **
36571507 TCATTCTATCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCAG
**
36571534 TCATTTTACCCTATGAGGGTATTTTGG
1 TCATTTTACCCTATGAGGGTATTTCAG
* **
36571561 TCATTTTATCCTATG-GGTGTATTTTGG
1 TCATTTTACCCTATGAGG-GTATTTCAG
*
36571588 TCATTTTACCCTAT-AGGGGTATTTTAG
1 TCATTTTACCCTATGA-GGGTATTTCAG
* *
36571615 TCATTTTACCTTATGAGGGTATTT-TG
1 TCATTTTACCCTATGAGGGTATTTCAG
*
36571641 ATCATTTTACCCTATGGGGGTATTTCAG
1 -TCATTTTACCCTATGAGGGTATTTCAG
*
36571669 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
* *
36571696 TCATTTTACCCTATGGGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCAG
*
36571723 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGAGGGTATTTCAG
*
36571750 TCATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCTATGAGGGTATTTCAG
* *
36571777 TCATTCTATCCTAT-AGTGGTATTTCAG
1 TCATTTTACCCTATGAG-GGTATTTCAG
36571804 CCATAACAGT
Statistics
Matches: 309, Mismatches: 26, Indels: 31
0.84 0.07 0.08
Matches are distributed among these distances:
25 3 0.01
26 16 0.05
27 279 0.90
28 11 0.04
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (27 bp):
TCATTTTACCCTATGAGGGTATTTCAG
Found at i:36572426 original size:24 final size:24
Alignment explanation
Indices: 36572371--36572431 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
36572361 AAATCCCAAT
* *
36572371 ATTCTCTCCTCAAATCTCTCCAAAT
1 ATTC-CTCCTCAAATCACTCCAAAG
* **
36572396 ATCCCTCCTCAAATCACTCCACCG
1 ATTCCTCCTCAAATCACTCCAAAG
36572420 ATTCCTCCTCAA
1 ATTCCTCCTCAA
36572432 CTCCCCCAAC
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 27 0.90
25 3 0.10
ACGTcount: A:0.26, C:0.43, G:0.02, T:0.30
Consensus pattern (24 bp):
ATTCCTCCTCAAATCACTCCAAAG
Found at i:36581603 original size:3 final size:3
Alignment explanation
Indices: 36581595--36581676 Score: 146
Period size: 3 Copynumber: 27.3 Consensus size: 3
36581585 AAAACTCGCT
* *
36581595 TTA TTA TTA TTA TAA TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36581643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
36581677 CAAATTTAGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:36585060 original size:51 final size:51
Alignment explanation
Indices: 36584944--36585186 Score: 223
Period size: 51 Copynumber: 4.8 Consensus size: 51
36584934 TATCATTCGA
* * * *
36584944 TACAGGTAGTAGCCTTCACATAGTACTACACACGTGATCA--AACT-TTTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCT-GG
* * *
36584994 TTCACGTAGTAGCCTG-AGCATAGTACTACACATGTGACCATTAATATCTGA
1 TACACGTAGTAGCCTGCA-CATAGTACTACACACGTGACCATTAATATCTGG
*
36585045 TACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AACTAT-TCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTAA-TATCT-GG
* * * * * * *
36585096 TACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTTTCATTTC-GG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTGG
* *
36585146 TACATGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
36585187 CACTTTCACT
Statistics
Matches: 156, Mismatches: 26, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
49 1 0.01
50 73 0.47
51 74 0.47
52 8 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCTGG
Found at i:36585155 original size:101 final size:100
Alignment explanation
Indices: 36584939--36585182 Score: 337
Period size: 101 Copynumber: 2.4 Consensus size: 100
36584929 ACTATTATCA
* * * * *
36584939 TTCGATACAGGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTTCGGTTCACGTAGT
1 TTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATTCGGTACACATAGT
*
36585004 AGCCTGAGCATAGTACTACACATGTGACCATTAAT
66 AGCCTGAGCATAGTACTACACATGCGACCATTAAT
* * *
36585039 ATCTGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATTCGGTACGCATA
1 TTC-GATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTATTCGGTACACATA
* *
36585104 GTAGCCTGCA-CATAGTACTACACATGCGACCTTTCAT
64 GTAGCCTG-AGCATAGTACTACACATGCGACCATTAAT
* *
36585141 TTCGGTACATGTAGTAGCCTACACATAGTACTACACACGTGA
1 TTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
36585183 CCATCACTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
100 2 0.02
101 75 0.59
102 49 0.39
103 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (100 bp):
TTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATTCGGTACACATAGT
AGCCTGAGCATAGTACTACACATGCGACCATTAAT
Found at i:36588430 original size:137 final size:138
Alignment explanation
Indices: 36588183--36588457 Score: 340
Period size: 137 Copynumber: 2.0 Consensus size: 138
36588173 AGCTGTAAAA
* * *
36588183 TGGGTCTGCTCACACAAGCTTACGGTCGAAATATAAGCTACTCGATGCTGCTCACACAAGCTATC
1 TGGGTATGCTCACACAAGCTTACGGTCGAAACATAAGCTACACGATGCTGCTCACACAAGCTATC
* * * * *
36588248 GAGTATTCGCAACTAATGCTGGACCTCAGCCATCAGTAGAACATTCA-AGACCAGCACCCAAATC
66 GAGTATTCACAACTAATGCTGGAACTCAACCACCAGTAGAACATTCAGA-ACCAGCACCCAAACC
36588312 ATGATAACC
130 ATGATAACC
* * * *
36588321 TGGGTATGCTCACAGAAGCTGT-CGGTCGGAACGT-AGCTACACGATGCTGCTCACACAAGCTGT
1 TGGGTATGCTCACACAAGCT-TACGGTCGAAACATAAGCTACACGATGCTGCTCACACAAGCTAT
* * * * * *
36588384 TGAGTATTCACTACTAATGTTGGAACTCAACCACCGGTAGGACATTCAGAACCAGCACTCAAACC
65 CGAGTATTCACAACTAATGCTGGAACTCAACCACCAGTAGAACATTCAGAACCAGCACCCAAACC
*
36588449 ATGGTAACC
130 ATGATAACC
36588458 CTAATGACAT
Statistics
Matches: 116, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
137 87 0.75
138 28 0.24
139 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (138 bp):
TGGGTATGCTCACACAAGCTTACGGTCGAAACATAAGCTACACGATGCTGCTCACACAAGCTATC
GAGTATTCACAACTAATGCTGGAACTCAACCACCAGTAGAACATTCAGAACCAGCACCCAAACCA
TGATAACC
Found at i:36593391 original size:41 final size:41
Alignment explanation
Indices: 36593332--36593411 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
36593322 CTTTTCAGGT
* * * *
36593332 AAACCTTAAAATTCGGACCGGACTCAACATTCGGAGAATCA
1 AAACCTCAAAATTAGGACCAGACTCAACATTCGAAGAATCA
* *
36593373 AAACCTCAAAATTAGGACCAGACTTAATATTCGAAGAAT
1 AAACCTCAAAATTAGGACCAGACTCAACATTCGAAGAAT
36593412 AACCCTGGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (41 bp):
AAACCTCAAAATTAGGACCAGACTCAACATTCGAAGAATCA
Found at i:36594522 original size:48 final size:48
Alignment explanation
Indices: 36594466--36594558 Score: 168
Period size: 48 Copynumber: 1.9 Consensus size: 48
36594456 CCTTCCTTGC
* *
36594466 GTCTGTGATTTTTGCTCTGTAAGTTGCTACCTTCTCCTCTCTTTTTGT
1 GTCTGTGATTTTTGCTCTGTAAGCTGCTACCTTCTCATCTCTTTTTGT
36594514 GTCTGTGATTTTTGCTCTGTAAGCTGCTACCTTCTCATCTCTTTT
1 GTCTGTGATTTTTGCTCTGTAAGCTGCTACCTTCTCATCTCTTTT
36594559 CTTTGAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.10, C:0.24, G:0.16, T:0.51
Consensus pattern (48 bp):
GTCTGTGATTTTTGCTCTGTAAGCTGCTACCTTCTCATCTCTTTTTGT
Found at i:36598935 original size:50 final size:50
Alignment explanation
Indices: 36598807--36598993 Score: 179
Period size: 50 Copynumber: 3.8 Consensus size: 50
36598797 GATAATAACA
* * * *
36598807 TGCCAAAGCCATGTCTC-GAACATGGTCTTACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* *
36598856 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * ** *
36598906 TGCCCATGCCATGTCCTAGACATGGTCTT--ATGGAGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT-G-GGAGTTCTCATATCGG
*
36598956 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAG
36598994 CACCGAATCA
Statistics
Matches: 113, Mismatches: 17, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
48 6 0.05
49 36 0.32
50 68 0.60
51 1 0.01
52 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:36599197 original size:28 final size:28
Alignment explanation
Indices: 36599137--36599190 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
36599127 CAGTAACAGT
*
36599137 ACAGTGTGGGCCTTAGCCCAATACAAAA
1 ACAGTGTGGGCCTAAGCCCAATACAAAA
*
36599165 ACAGTGTGGGCCTAAGCCCGATACAA
1 ACAGTGTGGGCCTAAGCCCAATACAA
36599191 TATCAGTATG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.26, G:0.24, T:0.17
Consensus pattern (28 bp):
ACAGTGTGGGCCTAAGCCCAATACAAAA
Found at i:36599476 original size:32 final size:32
Alignment explanation
Indices: 36599428--36599642 Score: 204
Period size: 32 Copynumber: 6.7 Consensus size: 32
36599418 TACAGTAATG
* *
36599428 TGATTGGCACAAAGCCATCAGTAGTAGTGATA
1 TGATCGGCACAAAGCCATCAGTAATAGTGATA
* * * *
36599460 TGATCGGCACACAGCCATCAGTAATGGTAACA
1 TGATCGGCACAAAGCCATCAGTAATAGTGATA
* *
36599492 TGATCGACACAAAGCCATCAGTAGTAGTGATA
1 TGATCGGCACAAAGCCATCAGTAATAGTGATA
* *
36599524 TGATCGGCACACAA-CCATCAGTAACAGTGAAA
1 TGATCGGCACA-AAGCCATCAGTAATAGTGATA
* * *
36599556 TGATCGGCATACAA-CCATCGGTAAT-GATAATA
1 TGATCGGCACA-AAGCCATCAGTAATAG-TGATA
* **
36599588 TGATCGGTACAAAGCCATCAGTAACGGT-ACTA
1 TGATCGGCACAAAGCCATCAGTAATAGTGA-TA
* *
36599620 TGATCGACACAAAGCCATTAGTA
1 TGATCGGCACAAAGCCATCAGTA
36599643 GCATCGTAGA
Statistics
Matches: 150, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
31 4 0.03
32 143 0.95
33 3 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
TGATCGGCACAAAGCCATCAGTAATAGTGATA
Found at i:36599513 original size:64 final size:64
Alignment explanation
Indices: 36599435--36599643 Score: 255
Period size: 64 Copynumber: 3.3 Consensus size: 64
36599425 ATGTGATTGG
*
36599435 CACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATCAGTAATGGTAACATGATCGA
1 CACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATGATCGA
* * *
36599499 CACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAACCATCAGTAACAGTGAA-ATGATCGG
1 CACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATCAGTAACGGT-AACATGATCGA
* * * * * *
36599563 CATACAA-CCATCGGTAAT-GATAATATGATCGGTACAAAGCCATCAGTAACGGT-ACTATGATC
1 CACA-AAGCCATCAGTAGTAG-TGATATGATCGGCACACAGCCATCAGTAACGGTAAC-ATGATC
36599625 GA
63 GA
*
36599627 CACAAAGCCATTAGTAG
1 CACAAAGCCATCAGTAG
36599644 CATCGTAGAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
62 1 0.01
63 3 0.02
64 114 0.93
65 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATCAGTAACGGTAACATGATCGA
Found at i:36599600 original size:96 final size:96
Alignment explanation
Indices: 36599428--36599642 Score: 254
Period size: 96 Copynumber: 2.2 Consensus size: 96
36599418 TACAGTAATG
* ** * * *
36599428 TGATTGGCACAAAGCCATCAGTAGTAGTGATATGATCGGCACACAGCCATCAGTAATGGTAACAT
1 TGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAATGATAACAT
36599493 GATCGACACAAAGCCATCAGTAGTAGTGATA
66 GATCGACACAAAGCCATCAGTAGTAGTGATA
* * *
36599524 TGATCGGCACACAA-CCATCAGTAACAGTGAAATGATCGGCATACAACCATCGGTAATGATAATA
1 TGATCGGCACA-AAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAATGATAACA
** ***
36599588 TGATCGGTACAAAGCCATCAGTAACGGT-ACTA
65 TGATCGACACAAAGCCATCAGTAGTAGTGA-TA
* *
36599620 TGATCGACACAAAGCCATTAGTA
1 TGATCGGCACAAAGCCATCAGTA
36599643 GCATCGTAGA
Statistics
Matches: 100, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
95 3 0.03
96 95 0.95
97 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (96 bp):
TGATCGGCACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAATGATAACAT
GATCGACACAAAGCCATCAGTAGTAGTGATA
Found at i:36599718 original size:27 final size:26
Alignment explanation
Indices: 36599686--36599750 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
36599676 AGCAAAGCTG
36599686 CCAGTAATAGTATATGTGGCCA-AGCCA
1 CCAGTAATAGTAT-TGTGG-CAGAGCCA
* *
36599713 CTAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAATAGT-ATTGTGGCAGAGCCA
36599740 CCAGT-ATAGTA
1 CCAGTAATAGTA
36599751 CTTCCTCCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 1 0.03
26 6 0.19
27 23 0.72
28 2 0.06
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (26 bp):
CCAGTAATAGTATTGTGGCAGAGCCA
Found at i:36599857 original size:24 final size:25
Alignment explanation
Indices: 36599825--36599871 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
36599815 ATCAGTCCTT
36599825 CAAATCACAGACAAATCAGTCATAC
1 CAAATCACAGACAAATCAGTCATAC
36599850 CAAA-CACAGACAAATCAGTCAT
1 CAAATCACAGACAAATCAGTCAT
36599872 TTAACCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.15
Consensus pattern (25 bp):
CAAATCACAGACAAATCAGTCATAC
Found at i:36599954 original size:26 final size:27
Alignment explanation
Indices: 36599918--36600007 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 27
36599908 GGCAAAAATA
36599918 GTCA-TTTACCC-ACCA-GGGAATTACG
1 GTCATTTTACCCTA-CAGGGGAATTACG
*
36599943 GTCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGAATTACG
* * ** *
36599970 GT-ATTCTACCCTATAGGGGTGTTTCG
1 GTCATTTTACCCTACAGGGGAATTACG
36599996 GTCATTTTACCC
1 GTCATTTTACCC
36600008 ATCGAGGGTA
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
25 4 0.07
26 30 0.56
27 20 0.37
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGAATTACG
Found at i:36606080 original size:18 final size:18
Alignment explanation
Indices: 36606057--36606093 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36606047 ACGGGATTGA
36606057 TTATTCGTCAATTATTCG
1 TTATTCGTCAATTATTCG
36606075 TTATTCGTCAATTATTCG
1 TTATTCGTCAATTATTCG
36606093 T
1 T
36606094 ACCCCGAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.11, T:0.51
Consensus pattern (18 bp):
TTATTCGTCAATTATTCG
Found at i:36618238 original size:15 final size:15
Alignment explanation
Indices: 36618218--36618246 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
36618208 ATGTCTAATC
36618218 TGGTGCTATGACTAT
1 TGGTGCTATGACTAT
36618233 TGGTGCTATGACTA
1 TGGTGCTATGACTA
36618247 GTCACTTTTT
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:0.21, C:0.14, G:0.28, T:0.38
Consensus pattern (15 bp):
TGGTGCTATGACTAT
Found at i:36627039 original size:21 final size:21
Alignment explanation
Indices: 36627008--36627053 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
36626998 GGAGAAAAAT
*
36627008 GAAAATGAAAAAGAAATTGAAA
1 GAAAATGAAAAAGAAAATG-AA
36627030 GAAAA-GAAAAAGAAAATGAA
1 GAAAATGAAAAAGAAAATGAA
36627050 GAAA
1 GAAA
36627054 GCGTGAGAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 12 0.52
22 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.20, T:0.09
Consensus pattern (21 bp):
GAAAATGAAAAAGAAAATGAA
Found at i:36627159 original size:33 final size:32
Alignment explanation
Indices: 36627082--36627170 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 32
36627072 AAATGTGAAT
* *
36627082 GAAACGAGTGTAAAAGAAAGAGAGCTTGAAAA
1 GAAACGAGTGAAAAAGAAAGAGAGCTTAAAAA
*
36627114 GAAAACAAGTGAAAAAGAGAA-AGAGCTTAAAAAA
1 G-AAACGAGTGAAAAAGA-AAGAGAGCTT-AAAAA
* *
36627148 GAAACGTGTGAAGAAG-AAGAGAG
1 GAAACGAGTGAAAAAGAAAGAGAG
36627171 TGCTCAAACA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
31 2 0.04
32 5 0.11
33 33 0.70
34 7 0.15
ACGTcount: A:0.56, C:0.06, G:0.28, T:0.10
Consensus pattern (32 bp):
GAAACGAGTGAAAAAGAAAGAGAGCTTAAAAA
Found at i:36636308 original size:52 final size:52
Alignment explanation
Indices: 36636230--36636330 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
36636220 CATGCACATA
* *
36636230 TTTGAGCTTCAACCGAGCTAGAAATGAGGTCTTAAGCTGCTGTCTATTATTG
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
36636282 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
1 TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTA
36636331 CGTTTCCTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (52 bp):
TTTGAGCTTCAACCGAGCTAGAAATGAGATCTTAAGCTGCTGTCCATTATTG
Found at i:36644221 original size:295 final size:295
Alignment explanation
Indices: 36643689--36644273 Score: 1062
Period size: 295 Copynumber: 2.0 Consensus size: 295
36643679 AGACTCATCG
*
36643689 ATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTGCACTGAGATTCATCATCGATTTTG
1 ATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTGCACCGAGATTCATCATCGATTTTG
36643754 TTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTTT
66 TTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTTT
**
36643819 CCCTCATAGTTGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGTT
131 CCCTCATAGCCGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGTT
* **
36643884 CTTTGAAGGACCAAACGACGCCAATCTAGAAAATTATTAGTGTGACAACGAGGGCATCAAAGCCA
196 CTTTGAAGGACCAAACGACACCAATCTAGAAAACCATTAGTGTGACAACGAGGGCATCAAAGCCA
36643949 AGTTTTGATCTAAGGGTAAGTAGTTGGTGATATCA
261 AGTTTTGATCTAAGGGTAAGTAGTTGGTGATATCA
* * *
36643984 ATCATATAATCCTTGTAGATCGTTAAACTTCTCTGCTCCTTCACCGAGATTCATCATCGGTTTTG
1 ATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTGCACCGAGATTCATCATCGATTTTG
36644049 TTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTTT
66 TTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTTT
36644114 CCCTCATAGCCGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGTT
131 CCCTCATAGCCGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGTT
* * *
36644179 CTTTGAAGGACCAAACGACACCAATCTAGAAAACCGTTAGTGTGACAATGAGGGCATCAAATCCA
196 CTTTGAAGGACCAAACGACACCAATCTAGAAAACCATTAGTGTGACAACGAGGGCATCAAAGCCA
36644244 AGTTTTGATCTAAGGGTAAGTAGTTGGTGA
261 AGTTTTGATCTAAGGGTAAGTAGTTGGTGA
36644274 GATTTATTTC
Statistics
Matches: 278, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
295 278 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (295 bp):
ATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTGCACCGAGATTCATCATCGATTTTG
TTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTTT
CCCTCATAGCCGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATCTTGTACCTATGTT
CTTTGAAGGACCAAACGACACCAATCTAGAAAACCATTAGTGTGACAACGAGGGCATCAAAGCCA
AGTTTTGATCTAAGGGTAAGTAGTTGGTGATATCA
Found at i:36654456 original size:47 final size:47
Alignment explanation
Indices: 36654387--36654478 Score: 148
Period size: 47 Copynumber: 2.0 Consensus size: 47
36654377 ACAATAATGC
** * *
36654387 AGATAAACTGTTACTTTATAATATTTTGGACAAGCCACCACTTTTAT
1 AGATAAACTGCCACTTTATAATATTGTGAACAAGCCACCACTTTTAT
36654434 AGATAAACTGCCACTTTATAATATTGTGAACAAGCCACCACTTTT
1 AGATAAACTGCCACTTTATAATATTGTGAACAAGCCACCACTTTT
36654479 GTAAAAAAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.35
Consensus pattern (47 bp):
AGATAAACTGCCACTTTATAATATTGTGAACAAGCCACCACTTTTAT
Found at i:36656862 original size:12 final size:12
Alignment explanation
Indices: 36656845--36656869 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36656835 TATTAATCAC
36656845 TATGAGTAATGT
1 TATGAGTAATGT
36656857 TATGAGTAATGT
1 TATGAGTAATGT
36656869 T
1 T
36656870 GTGACAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (12 bp):
TATGAGTAATGT
Found at i:36664399 original size:12 final size:12
Alignment explanation
Indices: 36664384--36664489 Score: 56
Period size: 12 Copynumber: 8.8 Consensus size: 12
36664374 TCAAACTCTC
*
36664384 TTTCTTTTTCTT
1 TTTCATTTTCTT
36664396 TTTCATTTTC-T
1 TTTCATTTTCTT
**
36664407 TTTC--TTTCAA
1 TTTCATTTTCTT
*
36664417 TTTCTTTTTCTT
1 TTTCATTTTCTT
*
36664429 TTTCATTTTCTC
1 TTTCATTTTCTT
* ****
36664441 GTTCGCACTCTT
1 TTTCATTTTCTT
*
36664453 TTTCTTTTTCCTTT
1 TTTCATTTT-C-TT
*
36664467 CTTTCAATTTCTT
1 -TTTCATTTTCTT
36664480 TTTCATTTTC
1 TTTCATTTTC
36664490 ACTTTCTCGC
Statistics
Matches: 68, Mismatches: 20, Indels: 12
0.68 0.20 0.12
Matches are distributed among these distances:
9 4 0.06
10 4 0.06
11 5 0.07
12 42 0.62
13 3 0.04
14 3 0.04
15 7 0.10
ACGTcount: A:0.08, C:0.22, G:0.02, T:0.69
Consensus pattern (12 bp):
TTTCATTTTCTT
Found at i:36664409 original size:5 final size:6
Alignment explanation
Indices: 36664384--36664439 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
36664374 TCAAACTCTC
* **
36664384 TTTCTT TTTCTT TTTCAT TTTC-T TTTC-- TTTCAA TTTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
*
36664429 TTTCAT TTTCT
1 TTTCTT TTTCT
36664440 CGTTCGCACT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
4 4 0.09
5 5 0.12
6 34 0.79
ACGTcount: A:0.07, C:0.18, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTCTT
Found at i:36664420 original size:15 final size:16
Alignment explanation
Indices: 36664384--36664429 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
36664374 TCAAACTCTC
*
36664384 TTTCTTTTTCTTTTTCAT
1 TTTCTTTTTC--TTTCAA
36664402 TTTC-TTTTCTTTCAA
1 TTTCTTTTTCTTTCAA
36664417 TTTCTTTTTCTTT
1 TTTCTTTTTCTTT
36664430 TTCATTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 9 0.35
16 8 0.31
17 5 0.19
18 4 0.15
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCTTTTTCTTTCAA
Found at i:36664496 original size:57 final size:57
Alignment explanation
Indices: 36664392--36664519 Score: 195
Period size: 57 Copynumber: 2.2 Consensus size: 57
36664382 TCTTTCTTTT
* * * *
36664392 TCTTTTTCATTTTCTTTTCTTTCAATTTCTTTTTCTTTTTCATTTTCTCG-TTCGCAC
1 TCTTTTTCTTTTTCCTTTCTTTCAATTTCTTTTTCATTTTCACTTTCTCGCTT-GCAC
36664449 TCTTTTTCTTTTTCCTTTCTTTCAATTTCTTTTTCATTTTCACTTTCTCGCTTGCAC
1 TCTTTTTCTTTTTCCTTTCTTTCAATTTCTTTTTCATTTTCACTTTCTCGCTTGCAC
*
36664506 TATTTTTCTTTTTC
1 TCTTTTTCTTTTTC
36664520 TTTTGCCTCA
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 63 0.97
58 2 0.03
ACGTcount: A:0.09, C:0.23, G:0.03, T:0.65
Consensus pattern (57 bp):
TCTTTTTCTTTTTCCTTTCTTTCAATTTCTTTTTCATTTTCACTTTCTCGCTTGCAC
Found at i:36665549 original size:46 final size:46
Alignment explanation
Indices: 36665497--36665586 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
36665487 CAAAGAAAAG
36665497 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATAA
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATAA
*
36665543 ACCTCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGAT
1 ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGAT
36665587 GAACGCCACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (46 bp):
ACCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATAA
Found at i:36668472 original size:21 final size:21
Alignment explanation
Indices: 36668414--36668478 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
36668404 TCTCACTCTC
*
36668414 TTTTTCTTTT-TCAATGTCTT
1 TTTTTCTTTTCTCAATTTCTT
36668434 TTTCTT-TTTCTCTC-ATTTCTT
1 TTT-TTCTTT-TCTCAATTTCTT
*
36668455 TTTTTCTTTTCTCAATTTCAT
1 TTTTTCTTTTCTCAATTTCTT
36668476 TTT
1 TTT
36668479 GGATTTGTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 12 0.32
21 24 0.63
22 2 0.05
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTCTTTTCTCAATTTCTT
Found at i:36669912 original size:46 final size:46
Alignment explanation
Indices: 36669860--36669952 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
36669850 AAAGAAAAGG
*
36669860 CCTCGACCCACTATCAAGAATGGTAGGAACCTTGGTATATGATGAA
1 CCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAA
*
36669906 CCTCGACCCACTATCAAGGATGATAGGAACCTTGGTATATGATGAA
1 CCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAA
36669952 C
1 C
36669953 GCCACACTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.24
Consensus pattern (46 bp):
CCTCGACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAA
Found at i:36673133 original size:20 final size:18
Alignment explanation
Indices: 36673098--36673144 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
36673088 TCTTCACTCG
*
36673098 TTTCTTTTTCAGTCTCTC
1 TTTCTTTTTCACTCTCTC
* *
36673116 TTTCTTTTTTACACTCTC
1 TTTCTTTTTCACTCTCTC
36673134 -TTCTATTTTCA
1 TTTCT-TTTTCA
36673145 GGAACTCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.11, C:0.26, G:0.02, T:0.62
Consensus pattern (18 bp):
TTTCTTTTTCACTCTCTC
Found at i:36673318 original size:18 final size:18
Alignment explanation
Indices: 36673297--36673340 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
36673287 AATCTTGAAC
* *
36673297 TCTTTTTCAAAGTTCTTT
1 TCTTTCTCAAACTTCTTT
* *
36673315 TCTTGCTCAAACTTTTTT
1 TCTTTCTCAAACTTCTTT
36673333 TCTTTCTC
1 TCTTTCTC
36673341 TTTTCTTTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.14, C:0.23, G:0.05, T:0.59
Consensus pattern (18 bp):
TCTTTCTCAAACTTCTTT
Found at i:36673433 original size:6 final size:6
Alignment explanation
Indices: 36673422--36673473 Score: 61
Period size: 6 Copynumber: 8.5 Consensus size: 6
36673412 TTTTTACTCC
* *
36673422 TTTTCT TTTTCT TTGTCAT TTTTC- TCTTCT TTTTCT TTTTCAT TTTTCT
1 TTTTCT TTTTCT TTTTC-T TTTTCT TTTTCT TTTTCT TTTTC-T TTTTCT
36673471 TTT
1 TTT
36673474 CTTGTTCATT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 4 0.10
6 24 0.62
7 11 0.28
ACGTcount: A:0.04, C:0.17, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTTCT
Found at i:36673443 original size:13 final size:12
Alignment explanation
Indices: 36673421--36673474 Score: 67
Period size: 13 Copynumber: 4.5 Consensus size: 12
36673411 TTTTTTACTC
36673421 CTTTTC-TTTTT
1 CTTTTCATTTTT
36673432 CTTTGTCATTTTT
1 CTTT-TCATTTTT
*
36673445 CTCTTC-TTTTT
1 CTTTTCATTTTT
36673456 CTTTTTCATTTTT
1 C-TTTTCATTTTT
36673469 CTTTTC
1 CTTTTC
36673475 TTGTTCATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
11 10 0.27
12 13 0.35
13 14 0.38
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (12 bp):
CTTTTCATTTTT
Found at i:36673452 original size:24 final size:24
Alignment explanation
Indices: 36673424--36673476 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
36673414 TTTACTCCTT
36673424 TTCTTTTTCTTTGTCATTTTTCTC
1 TTCTTTTTCTTTGTCATTTTTCTC
* *
36673448 TTCTTTTTCTTTTTCATTTTTCTT
1 TTCTTTTTCTTTGTCATTTTTCTC
36673472 TTCTT
1 TTCTT
36673477 GTTCATTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.75
Consensus pattern (24 bp):
TTCTTTTTCTTTGTCATTTTTCTC
Found at i:36674700 original size:27 final size:27
Alignment explanation
Indices: 36674670--36674759 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
36674660 TTACCCTATG
36674670 GGGGTATTTCGATAATTTTACCCATCA
1 GGGGTATTTCGATAATTTTACCCATCA
* * * *
36674697 GGGGTATTTCGGTATTTTTACCCTTCG
1 GGGGTATTTCGATAATTTTACCCATCA
36674724 GGGGTATTTCGATAATTTTACCCATCA
1 GGGGTATTTCGATAATTTTACCCATCA
*
36674751 AGGGTATTT
1 GGGGTATTT
36674760 TGGAAATTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 54 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (27 bp):
GGGGTATTTCGATAATTTTACCCATCA
Found at i:36674767 original size:27 final size:27
Alignment explanation
Indices: 36674683--36674799 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 27
36674673 GTATTTCGAT
* * *
36674683 AATTTTACCCATCAGGGGTATTTCGGT
1 AATTTTACCCATCAAGGGTATTTTGGA
* * ** *
36674710 ATTTTTACCCTTCGGGGGTA-TTTCGA
1 AATTTTACCCATCAAGGGTATTTTGGA
36674736 TAATTTTACCCATCAAGGGTATTTTGGA
1 -AATTTTACCCATCAAGGGTATTTTGGA
* * ** *
36674764 AA-TTTACACATCGAGGGTATTTAAGT
1 AATTTTACCCATCAAGGGTATTTTGGA
36674790 AATTTTACCC
1 AATTTTACCC
36674800 TTTGAGGTTA
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
26 24 0.34
27 41 0.59
28 5 0.07
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (27 bp):
AATTTTACCCATCAAGGGTATTTTGGA
Found at i:36674793 original size:26 final size:26
Alignment explanation
Indices: 36674740--36674794 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
36674730 TTTCGATAAT
* **
36674740 TTTACCCATCAAGGGTATTTTGGAAA
1 TTTACACATCAAGGGTATTTAAGAAA
* *
36674766 TTTACACATCGAGGGTATTTAAGTAA
1 TTTACACATCAAGGGTATTTAAGAAA
36674792 TTT
1 TTT
36674795 TACCCTTTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.38
Consensus pattern (26 bp):
TTTACACATCAAGGGTATTTAAGAAA
Found at i:36675960 original size:22 final size:23
Alignment explanation
Indices: 36675934--36675978 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
36675924 CTAAAATCAC
*
36675934 TCCTCCA-ATCCTCTCCTTAAAA
1 TCCTCCAGATCCACTCCTTAAAA
36675956 TCCTCCATGATCCACTCCTTAAA
1 TCCTCCA-GATCCACTCCTTAAA
36675979 TCACTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.27, C:0.40, G:0.02, T:0.31
Consensus pattern (23 bp):
TCCTCCAGATCCACTCCTTAAAA
Found at i:36682456 original size:10 final size:10
Alignment explanation
Indices: 36682443--36682499 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
36682433 TTTGAATCAA
36682443 CTCATTTGAG
1 CTCATTTGAG
*
36682453 CTCATTTAAG
1 CTCATTTGAG
*
36682463 CTCGTTTGAG
1 CTCATTTGAG
* *
36682473 CTCAATCGAG
1 CTCATTTGAG
* *
36682483 CTTAGTTTCAG
1 CTCA-TTTGAG
36682494 CTCATT
1 CTCATT
36682500 CCATTAACCT
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
10 29 0.83
11 6 0.17
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.39
Consensus pattern (10 bp):
CTCATTTGAG
Found at i:36682484 original size:20 final size:20
Alignment explanation
Indices: 36682437--36682484 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
36682427 ATTCAATTTG
*
36682437 AATCAA-CTCATTTGAGCTC
1 AATCAAGCTCGTTTGAGCTC
* *
36682456 ATTTAAGCTCGTTTGAGCTC
1 AATCAAGCTCGTTTGAGCTC
*
36682476 AATCGAGCT
1 AATCAAGCT
36682485 TAGTTTCAGC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (20 bp):
AATCAAGCTCGTTTGAGCTC
Found at i:36687710 original size:18 final size:16
Alignment explanation
Indices: 36687686--36687734 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
36687676 AAAATGAATA
36687686 ATAAAATAAAATAAAAG
1 ATAAAAT-AAATAAAAG
36687703 ATATAAATCCAAA-AAAAG
1 ATA-AAAT--AAATAAAAG
36687721 ATAAAATAAATAAA
1 ATAAAATAAATAAA
36687735 TAAAAATAGG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 3 0.11
16 3 0.11
17 7 0.25
18 12 0.43
19 3 0.11
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (16 bp):
ATAAAATAAATAAAAG
Found at i:36687724 original size:25 final size:25
Alignment explanation
Indices: 36687688--36687735 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
36687678 AATGAATAAT
*
36687688 AAAATAAAATAAAAGATATAAATCC
1 AAAATAAAATAAAAGAAATAAATCC
*
36687713 AAAA-AAAGATAAAATAAATAAAT
1 AAAATAAA-ATAAAAGAAATAAAT
36687736 AAAAATAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 17 0.85
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (25 bp):
AAAATAAAATAAAAGAAATAAATCC
Found at i:36688671 original size:31 final size:31
Alignment explanation
Indices: 36688636--36688696 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
36688626 CGCCATCTCT
36688636 GTTCACCTTCACTATTGTCCAACGTCGTTCC
1 GTTCACCTTCACTATTGTCCAACGTCGTTCC
36688667 GTTCACCTTCACTATTGTCCAACGTCGTTC
1 GTTCACCTTCACTATTGTCCAACGTCGTTC
36688697 AAGCCACCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.34, G:0.13, T:0.36
Consensus pattern (31 bp):
GTTCACCTTCACTATTGTCCAACGTCGTTCC
Found at i:36688705 original size:31 final size:31
Alignment explanation
Indices: 36688639--36688706 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
36688629 CATCTCTGTT
* *
36688639 CACCTTCACTATTGTCCAACGTCGTTCCGTT
1 CACCTTCACTATTGTCCAACGTCGTTCAGTC
36688670 CACCTTCACTATTGTCCAACGTCGTTCAAG-C
1 CACCTTCACTATTGTCCAACGTCGTTC-AGTC
36688701 CACCTT
1 CACCTT
36688707 GCTCAAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 33 0.97
32 1 0.03
ACGTcount: A:0.19, C:0.37, G:0.12, T:0.32
Consensus pattern (31 bp):
CACCTTCACTATTGTCCAACGTCGTTCAGTC
Found at i:36689409 original size:25 final size:26
Alignment explanation
Indices: 36689381--36689429 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
36689371 AAAATAGAAT
36689381 TTAATAATTTTTAT-ATTTAAAAAAA
1 TTAATAATTTTTATAATTTAAAAAAA
*
36689406 TTAATAATTTTTATAATTTTAAAA
1 TTAATAATTTTTATAATTTAAAAA
36689430 TCATTTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
TTAATAATTTTTATAATTTAAAAAAA
Found at i:36690846 original size:34 final size:34
Alignment explanation
Indices: 36690801--36690867 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
36690791 TCCTTTTATT
*
36690801 TGTTAACAGCTCCTTTAAAAAATTTGCATACTTC
1 TGTTAACAGCTCATTTAAAAAATTTGCATACTTC
* *
36690835 TGTTAATAGCTCATTTAAAAATTTTGCATACTT
1 TGTTAACAGCTCATTTAAAAAATTTGCATACTT
36690868 TGGTATCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (34 bp):
TGTTAACAGCTCATTTAAAAAATTTGCATACTTC
Found at i:36700370 original size:126 final size:126
Alignment explanation
Indices: 36700145--36700397 Score: 470
Period size: 126 Copynumber: 2.0 Consensus size: 126
36700135 GTATTGAAAT
36700145 TAATGATTGTTACTCGAATGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAAT
1 TAATGATTGTTACTCGAATGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAAT
*
36700210 GGCTATGTTATGACACAAAATTCCTATGATGGTTCTGTTTTCTTCTGTTAATGCTAATAAG
66 GGCTATGTAATGACACAAAATTCCTATGATGGTTCTGTTTTCTTCTGTTAATGCTAATAAG
* *
36700271 TAATGATTGTTACTCGAATGAATGATGACCTATGCTCATACACCGTTTGACATCGATTTGATAAT
1 TAATGATTGTTACTCGAATGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAAT
*
36700336 GGCTATGTAATGACATAAAATTCCTATGATGGTTCTGTTTTCTTCTGTTAATGCTAATAAG
66 GGCTATGTAATGACACAAAATTCCTATGATGGTTCTGTTTTCTTCTGTTAATGCTAATAAG
36700397 T
1 T
36700398 TTCACTATAT
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
126 123 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (126 bp):
TAATGATTGTTACTCGAATGAATGATGACCTATGCTCATACACCATTTGACATCAATTTGATAAT
GGCTATGTAATGACACAAAATTCCTATGATGGTTCTGTTTTCTTCTGTTAATGCTAATAAG
Found at i:36704426 original size:28 final size:28
Alignment explanation
Indices: 36704390--36704456 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
36704380 AGTACAGTGT
36704390 GGCCTTAGCCCAATA-AAGAATCAATGTG
1 GGCCTTAGCCCAATACAA-AATCAATGTG
*
36704418 GGCCTTAGCCCAATACAAAATCATTGTG
1 GGCCTTAGCCCAATACAAAATCAATGTG
*
36704446 GGTCTTAGCCC
1 GGCCTTAGCCC
36704457 CACACAGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAAAATCAATGTG
Found at i:36704981 original size:27 final size:27
Alignment explanation
Indices: 36704949--36705080 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
36704939 GGTAAAATAG
36704949 TCATTTTACCCTTTAGGGGTATTTCGA
1 TCATTTTACCCTTTAGGGGTATTTCGA
* * * * *
36704976 TAATTTTAACC-TTCGAGGGCATTT-TA
1 TCATTTTACCCTTTAG-GGGTATTTCGA
* *
36705002 GTCATTTTACCCTTTAGAGGTAATTCGA
1 -TCATTTTACCCTTTAGGGGTATTTCGA
** * *
36705030 TCATTTTACCCTTCGGGGGTAATTCGG
1 TCATTTTACCCTTTAGGGGTATTTCGA
*
36705057 TCATTTTACCCTGTAGGGGTATTT
1 TCATTTTACCCTTTAGGGGTATTT
36705081 TAGTTATTTT
Statistics
Matches: 81, Mismatches: 20, Indels: 8
0.74 0.18 0.07
Matches are distributed among these distances:
26 4 0.05
27 73 0.90
28 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTTTAGGGGTATTTCGA
Found at i:36705091 original size:54 final size:54
Alignment explanation
Indices: 36704947--36705080 Score: 178
Period size: 54 Copynumber: 2.5 Consensus size: 54
36704937 GGGGTAAAAT
* *
36704947 AGTCATTTTACCCTTTAGGGGTATTTCGATAATTTTAACCTTCGAGGGCATTTT
1 AGTCATTTTACCCTTTAGGGGTATTTCGATAATTTTAACCTTCGAGGGCAATTC
* * * * * *
36705001 AGTCATTTTACCCTTTAGAGGTAATTCGATCATTTTACCCTTCGGGGGTAATTC
1 AGTCATTTTACCCTTTAGGGGTATTTCGATAATTTTAACCTTCGAGGGCAATTC
* *
36705055 GGTCATTTTACCCTGTAGGGGTATTT
1 AGTCATTTTACCCTTTAGGGGTATTT
36705081 TAGTTATTTT
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (54 bp):
AGTCATTTTACCCTTTAGGGGTATTTCGATAATTTTAACCTTCGAGGGCAATTC
Found at i:36726880 original size:104 final size:103
Alignment explanation
Indices: 36726614--36726982 Score: 591
Period size: 103 Copynumber: 3.6 Consensus size: 103
36726604 TAGCCGTTAT
** *
36726614 TGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
36726679 AATCAGCACATAGCAACCCCCTTTTTATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
36726717 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
36726782 AATCAGCACATAGCAACCCCCCTTTTCATTTCAAAGATA
66 AATCAGCACATAGCAA-CCCCCTTTTCATTTCAAAGATA
36726821 TGGTGGATATCGCACTTAGCACCACCAATGAAATCGGGGAATCAGCACTTAGCAA-CCCTC-GGG
1 TGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
*
36726884 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTT-TCATTTCAAAGATA
* * * **
36726924 TGGTGGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
36726983 TTTATATACA
Statistics
Matches: 251, Mismatches: 10, Indels: 10
0.93 0.04 0.04
Matches are distributed among these distances:
102 30 0.12
103 140 0.56
104 57 0.23
105 24 0.10
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTCATTTCAAAGATA
Found at i:36726883 original size:25 final size:25
Alignment explanation
Indices: 36726854--36726903 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
36726844 ACCAATGAAA
*
36726854 TCGGGGAATCAGCACTTAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
36726879 TCGGGGAATCAGCACATAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
36726904 CCTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (25 bp):
TCGGGGAATCAGCACATAGCAACCC
Found at i:36727175 original size:26 final size:27
Alignment explanation
Indices: 36727145--36727202 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
36727135 ATAATCACCA
36727145 CCCAACTTTTG-AAAATTACAATTTGC
1 CCCAACTTTTGCAAAATTACAATTTGC
* * *
36727171 CCCAACTTTTGCATAATTACACTTTGT
1 CCCAACTTTTGCAAAATTACAATTTGC
36727198 CCCAA
1 CCCAA
36727203 GCTCGGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 11 0.39
27 17 0.61
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (27 bp):
CCCAACTTTTGCAAAATTACAATTTGC
Found at i:36735136 original size:102 final size:103
Alignment explanation
Indices: 36734960--36735223 Score: 433
Period size: 102 Copynumber: 2.6 Consensus size: 103
36734950 TAACCGTTAT
* * ** *
36734960 CGGTGGATTCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
* * *
36735025 GAATCAGCACTTAGCAACCCCCT-TCACATTTCAGATG
66 GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
36735062 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
36735127 GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
36735165 CGGTGGAATCAGCACTTAGCAACCACCAAT-AATTAGGGGAATCAGCACTTAGCAACCCC
1 CGGTGGAATCAGCACTTAGCAACCACCAATGAA-TAGGGGAATCAGCACTTAGCAACCCC
36735224 CTTTTACATT
Statistics
Matches: 152, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
102 85 0.56
103 67 0.44
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (103 bp):
CGGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
GAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATA
Found at i:36735187 original size:43 final size:43
Alignment explanation
Indices: 36735126--36735264 Score: 154
Period size: 43 Copynumber: 3.5 Consensus size: 43
36735116 ACCCCTCGGG
36735126 GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
1 GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
* *
36735169 GGAATCAGCACTTAGCAA---CCAC-CA-A--T-AATTA-GG-
1 GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
* * *
36735202 GGAATCAGCACTTAGCAACCCCCTTTTACATTTAAAATACAGT
1 GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
*
36735245 GGGATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
36735265 ACCAATGAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 20
0.74 0.08 0.19
Matches are distributed among these distances:
33 18 0.23
34 2 0.03
35 4 0.05
36 3 0.04
37 1 0.01
38 2 0.03
39 2 0.03
40 4 0.05
41 4 0.05
42 1 0.01
43 37 0.47
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (43 bp):
GGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGT
Found at i:36735219 original size:76 final size:76
Alignment explanation
Indices: 36735124--36735299 Score: 273
Period size: 76 Copynumber: 2.3 Consensus size: 76
36735114 CAACCCCTCG
*
36735124 GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACC
36735189 ACCAAT-AATTA
66 ACCAATGAA-TA
* * *
36735200 GGGGAATCAGCACTTAGCAACCCCCTTTTACATTTAAAATACAGTGGGATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACC
*
36735265 ACCAATGAATC
66 ACCAATGAATA
**
36735276 GGGGAATCAGCACACAGCAACCCC
1 GGGGAATCAGCACTTAGCAACCCC
36735300 TTTATATGCA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
76 90 0.98
77 2 0.02
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (76 bp):
GGGGAATCAGCACTTAGCAACCCCCTCTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACC
ACCAATGAATA
Found at i:36737863 original size:54 final size:52
Alignment explanation
Indices: 36737734--36737896 Score: 215
Period size: 51 Copynumber: 3.2 Consensus size: 52
36737724 CCGTCCTTTA
* * * *
36737734 TCTTCTT-TCCTCAAATGATGCCATAGTCCCATACTAGGTCTTACACTACAG
1 TCTTCTTATCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATAG
** *
36737785 TCTT-TTATCCCCATATGATGCCATAGTCTTAGAATAGGTCTTACACTATATGG
1 TCTTCTTATCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATA--G
*
36737838 TCTTCTTATCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACAATATAG
1 TCTTCTTATCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATAG
36737890 TC-TCTTA
1 TCTTCTTA
36737897 CCATGGCCAT
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
50 2 0.02
51 45 0.46
52 3 0.03
53 5 0.05
54 42 0.43
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.36
Consensus pattern (52 bp):
TCTTCTTATCCCCATATGATGCCATAGTCCCAGACTAGGTCTTACACTATAG
Found at i:36737907 original size:54 final size:51
Alignment explanation
Indices: 36737748--36737896 Score: 199
Period size: 54 Copynumber: 2.9 Consensus size: 51
36737738 CTTTCCTCAA
* * * *
36737748 ATGATGCCATAGTCCCATACTAGGTCTTACACTACAGTCTTTTATCCCCAT
1 ATGATGCCATAGTCCCAGACTAGGTCTTACAATATAGTCTCTTATCCCCAT
** * *
36737799 ATGATGCCATAGTCTTAGAATAGGTCTTACACTATATGGTCTTCTTATCCCCAT
1 ATGATGCCATAGTCCCAGACTAGGTCTTACA--ATATAGTC-TCTTATCCCCAT
36737853 ATGATGCCATAGTCCCAGACTAGGTCTTACAATATAGTCTCTTA
1 ATGATGCCATAGTCCCAGACTAGGTCTTACAATATAGTCTCTTA
36737897 CCATGGCCAT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 32 0.39
52 7 0.08
53 5 0.06
54 39 0.47
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (51 bp):
ATGATGCCATAGTCCCAGACTAGGTCTTACAATATAGTCTCTTATCCCCAT
Found at i:36740351 original size:64 final size:64
Alignment explanation
Indices: 36740242--36740361 Score: 150
Period size: 64 Copynumber: 1.9 Consensus size: 64
36740232 TTACTTTGCA
* * * * **
36740242 AAGGTTCGGTGGATGAGAATAGGGTTTTAGCATTGCATATCATTAAGAAAATTATGGTTTTACG
1 AAGGTTCAGTGGATGAAAATAGGGTTTCAACATTAAATATCATTAAGAAAATTATGGTTTTACG
* * * *
36740306 AAGGTTCAGTGGATGAAAATGGGGTTTCAATATTAAATATTATTAAGTAAATTATG
1 AAGGTTCAGTGGATGAAAATAGGGTTTCAACATTAAATATCATTAAGAAAATTATG
36740362 ACTTTGTAGA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
64 46 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (64 bp):
AAGGTTCAGTGGATGAAAATAGGGTTTCAACATTAAATATCATTAAGAAAATTATGGTTTTACG
Found at i:36742545 original size:71 final size:69
Alignment explanation
Indices: 36742379--36742549 Score: 177
Period size: 69 Copynumber: 2.4 Consensus size: 69
36742369 GTTGGAGAAT
* * * * *
36742379 CAAATTTGAATGTGAATCACTGTCCAAAATGGTATTAGATCTATCCATTGCATGCTTTGAAAACT
1 CAAATTTGAATGTGAATTACTGTCCAAAATGGTATTAGATATATCCATTACATGCTATCAAAACT
* *
36742444 TGTT
66 TATC
* *
36742448 CAAATTTGAATGTGAAATT-CTATCCAAAATGGTATTATATATATCTCTATTACATGC-ATCAAA
1 CAAATTTGAATGTG-AATTACTGTCCAAAATGGTATTAGATATATC-C-ATTACATGCTATCAAA
36742511 TTA-TTATC
63 --ACTTATC
* *
36742519 CAAATATGAATGTGAATTATTGTCCAAAATG
1 CAAATTTGAATGTGAATTACTGTCCAAAATG
36742550 ACATTAATTG
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
69 37 0.44
70 12 0.14
71 34 0.40
72 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (69 bp):
CAAATTTGAATGTGAATTACTGTCCAAAATGGTATTAGATATATCCATTACATGCTATCAAAACT
TATC
Found at i:36742647 original size:69 final size:69
Alignment explanation
Indices: 36742495--36742648 Score: 166
Period size: 69 Copynumber: 2.2 Consensus size: 69
36742485 TATATATCTC
* * * * *
36742495 TATTACATGCATCAAATTATTATCCAAATATGAATGTGAATTATTGTCCAAAATGACATTAATTG
1 TATTACATGCTTCAAATTACTATCCAAATATAAAGGTGAATTATTGTCCAAAATGACAATAATTG
*
36742560 TATC
66 TATA
* * * * * * **
36742564 CATTTCATGTTTCAAGA-TACTATCCGAATATAAAGGTGAATTTTTGTCCAAATTGGTAATAATT
1 TATTACATGCTTCAA-ATTACTATCCAAATATAAAGGTGAATTATTGTCCAAAATGACAATAATT
36742628 GTATA
65 GTATA
36742633 TATTACATGCTTCAAA
1 TATTACATGCTTCAAA
36742649 ATTTCTGTCT
Statistics
Matches: 67, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
68 1 0.01
69 65 0.97
70 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (69 bp):
TATTACATGCTTCAAATTACTATCCAAATATAAAGGTGAATTATTGTCCAAAATGACAATAATTG
TATA
Found at i:36743900 original size:62 final size:61
Alignment explanation
Indices: 36743827--36744167 Score: 360
Period size: 62 Copynumber: 5.5 Consensus size: 61
36743817 TCCGAAGCAT
* * * * * * * * *
36743827 AAACAATGAGTTACATGGCTTGGACACATGTCCATGTCCCTGCCCGTGTGATCTTGTACCAA
1 AAACAGTGAGTTACACGGCCTGGGCACACG-CCGTGTCCCTGGCCGTGTGGTCTTGTACCAC
* * * * * * *
36743889 AAAAAGTGAGTTACATGACCTGGGCACATGGTCGTGTCCCT-GCCTGTGTGATATTGTACCAC
1 AAACAGTGAGTTACACGGCCTGGGCACA-CGCCGTGTCCCTGGCC-GTGTGGTCTTGTACCAC
* * *
36743951 AAACAGTGAGTTACACGGCCTGGGCACACGCCCGTGTCCCTGGTCATGTGGTCTTGTATCAC
1 AAACAGTGAGTTACACGGCCTGGGCACACG-CCGTGTCCCTGGCCGTGTGGTCTTGTACCAC
* * *
36744013 AAATAGTGAGTTACACGACTTGGGCACACGCCTGTGTCCCTGGCCGTGTGGTCTTGTACCAC
1 AAACAGTGAGTTACACGGCCTGGGCACACGCC-GTGTCCCTGGCCGTGTGGTCTTGTACCAC
* * * *
36744075 AAACAGTGAGTTACACGGCCAGGGCACAAGCTCGTGTCCCTGGTCGTGTGGTATTGTACCAC
1 AAACAGTGAGTTACACGGCCTGGGCACACGC-CGTGTCCCTGGCCGTGTGGTCTTGTACCAC
* * *
36744137 AAACAGTGAGTTACATGGCCTAGCCACACGC
1 AAACAGTGAGTTACACGGCCTGGGCACACGC
36744168 ATATTTCCCT
Statistics
Matches: 234, Mismatches: 39, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
61 5 0.02
62 225 0.96
63 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (61 bp):
AAACAGTGAGTTACACGGCCTGGGCACACGCCGTGTCCCTGGCCGTGTGGTCTTGTACCAC
Found at i:36744884 original size:21 final size:21
Alignment explanation
Indices: 36744860--36744902 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36744850 AATAATGAAA
36744860 ATAGAAAAGAAGAAAAAGAAG
1 ATAGAAAAGAAGAAAAAGAAG
* * *
36744881 ATAGAAATGACGAAGAAGAAG
1 ATAGAAAAGAAGAAAAAGAAG
36744902 A
1 A
36744903 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.65, C:0.02, G:0.26, T:0.07
Consensus pattern (21 bp):
ATAGAAAAGAAGAAAAAGAAG
Found at i:36744915 original size:27 final size:30
Alignment explanation
Indices: 36744866--36744927 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 30
36744856 GAAAATAGAA
*
36744866 AAGAAGAAAAAGAAGATAGAAATGACGAAG
1 AAGAAGAAAAAGAAGATAGAAATAACGAAG
* *
36744896 AAGAAGAAAAATAA-A-A-AAATAAGGAAG
1 AAGAAGAAAAAGAAGATAGAAATAACGAAG
36744923 AAGAA
1 AAGAA
36744928 ACTATCGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 14 0.48
28 1 0.03
29 1 0.03
30 13 0.45
ACGTcount: A:0.69, C:0.02, G:0.23, T:0.06
Consensus pattern (30 bp):
AAGAAGAAAAAGAAGATAGAAATAACGAAG
Found at i:36746747 original size:22 final size:22
Alignment explanation
Indices: 36746719--36746871 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
36746709 TTTATTGTTC
*
36746719 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
36746741 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
36746763 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
36746785 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
36746807 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
36746829 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
36746851 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
36746872 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:36762042 original size:6 final size:6
Alignment explanation
Indices: 36762033--36762082 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 6
36762023 TTACTCGTAC
**
36762033 TCTTTT TCTTTT TC-TTT TC--TT TCAATT TCTTTT TCTTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
36762078 T-TTTT
1 TCTTTT
36762083 CTTACCTCAC
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
4 4 0.10
5 9 0.22
6 27 0.68
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:36768831 original size:22 final size:22
Alignment explanation
Indices: 36768806--36768876 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
36768796 TTCGGTTTAT
*
36768806 GTTTAGTTATGGAATGGTTTTG
1 GTTTAGGTATGGAATGGTTTTG
*
36768828 GTTTTGGTAT-GAATTGGTTTTTG
1 GTTTAGGTATGGAA-TGG-TTTTG
* * * *
36768851 GTGTAGGTACGAAATGGTATTG
1 GTTTAGGTATGGAATGGTTTTG
36768873 GTTT
1 GTTT
36768877 TTGGTACGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
21 3 0.08
22 18 0.47
23 15 0.39
24 2 0.05
ACGTcount: A:0.18, C:0.01, G:0.32, T:0.48
Consensus pattern (22 bp):
GTTTAGGTATGGAATGGTTTTG
Found at i:36768859 original size:23 final size:23
Alignment explanation
Indices: 36768818--36768893 Score: 66
Period size: 23 Copynumber: 3.3 Consensus size: 23
36768808 TTAGTTATGG
* * *
36768818 AATGG-TTTTGGTTTTGGTATGA
1 AATGGTTTTTGGTGTAGGTACGA
*
36768840 ATTGGTTTTTGGTGTAGGTACGA
1 AATGGTTTTTGGTGTAGGTACGA
* * *
36768863 AATGG-TATTGGTTTTTGGTACGA
1 AATGGTTTTTGG-TGTAGGTACGA
36768886 AATGGTTT
1 AATGGTTT
36768894 CTTTTGGTTT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
22 9 0.21
23 32 0.76
24 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.46
Consensus pattern (23 bp):
AATGGTTTTTGGTGTAGGTACGA
Found at i:36771288 original size:36 final size:36
Alignment explanation
Indices: 36771241--36771311 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
36771231 ACCAAGGCCA
36771241 AATGTAGACTAGTCCATAAAGCCCGAATGTAGACCG
1 AATGTAGACTAGTCCATAAAGCCCGAATGTAGACCG
*
36771277 AATGTATACTAGTCCATAAAGCCCGAATGTAGACC
1 AATGTAGACTAGTCCATAAAGCCCGAATGTAGACC
36771312 ACTCTCCAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.21
Consensus pattern (36 bp):
AATGTAGACTAGTCCATAAAGCCCGAATGTAGACCG
Found at i:36775637 original size:6 final size:6
Alignment explanation
Indices: 36775626--36775722 Score: 50
Period size: 6 Copynumber: 16.2 Consensus size: 6
36775616 ATTTTCTTCA
* ** * * * * * *
36775626 TTTTCT TTTTCT CTCACT TTTTCG ATTTCT TTTTAT TTTGCA ATTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* * * * ** *
36775674 TTTTCT TTTTCA TTTTCA TTTTCA TTTTCA CATTCT TTTTAT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
36775722 T
1 T
36775723 CTTTTTCGTT
Statistics
Matches: 65, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.11, C:0.18, G:0.02, T:0.69
Consensus pattern (6 bp):
TTTTCT
Found at i:36775664 original size:18 final size:18
Alignment explanation
Indices: 36775651--36775720 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
36775641 ACTTTTTCGA
* *
36775651 TTTCTTTTTATTTTGCAA
1 TTTCTTTTTATTTTTCAC
* *
36775669 TTTCTTTTTCTTTTTCAT
1 TTTCTTTTTATTTTTCAC
*
36775687 TTTCATTTTCA-TTTTCAC
1 TTTC-TTTTTATTTTTCAC
*
36775705 ATTCTTTTTATTTTTC
1 TTTCTTTTTATTTTTC
36775721 TTCTTTTTCG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
17 5 0.12
18 33 0.79
19 4 0.10
ACGTcount: A:0.13, C:0.16, G:0.01, T:0.70
Consensus pattern (18 bp):
TTTCTTTTTATTTTTCAC
Found at i:36781219 original size:20 final size:19
Alignment explanation
Indices: 36781162--36781220 Score: 55
Period size: 20 Copynumber: 3.0 Consensus size: 19
36781152 GTAGATTTAG
* *
36781162 TGAGCTAAAAGAGCTGATAA
1 TGAGCTCAATGAGCTGA-AA
* *
36781182 TGAGCTCAATGAGATGAAT
1 TGAGCTCAATGAGCTGAAA
*
36781201 TGAGCTCGAGTGAGCTGAAA
1 TGAGCTC-AATGAGCTGAAA
36781221 CAACTAATTA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.37, C:0.12, G:0.29, T:0.22
Consensus pattern (19 bp):
TGAGCTCAATGAGCTGAAA
Found at i:36781333 original size:20 final size:21
Alignment explanation
Indices: 36781308--36781362 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
36781298 CAAGCTTGCT
*
36781308 AGCTAGGAA-TGAGCT-TATTG
1 AGCTA-GAATTGAGCTAAATTG
36781328 AGCTAGAATTGAGCTAAATTG
1 AGCTAGAATTGAGCTAAATTG
*
36781349 AGCTCG-ATTGAGCT
1 AGCTAGAATTGAGCT
36781363 GGATCAAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.10
20 19 0.61
21 9 0.29
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (21 bp):
AGCTAGAATTGAGCTAAATTG
Found at i:36781338 original size:11 final size:11
Alignment explanation
Indices: 36781324--36781362 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
36781314 GAATGAGCTT
36781324 ATTGAGCTAGA
1 ATTGAGCTAGA
36781335 ATTGAGCTA-A
1 ATTGAGCTAGA
*
36781345 ATTGAGCTCG-
1 ATTGAGCTAGA
36781355 ATTGAGCT
1 ATTGAGCT
36781363 GGATCAAGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (11 bp):
ATTGAGCTAGA
Found at i:36782539 original size:24 final size:25
Alignment explanation
Indices: 36782493--36782539 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
36782483 AGGAATTTGG
*
36782493 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
36782518 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
36782540 TCAGCTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:36783729 original size:46 final size:45
Alignment explanation
Indices: 36783667--36783783 Score: 136
Period size: 40 Copynumber: 2.6 Consensus size: 45
36783657 GACAATTAAG
* *
36783667 TAACTAAAATTGAGTTTAATAAAAATAAAGTCCAATAACTCAATTAT
1 TAACTAAGA-TGAGTTT-ATAAAAATAAAGTCCAACAACTCAATTAT
*
36783714 TAACTAAGATGAG-TT-T---AATAAAGTCCAGCAACTCAATTAT
1 TAACTAAGATGAGTTTATAAAAATAAAGTCCAACAACTCAATTAT
*
36783754 TAACTAAGATGAGTTTATTAAAATTAAAGT
1 TAACTAAGATGAGTTTA-TAAAAATAAAGT
36783784 TCAGCTTGCA
Statistics
Matches: 60, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
40 35 0.58
41 2 0.03
43 2 0.03
45 2 0.03
46 11 0.18
47 8 0.13
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.32
Consensus pattern (45 bp):
TAACTAAGATGAGTTTATAAAAATAAAGTCCAACAACTCAATTAT
Found at i:36783747 original size:40 final size:40
Alignment explanation
Indices: 36783690--36783775 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
36783680 GTTTAATAAA
*
36783690 AATAAAGTCCAATAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
*
36783730 AATAAAGTCCAGCAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
*
36783770 ATTAAA
1 AATAAA
36783776 ATTAAAGTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:36785844 original size:16 final size:17
Alignment explanation
Indices: 36785807--36785848 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
36785797 TTCTTTCGTT
36785807 TCTTTTTTCTAACTTAC
1 TCTTTTTTCTAACTTAC
* *
36785824 T-TTTTTTC-AATTTTC
1 TCTTTTTTCTAACTTAC
36785839 TCTTTTTTCT
1 TCTTTTTTCT
36785849 CACATTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 6 0.29
16 14 0.67
17 1 0.05
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (17 bp):
TCTTTTTTCTAACTTAC
Found at i:36794350 original size:18 final size:19
Alignment explanation
Indices: 36794327--36794370 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
36794317 CTTTACTTAG
*
36794327 TTTTTTTATAC-TCGAACT
1 TTTTTTTATACTTCAAACT
*
36794345 TTTTTTT-TACTTCAAATT
1 TTTTTTTATACTTCAAACT
36794363 TTTTTTTA
1 TTTTTTTA
36794371 ATTACAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTTTTATACTTCAAACT
Found at i:36795857 original size:20 final size:20
Alignment explanation
Indices: 36795832--36795888 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
36795822 ATGCTTAATT
36795832 GAGCTCAAACGAGCTGAAAA
1 GAGCTCAAACGAGCTGAAAA
** ***
36795852 GAGCTCAAGTGAGCTGATTT
1 GAGCTCAAACGAGCTGAAAA
*
36795872 GAGCTGAAACGAGCTGA
1 GAGCTCAAACGAGCTGA
36795889 GGGAGCTGGA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (20 bp):
GAGCTCAAACGAGCTGAAAA
Found at i:36795904 original size:30 final size:30
Alignment explanation
Indices: 36795842--36795910 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
36795832 GAGCTCAAAC
* *
36795842 GAGCTGAAAAGAGCTCAAGTGAGCTGATTT
1 GAGCTGAAAAGAGCTCAAGGGAGCTGAATT
* *
36795872 GAGCTGAAACGAGCT-GAGGGAGCTGGAATT
1 GAGCTGAAAAGAGCTCAAGGGAGCT-GAATT
36795902 GAGCT-AAAA
1 GAGCTGAAAA
36795911 TCAGCTTGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (30 bp):
GAGCTGAAAAGAGCTCAAGGGAGCTGAATT
Found at i:36797720 original size:11 final size:10
Alignment explanation
Indices: 36797704--36797751 Score: 78
Period size: 10 Copynumber: 4.6 Consensus size: 10
36797694 TCAAATTTTA
36797704 TTTTTTGAATT
1 TTTTTTGAA-T
36797715 TTTTTTGAAT
1 TTTTTTGAAT
36797725 TTTTTTGAAT
1 TTTTTTGAAT
36797735 TTTTTTGAAT
1 TTTTTTGAAT
36797745 TTATTTT
1 TT-TTTT
36797752 CAAATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
10 23 0.64
11 13 0.36
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (10 bp):
TTTTTTGAAT
Found at i:36797759 original size:20 final size:20
Alignment explanation
Indices: 36797716--36797760 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
36797706 TTTTGAATTT
* *
36797716 TTTTTGAATTTTTTTGAATT
1 TTTTTGAATTTTTTTCAATA
36797736 TTTTTGAATTTATTTTCAA-A
1 TTTTTGAATTT-TTTTCAATA
36797756 TTTTT
1 TTTTT
36797761 ATACGAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.69
Consensus pattern (20 bp):
TTTTTGAATTTTTTTCAATA
Found at i:36800503 original size:40 final size:40
Alignment explanation
Indices: 36800448--36800573 Score: 207
Period size: 40 Copynumber: 3.1 Consensus size: 40
36800438 GTTTAATAAA
36800448 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
* * *
36800488 AATAAAGTCCAACAACTGAATTATTAACTAACATGTGTTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
* *
36800528 AATAAATTCCAACAACTCAATTATTAACTAAGATGAATTT
1 AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
36800568 AATAAA
1 AATAAA
36800574 ATTAAAGTTC
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.47, C:0.14, G:0.08, T:0.31
Consensus pattern (40 bp):
AATAAAGTCCAACAACTCAATTATTAACTAAGATGAGTTT
Found at i:36808058 original size:11 final size:11
Alignment explanation
Indices: 36808026--36808059 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
36808016 GTAGGATCGT
*
36808026 AAAAAAACTCA
1 AAAAAAATTCA
36808037 AAAAAAATTCA
1 AAAAAAATTCA
*
36808048 AAAAAATTTCA
1 AAAAAAATTCA
36808059 A
1 A
36808060 TATAAAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (11 bp):
AAAAAAATTCA
Found at i:36813270 original size:38 final size:38
Alignment explanation
Indices: 36813201--36813311 Score: 132
Period size: 39 Copynumber: 2.9 Consensus size: 38
36813191 TTAAAACATG
* * * *
36813201 TATTAAAGATGTCCTAAACTATGACATAATTAAAACCCT
1 TATTAATGATGTTC-AAATTATGACATAATTAAAACCCA
** * *
36813240 TATTAATTTTGTTCAGATTATGACATAATTAAAAACTCA
1 TATTAATGATGTTCAAATTATGACATAATT-AAAACCCA
36813279 TATTAATGATGTTCAAATTATGACATAATTAAA
1 TATTAATGATGTTCAAATTATGACATAATTAAA
36813312 GAATCAAACT
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
38 17 0.28
39 43 0.72
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (38 bp):
TATTAATGATGTTCAAATTATGACATAATTAAAACCCA
Done.