Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 206 of 362
Found at i:69567760 original size:56 final size:56
Alignment explanation
Indices: 69567613--69567792 Score: 231
Period size: 56 Copynumber: 3.2 Consensus size: 56
69567603 CCAAACGAAC
69567613 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGC-AAGACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAA-ACATCCGAAAT
* ** * *
69567669 GACAC--AGTGTATGAAGTATTGATGATGACACTTAGTGTGCGAAACATCCGAAAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* * **
69567723 GGCACTTAGTGTGCGAAGTATCGAGGATGGCACTTAGTGTGAGAAACATCCGGTAT
1 GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
* *
69567779 AGCACTTAGCGTGC
1 GGCACTTAGTGTGC
69567793 AAGACATCGA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
54 46 0.44
55 2 0.02
56 57 0.54
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (56 bp):
GGCACTTAGTGTGCGAAGTATTGAGGATGGCACTTAGTGTGCGAAACATCCGAAAT
Found at i:69567783 original size:28 final size:28
Alignment explanation
Indices: 69567697--69567800 Score: 104
Period size: 28 Copynumber: 3.7 Consensus size: 28
69567687 TTGATGATGA
*
69567697 CACTTAGTGTGCGAAACATCCGAAATGG
1 CACTTAGTGTGCGAAACATCCGGAATGG
** *
69567725 CACTTAGTGTGCGAAGTAT-CGAGGATGG
1 CACTTAGTGTGCGAAACATCCG-GAATGG
* * *
69567753 CACTTAGTGTGAGAAACATCCGGTATAG
1 CACTTAGTGTGCGAAACATCCGGAATGG
*
69567781 CACTTAGCGTGC-AAGACATC
1 CACTTAGTGTGCGAA-ACATC
69567801 GATTGTGCAG
Statistics
Matches: 62, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
27 4 0.06
28 56 0.90
29 2 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (28 bp):
CACTTAGTGTGCGAAACATCCGGAATGG
Found at i:69582383 original size:18 final size:18
Alignment explanation
Indices: 69582362--69582398 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
69582352 AAATAAAACA
69582362 GAAAATTTTGGAAAAATG
1 GAAAATTTTGGAAAAATG
*
69582380 GAAAATTTTGGAAATATG
1 GAAAATTTTGGAAAAATG
69582398 G
1 G
69582399 GTTACATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.30
Consensus pattern (18 bp):
GAAAATTTTGGAAAAATG
Found at i:69589087 original size:51 final size:50
Alignment explanation
Indices: 69589000--69589177 Score: 198
Period size: 52 Copynumber: 3.5 Consensus size: 50
69588990 CGGATACCTG
* * * * * *
69589000 GTGGCCTGCACATAGTACCACCCTTTTAGTCAAAGCTGCCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GGCCAAGCTACCTTCTTCACAAA
*
69589051 GTGGCCTTCACATAGTACCACACTTGTGGCCTAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGGCC-AAGCTA-CCTTCTTCACAAA
* * * * *
69589103 GTGGCCTTTC-CATAGTACCACACATGTGTCCAATCTATC-TCTTCTCAAA
1 GTGGCC-TTCACATAGTACCACACTTGTGGCCAAGCTACCTTCTTCACAAA
69589152 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
69589178 AGTCACTAGT
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
48 3 0.03
49 30 0.28
50 2 0.02
51 34 0.31
52 37 0.34
53 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGGCCAAGCTACCTTCTTCACAAA
Found at i:69589109 original size:52 final size:50
Alignment explanation
Indices: 69589000--69589177 Score: 207
Period size: 51 Copynumber: 3.5 Consensus size: 50
69588990 CGGATACCTG
* * * * * **
69589000 GTGGCCTGCACATAGTACCACCCTTTTAGTCAAAGCTGCCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GGCCAAGCTATCTTCTTCACAAA
69589051 GTGGCCTTCACATAGTACCACACTTGTGGCCTAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGGCC-AAGCTATC-TTCTTCACAAA
* * * *
69589103 GTGGCCTTTC-CATAGTACCACACATGTGTCCAATCTATC-TCTTCTCAAA
1 GTGGCC-TTCACATAGTACCACACTTGTGGCCAAGCTATCTTCTTCACAAA
69589152 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
69589178 AGTCACTAGT
Statistics
Matches: 111, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
48 3 0.03
49 30 0.27
50 2 0.02
51 37 0.33
52 36 0.32
53 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGGCCAAGCTATCTTCTTCACAAA
Found at i:69591117 original size:18 final size:18
Alignment explanation
Indices: 69591094--69591129 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69591084 AATAACATGA
69591094 ATTAGGTCCAACTTGAAG
1 ATTAGGTCCAACTTGAAG
69591112 ATTAGGTCCAACTTGAAG
1 ATTAGGTCCAACTTGAAG
69591130 TTCAGAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
ATTAGGTCCAACTTGAAG
Found at i:69591682 original size:36 final size:36
Alignment explanation
Indices: 69591635--69591704 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
69591625 CTAGTGCATC
69591635 ACTGAAAAATCATAAATTCATTACTCAATTCAAAGT
1 ACTGAAAAATCATAAATTCATTACTCAATTCAAAGT
69591671 ACTGAAAAATCATAAATTCATTACTCAATTCAAA
1 ACTGAAAAATCATAAATTCATTACTCAATTCAAA
69591705 CTAAACTCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.49, C:0.17, G:0.04, T:0.30
Consensus pattern (36 bp):
ACTGAAAAATCATAAATTCATTACTCAATTCAAAGT
Found at i:69595529 original size:49 final size:51
Alignment explanation
Indices: 69595397--69595544 Score: 210
Period size: 52 Copynumber: 2.9 Consensus size: 51
69595387 CCCTTATAGT
* * **
69595397 CAAAGCTACTTTCTTCACAAAGTGGCCTTCACATAGTACTACACTTTTGGC
1 CAAAGCTACTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTCAC
*
69595448 CAAAGCTATCTTTCTTCACAAAGTGGGCTTCACATAGTACCACACTTGTCAC
1 CAAAGCTA-CTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTCAC
* *
69595500 C-AAGCTA-TATCTTCTCAAAGTGGCCTTCACATAGTACCACACTTG
1 CAAAGCTACTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTG
69595545 AGTCACTAGT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
49 35 0.40
51 14 0.16
52 39 0.44
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (51 bp):
CAAAGCTACTTTCTTCACAAAGTGGCCTTCACATAGTACCACACTTGTCAC
Found at i:69600532 original size:27 final size:25
Alignment explanation
Indices: 69600498--69600548 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 25
69600488 CAACACCTAA
*
69600498 GGGCATTTTGGTCATTTTTTCCCTTAG
1 GGGCATTTTGGT-A-TTATTCCCTTAG
69600525 GGGCATTTTGGTATTATTCCCTTA
1 GGGCATTTTGGTATTATTCCCTTA
69600549 ATTACGGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.43
26 1 0.04
27 12 0.52
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.47
Consensus pattern (25 bp):
GGGCATTTTGGTATTATTCCCTTAG
Found at i:69600882 original size:29 final size:29
Alignment explanation
Indices: 69600819--69600925 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
69600809 TATGATCCAT
* * *
69600819 TAGGCCCAA-TCTTATTCAAATGGCCTATC
1 TAGGCCCAATTCATATTCATATGGCCCA-C
* * *
69600848 T-TGCCCAGTTCATATTCTTATGGCCCAC
1 TAGGCCCAATTCATATTCATATGGCCCAC
* * *
69600876 TAGGCCCAATTCACATTGATATGGCCCAT
1 TAGGCCCAATTCATATTCATATGGCCCAC
*
69600905 TAGGCCCAAATCATATT-ATAT
1 TAGGCCCAATTCATATTCATAT
69600926 TCATGCTCAC
Statistics
Matches: 62, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 11 0.18
29 51 0.82
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (29 bp):
TAGGCCCAATTCATATTCATATGGCCCAC
Found at i:69601162 original size:16 final size:16
Alignment explanation
Indices: 69601141--69601179 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
69601131 CCCAACTTTT
69601141 AGCTTTTCAGCATTTC
1 AGCTTTTCAGCATTTC
*
69601157 AGCTTTTTAGCATTTC
1 AGCTTTTCAGCATTTC
*
69601173 GGCTTTT
1 AGCTTTT
69601180 GAAGATTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.49
Consensus pattern (16 bp):
AGCTTTTCAGCATTTC
Found at i:69610614 original size:27 final size:27
Alignment explanation
Indices: 69610574--69610685 Score: 115
Period size: 27 Copynumber: 4.1 Consensus size: 27
69610564 AGGAAGCGTC
* *
69610574 CTGGTGGCTATGCCACA-ATTATTTGATT
1 CTGGTGGCTCTGCCACATA-TATCTG-TT
69610602 -TGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
69610628 CTGGTGGCTCTGCCATGAT-TATCTGTAT
1 CTGGTGGCTCTGCCA-CATATATCTGT-T
* *
69610656 CTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
69610682 CTGG
1 CTGG
69610686 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
26 7 0.09
27 50 0.68
28 17 0.23
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:69610678 original size:54 final size:54
Alignment explanation
Indices: 69610574--69610685 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
69610564 AGGAAGCGTC
* * *
69610574 CTGGTGGCTATGCCACAATTATTTGATTTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* ** *
69610628 CTGGTGGCTCTGCCATGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
69610682 CTGG
1 CTGG
69610686 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.39
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:69612100 original size:67 final size:65
Alignment explanation
Indices: 69611997--69612121 Score: 144
Period size: 67 Copynumber: 1.9 Consensus size: 65
69611987 ACACGGCTTT
* * * *
69611997 AGACACGCTCGTGTGTCTAGGACATGCCAAAATAGGGCATACATACTGACTTGTCCACACAGCCA
1 AGACACGCCCGTGTGTCCAGGACATGCCAAAATAGGG-AGAC-TACTGACTTGGCCACACAGCCA
69612062 CA
64 CA
* ** *
69612064 AGACACGCCCGTGTG-CCAGGCCATGTGAAAATTAGGGAGGCTACTGACTTGGCCACAC
1 AGACACGCCCGTGTGTCCAGGACATGCCAAAA-TAGGGAGACTACTGACTTGGCCACAC
69612122 GACTGACCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
65 16 0.33
66 14 0.29
67 19 0.39
ACGTcount: A:0.29, C:0.28, G:0.25, T:0.18
Consensus pattern (65 bp):
AGACACGCCCGTGTGTCCAGGACATGCCAAAATAGGGAGACTACTGACTTGGCCACACAGCCACA
Found at i:69613352 original size:44 final size:42
Alignment explanation
Indices: 69613215--69613367 Score: 168
Period size: 43 Copynumber: 3.6 Consensus size: 42
69613205 CATACAATGG
*
69613215 CAACGTCCCAGACGTGGTCTTACATGT-AATCAAATATCGATGC
1 CAACGTCCCAGACATGGTCTTACATGTAAATC-AA-ATCGATGC
* * * *
69613258 C-TCTGTCCCAGACAGGGTCATACATG-AAATCAGATACGATGC
1 CAAC-GTCCCAGACATGGTCTTACATGTAAATCAAAT-CGATGC
* *
69613300 CAATGTCCCAGACATGGTCTTACAGGTAAATCATAAGTCGATGC
1 CAACGTCCCAGACATGGTCTTACATGTAAATCA-AA-TCGATGC
69613344 CAACGTCCCAGACATGGTCTTACA
1 CAACGTCCCAGACATGGTCTTACA
69613368 CGAGAACACA
Statistics
Matches: 91, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
41 2 0.02
42 28 0.31
43 30 0.33
44 30 0.33
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.24
Consensus pattern (42 bp):
CAACGTCCCAGACATGGTCTTACATGTAAATCAAATCGATGC
Found at i:69619057 original size:18 final size:18
Alignment explanation
Indices: 69619031--69619073 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
69619021 CTTGGCCCAT
* *
69619031 TGCAATAACAGTAAACAA
1 TGCAGTAACAGCAAACAA
*
69619049 TGCAGTAACAGCAAACAT
1 TGCAGTAACAGCAAACAA
69619067 TGCAGTA
1 TGCAGTA
69619074 CCGGTAAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.47, C:0.19, G:0.16, T:0.19
Consensus pattern (18 bp):
TGCAGTAACAGCAAACAA
Found at i:69619394 original size:27 final size:27
Alignment explanation
Indices: 69619364--69619432 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
69619354 AAACATACAT
* *
69619364 CACATAGGGGAAAAATAGTCATCCTAC
1 CACATAAGGGAAAAATAATCATCCTAC
* **
69619391 CACATAAGGGCAAAATAATCATTTTAC
1 CACATAAGGGAAAAATAATCATCCTAC
*
69619418 CTCATAAGGGAAAAA
1 CACATAAGGGAAAAA
69619433 ATGCCTTTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (27 bp):
CACATAAGGGAAAAATAATCATCCTAC
Found at i:69619469 original size:27 final size:27
Alignment explanation
Indices: 69619388--69619486 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
69619378 ATAGTCATCC
* *
69619388 TACCACATAAGGGCAAAATAATCATTT
1 TACCACATAAGGGCAAAATCATTATTT
* * *
69619415 TACCTCATAAGGGAAAAAATGC-CT-TTT
1 TACCACATAAGGG-CAAAAT-CATTATTT
*
69619442 TACCATATAAGGGCAAAATCATTATTT
1 TACCACATAAGGGCAAAATCATTATTT
* *
69619469 TAACACATAATGGCAAAA
1 TACCACATAAGGGCAAAA
69619487 CAGTCTTTTA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
25 1 0.02
26 6 0.11
27 44 0.79
28 5 0.09
ACGTcount: A:0.43, C:0.17, G:0.12, T:0.27
Consensus pattern (27 bp):
TACCACATAAGGGCAAAATCATTATTT
Found at i:69619545 original size:27 final size:27
Alignment explanation
Indices: 69619504--69619682 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
69619494 TTACCTTACA
* *
69619504 GGGGTATTACAGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
** *
69619531 GGGCAATTTTGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
69619558 GAGATATATCGGTCATTTTACCTTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
* * * *
69619585 GGGGTGTTTTGGTCATTTTGCCCTATA
1 GGGGTATTTCGGTCATTTTACCCTATG
*
69619612 AGGGTATTTCGGTCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
*
69619639 GGGGTATTTCGATCATTTTACCCTATG
1 GGGGTATTTCGGTCATTTTACCCTATG
69619666 GGGGTATTTCGGTCATT
1 GGGGTATTTCGGTCATT
69619683 ATTTCACCCC
Statistics
Matches: 125, Mismatches: 27, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.18, C:0.17, G:0.24, T:0.41
Consensus pattern (27 bp):
GGGGTATTTCGGTCATTTTACCCTATG
Found at i:69622316 original size:43 final size:43
Alignment explanation
Indices: 69622263--69622434 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
69622253 CATAAGATTC
* **
69622263 CGATATGTGATTTCGTGTAACTCCACGTCTAGGACATTGGCAT
1 CGATATGTGATTTCATGTAAGACCACGTCTAGGACATTGGCAT
* * * * *
69622306 CGATTTGTGATTTGCGTGTAAGACCATGTCTGGGACATTAGCAT
1 CGATATGTGATTT-CATGTAAGACCACGTCTAGGACATTGGCAT
* * * ** * * *
69622350 CG-TTTATGAGTTCATGTAAGACCTTGTTTCGGACAGTGGCAT
1 CGATATGTGATTTCATGTAAGACCACGTCTAGGACATTGGCAT
* *
69622392 CGATATGTGATTTCATTTAAGACCACGTCTAGGACGTTGGCAT
1 CGATATGTGATTTCATGTAAGACCACGTCTAGGACATTGGCAT
69622435 TGTACGATCT
Statistics
Matches: 103, Mismatches: 24, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
42 26 0.25
43 50 0.49
44 27 0.26
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
CGATATGTGATTTCATGTAAGACCACGTCTAGGACATTGGCAT
Found at i:69624438 original size:40 final size:41
Alignment explanation
Indices: 69624394--69624474 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
69624384 GCTATAAATA
69624394 GCACTAAGTGTGCGA-AATG-GAATAGCTTTGGCTATATGAG
1 GCACTAAGTGTGCGATAATGAG-ATAGCTTTGGCTATATGAG
* * *
69624434 GCACTAAGTGTGCGATACTGAGGTAGCTTTGGCTATTTGAG
1 GCACTAAGTGTGCGATAATGAGATAGCTTTGGCTATATGAG
69624475 ATGGTACTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 15 0.42
41 20 0.56
42 1 0.03
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.30
Consensus pattern (41 bp):
GCACTAAGTGTGCGATAATGAGATAGCTTTGGCTATATGAG
Found at i:69642231 original size:34 final size:33
Alignment explanation
Indices: 69642193--69642258 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
69642183 ATAGAAATAT
*
69642193 CAGTGTGGGCCTTAGC-CTATTACAGTAGCAGTAA
1 CAGTGTGGGCCTTAGCACAATT-CAGTA-CAGTAA
*
69642227 CAGTGTGGGTCTTAGCACAATTCAGTACAGTA
1 CAGTGTGGGCCTTAGCACAATTCAGTACAGTA
69642259 TCAGAAATGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 5 0.17
34 20 0.69
35 4 0.14
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (33 bp):
CAGTGTGGGCCTTAGCACAATTCAGTACAGTAA
Found at i:69642504 original size:52 final size:51
Alignment explanation
Indices: 69642415--69642518 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 51
69642405 GAGCTGCCAG
* * *
69642415 TAATAGGCTTTAGCCTTTTAGTACACTTCCTCCAATAATATATATATCCCA
1 TAATAGACTTTAGCCTTTCAGTACACCTCCTCCAATAATATATATATCCCA
* * *
69642466 TAATAGACTTATAGTCTTTCAGTACACCTCTTCTAATAATATATATATCCCA
1 TAATAGACTT-TAGCCTTTCAGTACACCTCCTCCAATAATATATATATCCCA
69642518 T
1 T
69642519 CCCATGCAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
51 9 0.20
52 37 0.80
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (51 bp):
TAATAGACTTTAGCCTTTCAGTACACCTCCTCCAATAATATATATATCCCA
Found at i:69645570 original size:40 final size:40
Alignment explanation
Indices: 69645515--69645656 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
69645505 TATTCGAATG
69645515 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
69645555 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
69645595 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
69645635 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
69645657 TAGTTGGGTT
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.14
40 77 0.84
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:69648975 original size:34 final size:33
Alignment explanation
Indices: 69648931--69649009 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 33
69648921 CTGATTCCAT
* * *
69648931 TACTGTTACTGTTACTGTATTGGGCTAAGGCCC
1 TACTGATACTGATACTGTAATGGGCTAAGGCCC
*
69648964 ATACTGATACTGATACTGTAATGGGCTATGGCCC
1 -TACTGATACTGATACTGTAATGGGCTAAGGCCC
69648998 TAACTGATACTG
1 T-ACTGATACTG
69649010 GACTGTCACT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 1 0.03
34 39 0.98
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (33 bp):
TACTGATACTGATACTGTAATGGGCTAAGGCCC
Found at i:69649934 original size:37 final size:37
Alignment explanation
Indices: 69649875--69649983 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
69649865 AGCTCAGACG
* *
69649875 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
69649912 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
69649949 TAATCTCCACACATAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
69649984 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:69650253 original size:48 final size:48
Alignment explanation
Indices: 69650129--69650313 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
69650119 GCACATCGCC
*
69650129 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
69650179 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
69650227 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
69650275 TACACATTTCACATTAGCCATTTGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
69650314 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 82 0.65
49 2 0.02
50 42 0.33
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:69650318 original size:98 final size:97
Alignment explanation
Indices: 69650129--69650312 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
69650119 GCACATCGCC
* *
69650129 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACACATTTCACATT
69650194 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
*
69650227 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACACATTTCACATT-
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
*
69650290 AGCCATTTGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
69650313 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 34 0.42
98 46 0.57
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACACATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:69650403 original size:22 final size:22
Alignment explanation
Indices: 69650376--69650447 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
69650366 GCTCACATTC
69650376 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
69650398 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
69650422 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
69650445 ATC
1 ATC
69650448 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:69650466 original size:47 final size:47
Alignment explanation
Indices: 69650283--69650455 Score: 256
Period size: 47 Copynumber: 3.7 Consensus size: 47
69650273 CATACACATT
* * * * *
69650283 TCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
69650330 CCACATTGGCCATTTGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
69650377 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
69650424 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
69650456 ACACATTCAC
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 114 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:69650466 original size:94 final size:92
Alignment explanation
Indices: 69650184--69650466 Score: 259
Period size: 94 Copynumber: 3.0 Consensus size: 92
69650174 TCATATATAT
* * * *
69650184 ATTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCTCATACATAT-TTCACATTAGC
1 ATTTCACATTAG-CCATTCGGCCTTACCACATATATGCATGT-TC--ACAT-TCATCACATTGGC
* * * *
69650245 CATTCGGCTTTACCACATATACATATCTCATACAC
61 CATTCGGCCTTATCACATAT--ATA-CACATTCAC
* * * * *
69650280 ATTTCACATTAGCCATTTGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTT
1 ATTTCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTC
* * ***
69650345 GGCCTTATCACACATATGCATGCTCAC
66 GGCCTTATCACATATATACACATTCAC
* *
69650372 ATTCATCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCAT
1 ATT--TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCAT
*
69650437 TCGGCCTTATCTCATATATACACATTCAC
64 TCGGCCTTATCACATATATACACATTCAC
69650466 A
1 A
69650467 ATTATCCAAA
Statistics
Matches: 152, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
92 7 0.05
93 2 0.01
94 78 0.51
95 27 0.18
96 26 0.17
97 3 0.02
98 9 0.06
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.34
Consensus pattern (92 bp):
ATTTCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTC
GGCCTTATCACATATATACACATTCAC
Found at i:69654323 original size:43 final size:42
Alignment explanation
Indices: 69654275--69654436 Score: 168
Period size: 43 Copynumber: 3.8 Consensus size: 42
69654265 CAATGGCAAC
* *
69654275 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACATGAAATCAAATAT-GATGCCACT
* *
69654318 GTCCCAGACAGGGTCTTACATGAAATCAAATATGATGTCGA-T
1 GTCCCAGACATGGTCTTACATGAAATCAAATATGATG-CCACT
* *
69654360 GTCCCAAACATGGTCTTACATGTAGATCTCAAAT-TGATGCCAAC-
1 GTCCCAGACATGGTCTTACATG-A-A-ATCAAATATGATGCC-ACT
* * *
69654404 GTCCCAGACATGGTCATACACGAAATCACATAT
1 GTCCCAGACATGGTCTTACATGAAATCAAATAT
69654437 CGGAATCCTA
Statistics
Matches: 99, Mismatches: 13, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 5 0.05
42 27 0.27
43 35 0.35
44 26 0.26
45 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACATGAAATCAAATATGATGCCACT
Found at i:69654429 original size:86 final size:85
Alignment explanation
Indices: 69654275--69654436 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
69654265 CAATGGCAAC
* * * *
69654275 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACATG
1 GTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCATACACG
69654340 AAATCAAATATGATGTCGAT
66 AAATCAAATATGATGTCGAT
*
69654360 GTCCCAAACATGGTCTTACATGTAGATCTCAAAT-T-GATGCCAAC-GTCCCAGACATGGTCATA
1 GTCCCAAACATGGTCTTACATGTA-A--TCAAATATCGATGCC-ACTGTCCCAGACAGGGTCATA
*
69654422 CACGAAATCACATAT
62 CACGAAATCAAATAT
69654437 CGGAATCCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 22 0.33
86 36 0.54
87 3 0.04
88 6 0.09
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (85 bp):
GTCCCAAACATGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAGGGTCATACACG
AAATCAAATATGATGTCGAT
Found at i:69665099 original size:55 final size:55
Alignment explanation
Indices: 69664966--69665100 Score: 146
Period size: 55 Copynumber: 2.5 Consensus size: 55
69664956 CGACATGGCT
* * * * * **
69664966 GTGGGCGAACCTGCCAAAACAAAACGGGCGTGCGACACGCCTGTGCCTTGAAACC
1 GTGGGCGAACCTGCTAAAATAACACGAGCGTGCGACACGCCCGTGCCAAGAAACC
* * * * *
69665021 GTGGCCGAACCTG-TCAAATTAACACGAGCGTGTGACACGCCCGTGGCAAGCAACC
1 GTGGGCGAACCTGCT-AAAATAACACGAGCGTGCGACACGCCCGTGCCAAGAAACC
69665076 GTGGGCGAACCTGCTAAAATAACAC
1 GTGGGCGAACCTGCTAAAATAACAC
69665101 AGGCATGGTC
Statistics
Matches: 64, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
55 63 0.98
56 1 0.02
ACGTcount: A:0.29, C:0.30, G:0.27, T:0.14
Consensus pattern (55 bp):
GTGGGCGAACCTGCTAAAATAACACGAGCGTGCGACACGCCCGTGCCAAGAAACC
Found at i:69669615 original size:47 final size:47
Alignment explanation
Indices: 69669563--69669729 Score: 244
Period size: 47 Copynumber: 3.6 Consensus size: 47
69669553 GATAATTGTG
* *
69669563 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
69669610 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
69669657 ATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
69669704 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
69669730 TCCCGAAGGG
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:69672016 original size:40 final size:40
Alignment explanation
Indices: 69671955--69672235 Score: 386
Period size: 40 Copynumber: 7.0 Consensus size: 40
69671945 AGGTCTCGAC
69671955 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
69671994 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
69672034 GATGTACCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
69672074 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
69672114 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
69672154 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
69672194 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
69672234 GA
1 GA
69672236 CGTGTATTCG
Statistics
Matches: 219, Mismatches: 20, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
39 5 0.02
40 212 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:69672501 original size:56 final size:56
Alignment explanation
Indices: 69672434--69672540 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
69672424 CGAATGATTA
* *
69672434 GAGGCACTGTGTGTGCAAATTCTTTTAA-CGAGCACTATGTGTGCGAAATCGTAATT
1 GAGGCACTGTGTGTGCAAATTC-TTCAACCAAGCACTATGTGTGCGAAATCGTAATT
* * *
69672490 GAGGCACTGTGTGTGCGAGTTCTTCAACCAAGCACTATGTGTGCGAGATCG
1 GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCG
69672541 ATCAGTGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
55 4 0.09
56 41 0.91
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (56 bp):
GAGGCACTGTGTGTGCAAATTCTTCAACCAAGCACTATGTGTGCGAAATCGTAATT
Found at i:69672552 original size:56 final size:55
Alignment explanation
Indices: 69672416--69672566 Score: 141
Period size: 56 Copynumber: 2.7 Consensus size: 55
69672406 ATATGGGCAT
* * * *
69672416 TATGTGTGCGAAT-GATTAG-AGGCACTGTGTGTGCAAATTCTTTTAACGAGCAC
1 TATGTGTGCGAATCGATAAGTGGGCACTGTGTGTGCAAATTCTTTCAACAAGCAC
* * *
69672469 TATGTGTGCGAAATCG-TAATTGAGGCACTGTGTGTGCGAGTTC-TTCAACCAAGCAC
1 TATGTGTGCG-AATCGATAAGTG-GGCACTGTGTGTGCAAATTCTTTCAA-CAAGCAC
*
69672525 TATGTGTGCGAGATCGATCAGTGGGCACTAAGTGTGTG-AAAT
1 TATGTGTGCGA-ATCGATAAGTGGGCACT--GTGTGTGCAAAT
69672567 GAGATTCATG
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
53 10 0.13
54 5 0.06
55 6 0.08
56 44 0.56
57 6 0.08
58 7 0.09
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (55 bp):
TATGTGTGCGAATCGATAAGTGGGCACTGTGTGTGCAAATTCTTTCAACAAGCAC
Found at i:69678113 original size:79 final size:81
Alignment explanation
Indices: 69677977--69678159 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
69677967 TCGAATGATG
* *
69677977 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
69678041 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
69678056 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
69678118 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
69678136 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
69678160 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.65
80 30 0.34
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:69678175 original size:40 final size:40
Alignment explanation
Indices: 69677978--69678161 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
69677968 CGAATGATGT
* * * *
69677978 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
69678018 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
69678058 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
69678096 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
69678137 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
69678162 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:69678183 original size:79 final size:79
Alignment explanation
Indices: 69678030--69678194 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
69678020 GGACTAAGAT
* **
69678030 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
69678095 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
69678109 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
69678172 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69678188 CCGAAGG
1 CCGAAGG
69678195 TACGTGATTC
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69686319 original size:40 final size:40
Alignment explanation
Indices: 69686128--69686312 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
69686118 TCGAATGGTG
* * * *
69686128 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
69686168 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTGAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
69686208 TCTGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
69686247 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
69686288 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
69686313 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 32 0.26
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:69686334 original size:79 final size:79
Alignment explanation
Indices: 69686181--69686345 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
69686171 GGACTAAGAT
* * **
69686181 CCGAAGGCATTTGTGCGAGATACTGATTCTGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTGATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
69686246 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
69686260 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTGAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
69686323 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
69686339 CCGAAGG
1 CCGAAGG
69686346 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTGATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:69690289 original size:13 final size:13
Alignment explanation
Indices: 69690271--69690297 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
69690261 GCTCGGTAGG
69690271 GACACGCCCGTGT
1 GACACGCCCGTGT
69690284 GACACGCCCGTGT
1 GACACGCCCGTGT
69690297 G
1 G
69690298 CAATTACTCC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:69691126 original size:9 final size:9
Alignment explanation
Indices: 69691103--69691132 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
69691093 CTATGTCCCA
69691103 ATTTCATAT
1 ATTTCATAT
69691112 -TTTCATAT
1 ATTTCATAT
69691120 ATTTCATAT
1 ATTTCATAT
69691129 ATTT
1 ATTT
69691133 TATTAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (9 bp):
ATTTCATAT
Found at i:69700702 original size:47 final size:47
Alignment explanation
Indices: 69700643--69700836 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
69700633 TTAGGAATTT
** * *
69700643 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
69700690 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
69700737 ATGTGATGAATGTGAGCCTGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
69700784 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
69700831 ATGTGA
1 ATGTGA
69700837 AATATGTATG
Statistics
Matches: 129, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 129 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:69700743 original size:22 final size:22
Alignment explanation
Indices: 69700672--69700743 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
69700662 GTATATATGA
69700672 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
69700694 GATAAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
69700719 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
69700741 GAT
1 GAT
69700744 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:69700869 original size:48 final size:48
Alignment explanation
Indices: 69700806--69701038 Score: 387
Period size: 48 Copynumber: 4.8 Consensus size: 48
69700796 TGAACATGCA
69700806 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
69700854 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
69700902 TATATGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
** *
69700950 CCTATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
69701000 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
69701039 GGTGATGTGC
Statistics
Matches: 172, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
47 1 0.01
48 126 0.73
49 4 0.02
50 40 0.23
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:69701064 original size:96 final size:95
Alignment explanation
Indices: 69700806--69701057 Score: 339
Period size: 98 Copynumber: 2.6 Consensus size: 95
69700796 TGAACATGCA
69700806 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATAT--GTATATGTGGTAAAGC
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATAT-T-GT-AAGC
*
69700869 CGAATGGCTAATGTG-AAATATGTATGAGATATG
63 CGAATGGC-AATGTGAAAATATATATGAGATATG
* * * *
69700902 TATATGTGGTAAAACCGAATGGCTAATGTGAAATATGTATGAGATATGCCTATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGT-AAGCCG
69700967 AATGGTCAATGTGAAATATATATATGAGATATG
65 AATGG-CAATGTGAAA-ATATATATGAGATATG
* * * *
69701000 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGTGATGTGCGTATATTGT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGT
69701058 GGCCGAACGA
Statistics
Matches: 138, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
96 66 0.48
97 3 0.02
98 69 0.50
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.32
Consensus pattern (95 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCGTATATTGTAAGCCGA
ATGGCAATGTGAAAATATATATGAGATATG
Found at i:69701087 original size:146 final size:140
Alignment explanation
Indices: 69700808--69701078 Score: 366
Period size: 146 Copynumber: 1.9 Consensus size: 140
69700798 AACATGCATA
*
69700808 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAA
1 TATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAA
* * * *
69700873 TGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAACCGAATGGCTAATGTGAAATAT
66 TGGCTAATGTGAAATATGTAGGAGATATGTATATGTGG----ACCGAACGACCAATGTGAAATAT
69700938 GTATGAGATATGCC
127 GTATGAGATATGCC
69700952 TATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGCC
1 TATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGCC
* * *
69701016 GAATGGCTAGTGTGAAATATGTAGGTGATGTGCGTATATTGTGG-CCGAACGACCAATGTGAAA
63 GAATGGCTAATGTGAAATATGTAGGAGATAT--GTATA-TGTGGACCGAACGACCAATGTGAAA
69701079 GGTGTGTATT
Statistics
Matches: 113, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
143 1 0.01
144 42 0.37
145 2 0.02
146 58 0.51
148 5 0.04
149 5 0.04
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.30
Consensus pattern (140 bp):
TATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAA
TGGCTAATGTGAAATATGTAGGAGATATGTATATGTGGACCGAACGACCAATGTGAAATATGTAT
GAGATATGCC
Found at i:69701292 original size:45 final size:46
Alignment explanation
Indices: 69701205--69701296 Score: 141
Period size: 45 Copynumber: 2.0 Consensus size: 46
69701195 CCCGATGACT
* *
69701205 ACGTGTGGAGATTATGTCCGGGTAAGACCTGATGACTACGTGTGGA
1 ACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACGTGTGGA
* *
69701251 ACGTGTGGAGATTTTGTCC-GGTAAGACCCGATAACTTCGTGTGGA
1 ACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACGTGTGGA
69701296 A
1 A
69701297 ATTTTGTCCG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 24 0.57
46 18 0.43
ACGTcount: A:0.24, C:0.16, G:0.33, T:0.27
Consensus pattern (46 bp):
ACGTGTGGAGATTATGTCCGGGTAAGACCCGATAACTACGTGTGGA
Found at i:69709486 original size:28 final size:28
Alignment explanation
Indices: 69709440--69709507 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
69709430 TCAGTGATAG
*
69709440 TCCAGTATTAGTTAGGGCCATAGCCCAT
1 TCCAGTATCAGTTAGGGCCATAGCCCAT
* * *
69709468 TTCAGTATCAGTGTA-GGCCTTATCCCAT
1 TCCAGTATCAGT-TAGGGCCATAGCCCAT
*
69709496 TCCAGTAACAGT
1 TCCAGTATCAGT
69709508 AATAGAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 31 0.94
29 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TCCAGTATCAGTTAGGGCCATAGCCCAT
Found at i:69715011 original size:29 final size:29
Alignment explanation
Indices: 69714949--69715060 Score: 131
Period size: 29 Copynumber: 3.9 Consensus size: 29
69714939 CTGTATCTCA
* * * *
69714949 CCCATTAAGCCC-ATTCATATTCATATGG
1 CCCATTAGGCCCAAATCACATTTATATGG
69714977 CCCATTAGGCCCAAATCAC-TTGTATATGG
1 CCCATTAGGCCCAAATCACATT-TATATGG
69715006 CCCATTAGGCCCAAATCACATTTATATGG
1 CCCATTAGGCCCAAATCACATTTATATGG
* * *
69715035 CCCGTTAGGCCC-AGTCACATTCATAT
1 CCCATTAGGCCCAAATCACATTTATAT
69715061 TCATGCTCAC
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
28 25 0.34
29 47 0.64
30 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
CCCATTAGGCCCAAATCACATTTATATGG
Found at i:69719616 original size:49 final size:49
Alignment explanation
Indices: 69719546--69719774 Score: 233
Period size: 49 Copynumber: 4.6 Consensus size: 49
69719536 TCTGGTACGT
* * *
69719546 ATAGTAGCCTACACTTAGTACTACACATGTGACCAATTATCCAGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACAC
* ** * * *
69719595 GTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATGCAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACAC
* * * *
69719645 ATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTTTCGGGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCCGGTACAC
* * * * * *
69719696 ATAATAGCCTGCACTTAATACTACACATGCGACCAATAATTCGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACAC
* * *
69719745 GTAGTATCCTGCGCTTAGTACTACACACGT
1 ATAGTAGCCTGCACTTAGTACTACACACGT
69719775 CACCTCACAA
Statistics
Matches: 142, Mismatches: 35, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
49 62 0.44
50 45 0.32
51 35 0.25
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
ATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACAC
Found at i:69726280 original size:46 final size:46
Alignment explanation
Indices: 69726230--69726405 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
69726220 TGGTTGAGCA
69726230 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69726276 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
69726321 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69726369 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69726406 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:69726386 original size:93 final size:93
Alignment explanation
Indices: 69726227--69726398 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
69726217 GGATGGTTGA
* *
69726227 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69726292 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
69726320 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69726385 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
69726399 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69730630 original size:30 final size:30
Alignment explanation
Indices: 69730594--69730656 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
69730584 AAAGAATTTG
*
69730594 TGGTGTATAGTGATGCTTCTCTAAATGGTT
1 TGGTGTATAGTGATGCTGCTCTAAATGGTT
69730624 TGGTGTATAGTGATGCTGCTCTAAATGGTT
1 TGGTGTATAGTGATGCTGCTCTAAATGGTT
69730654 TGG
1 TGG
69730657 GGTGTGTGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.10, G:0.30, T:0.41
Consensus pattern (30 bp):
TGGTGTATAGTGATGCTGCTCTAAATGGTT
Found at i:69733866 original size:46 final size:46
Alignment explanation
Indices: 69733816--69733991 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
69733806 TGGTTGAGCA
69733816 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69733862 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
69733907 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
69733955 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69733992 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:69733972 original size:93 final size:93
Alignment explanation
Indices: 69733813--69733984 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
69733803 GGATGGTTGA
* *
69733813 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69733878 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
69733906 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
69733971 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
69733985 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:69736864 original size:50 final size:50
Alignment explanation
Indices: 69736789--69736925 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
69736779 AATTATCCAG
* * * * * *
69736789 TACAAGTAGTAGCCTGCACTTAGTACTACACATGTGACGTAACTATCTGA
1 TACACGTAATAGCCTCCACTGAGTACTACACACGTGACCTAACTATCTGA
69736839 TACACGTAATAGCCTCCACTGAGTACTACACACGTGACCTAACTATCTGA
1 TACACGTAATAGCCTCCACTGAGTACTACACACGTGACCTAACTATCTGA
* * * * * *
69736889 TACACGTAGTACCCTGCAGTTAGTATTACACACGTGA
1 TACACGTAATAGCCTCCACTGAGTACTACACACGTGA
69736926 TCTATAAATT
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
TACACGTAATAGCCTCCACTGAGTACTACACACGTGACCTAACTATCTGA
Found at i:69739659 original size:49 final size:49
Alignment explanation
Indices: 69739587--69739812 Score: 159
Period size: 49 Copynumber: 4.6 Consensus size: 49
69739577 TCTGGTCGCA
* * * *
69739587 TAGTAGCCTACACTTAGCACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCAATTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** *** *
69739636 TAGTAGCCTGCAATTAGTACTACACACGTGACCTAACCATCTAATATACG
1 TAGTAGCCTGCAATTAGTACTACACACGCGACC-AATTATCCGGTACACG
* * * * * * *
69739686 TAATAGCCTGCATTTAGTAC-ACAACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCAATTAGTACTAC-ACACGCGA-CCAA-TTATCCGGTACACG
* * * *
69739737 TAGTAGCTTGCACA-TAATACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCA-ATTAGTACTACACACGCGACCAATTATCCGGTACACG
* ** *
69739786 TAGTGGTGTGCACTTAGTACTACACAC
1 TAGTAGCCTGCAATTAGTACTACACAC
69739813 ATGACCTCAC
Statistics
Matches: 131, Mismatches: 39, Indels: 14
0.71 0.21 0.08
Matches are distributed among these distances:
49 60 0.46
50 41 0.31
51 28 0.21
52 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCAATTAGTACTACACACGCGACCAATTATCCGGTACACG
Found at i:69742894 original size:49 final size:51
Alignment explanation
Indices: 69742764--69742902 Score: 183
Period size: 51 Copynumber: 2.8 Consensus size: 51
69742754 AGCCAATGCT
* *
69742764 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCCAAGTT
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTA
* * *
69742815 ATCGGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGA-CCAA-TA
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTA
* * * *
69742864 ATCTAGTACACATAGTAACGTGCACTTAGTACTACACAC
1 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACAC
69742903 ATGACCTCAC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
49 33 0.43
50 4 0.05
51 39 0.51
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (51 bp):
ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTA
Found at i:69748072 original size:20 final size:21
Alignment explanation
Indices: 69748029--69748074 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
69748019 ACTGTTTTGT
69748029 TATGGG-CCAACTATATTGAA
1 TATGGGCCCAACTATATTGAA
*
69748049 -ATGGGCCCAACTATGTT-AA
1 TATGGGCCCAACTATATTGAA
69748068 TATGGGC
1 TATGGGC
69748075 AAGGCCCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (21 bp):
TATGGGCCCAACTATATTGAA
Found at i:69750781 original size:27 final size:25
Alignment explanation
Indices: 69750726--69750781 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
69750716 CAACCTTAAC
* * *
69750726 CCTAGGGGTATATCAGTAATTTGCT
1 CCTAGGGGTAAATCAGTAATTTCCA
*
69750751 CCTAGGGGTAAATCTGTAAAATTTCCA
1 CCTAGGGGTAAATCAGT--AATTTCCA
69750778 CCTA
1 CCTA
69750782 AAAAGGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 15 0.60
27 10 0.40
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (25 bp):
CCTAGGGGTAAATCAGTAATTTCCA
Found at i:69758216 original size:28 final size:26
Alignment explanation
Indices: 69758177--69758228 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
69758167 GAATTTGAGT
*
69758177 AATTAGGGCTAAATTGAAAAATAATA
1 AATTAGGGCTAAAATGAAAAATAATA
*
69758203 AATTGAGGGACTAAAATGTAAAATAA
1 AATT-AGGG-CTAAAATGAAAAATAA
69758229 ATGAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 4 0.18
28 14 0.64
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (26 bp):
AATTAGGGCTAAAATGAAAAATAATA
Found at i:69758782 original size:41 final size:42
Alignment explanation
Indices: 69758737--69758841 Score: 176
Period size: 41 Copynumber: 2.5 Consensus size: 42
69758727 ATAGGATTTT
*
69758737 GATATGTGATTACGTGTAAGACCATGTCTGGGA-TTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACTTGGCATC
*
69758778 GATATGTGATTACGTGTAAAACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGAC-TTGGCATC
69758821 GATATGTGATTACGTGTAAGA
1 GATATGTGATTACGTGTAAGA
69758842 ATATGTGATT
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 31 0.53
43 28 0.47
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (42 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACTTGGCATC
Found at i:69758847 original size:20 final size:20
Alignment explanation
Indices: 69758822--69758861 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
69758812 GTTGGCATCG
69758822 ATATGTGATTACGTGTAAGA
1 ATATGTGATTACGTGTAAGA
69758842 ATATGTGATTACGTGTAAGA
1 ATATGTGATTACGTGTAAGA
69758862 TCACGTCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (20 bp):
ATATGTGATTACGTGTAAGA
Found at i:69758881 original size:63 final size:63
Alignment explanation
Indices: 69758779--69758904 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
69758769 ATTGGCATCG
*
69758779 ATATGTGATTACGTGTAAAACCACGTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGA
1 ATATGTGATTACGTGTAAAACCACGTCTGGGACGCTGGCATCGATATGTGATTACGTGTAAGA
* * * *
69758842 ATATGTGATTACGTGTAAGATCACGTCTGGGATGCTGGCATCGATATGTGATTATGTGTAAGA
1 ATATGTGATTACGTGTAAAACCACGTCTGGGACGCTGGCATCGATATGTGATTACGTGTAAGA
69758905 CCACGCCTGG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (63 bp):
ATATGTGATTACGTGTAAAACCACGTCTGGGACGCTGGCATCGATATGTGATTACGTGTAAGA
Found at i:69758901 original size:106 final size:104
Alignment explanation
Indices: 69758738--69758947 Score: 357
Period size: 106 Copynumber: 2.0 Consensus size: 104
69758728 TAGGATTTTG
*
69758738 ATATGTGATTACGTGTAAGACCATGTCTGGGATTGGCATCGATATGTGATTACGTGTAAAACCAC
1 ATATGTGATTACGTGTAAGACCACGTCTGGGATTGGCATCGATATGTGATTACGTGTAAAACCAC
*
69758803 GTCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGA
66 GCCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGA
* * *
69758842 ATATGTGATTACGTGTAAGATCACGTCTGGGATGCTGGCATCGATATGTGATTATGTGTAAGACC
1 ATATGTGATTACGTGTAAGACCACGTCTGGGAT--TGGCATCGATATGTGATTACGTGTAAAACC
69758907 ACGCCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGA
64 ACGCCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGA
69758948 CCATGTTTCG
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 31 0.31
106 68 0.69
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (104 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGATTGGCATCGATATGTGATTACGTGTAAAACCAC
GCCTGGGACGTTGGCATCGATATGTGATTACGTGTAAGA
Found at i:69758903 original size:43 final size:43
Alignment explanation
Indices: 69758842--69759023 Score: 229
Period size: 43 Copynumber: 4.2 Consensus size: 43
69758832 ACGTGTAAGA
* * *
69758842 ATATGTGATTACGTGTAAGATCACGTCTGGGATGCTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* *
69758885 ATATGTGATTATGTGTAAGACCACGCCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * *
69758928 ATATGTGATTACGTGTAAGACCATGTTTCGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
* * * *** *
69758971 ATATGTGATTACGAGTAAGACCATGTTTAATATGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
69759014 ATATGTGATT
1 ATATGTGATT
69759024 CTGATATGTG
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCG
Found at i:69759114 original size:54 final size:54
Alignment explanation
Indices: 69758983--69759212 Score: 352
Period size: 54 Copynumber: 4.2 Consensus size: 54
69758973 ATGTGATTAC
* * * *
69758983 GAGTAAGACCATGTTTAATATGTTGGCATCGATATGTGATTCTGATATGTGTGTGT
1 GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATA--TGTGTGT
69759039 GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGT
1 GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGT
*
69759093 GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCAATATGTGTGT
1 GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGT
* * *
69759147 GAGTAAGACCACGTTTAATACGTTGGCATCGATAGGTGATTCCGATATGTGTTTT
1 GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTG-TGT
69759202 CGAGTAAGACC
1 -GAGTAAGACC
69759213 CTGTCTGGGA
Statistics
Matches: 163, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
54 108 0.66
55 2 0.01
56 53 0.33
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (54 bp):
GAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATTCCGATATGTGTGT
Found at i:69761774 original size:43 final size:43
Alignment explanation
Indices: 69761713--69761846 Score: 159
Period size: 42 Copynumber: 3.1 Consensus size: 43
69761703 AATACCAACA
*
69761713 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCATTG
1 TCCCAGACAG-GGTCTTACATGTAATCAAATATCGATGCCAATG
* *
69761756 TCCCAGACAGGGTCTTACACG-AAGTCATATA-CGATGCCAATG
1 TCCCAGACAGGGTCTTACATGTAA-TCAAATATCGATGCCAATG
* *
69761798 TCCCAGACATGGTCTTACATGTAAATCACAA-ATCGATGCCAACG
1 TCCCAGACAGGGTCTTACATGT-AATCA-AATATCGATGCCAATG
69761842 TCCCA
1 TCCCA
69761847 AATGTGGTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 11
0.81 0.07 0.11
Matches are distributed among these distances:
42 31 0.40
43 28 0.36
44 19 0.24
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACATGTAATCAAATATCGATGCCAATG
Found at i:69761804 original size:42 final size:43
Alignment explanation
Indices: 69761713--69761862 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 43
69761703 AATACCAACA
* *
69761713 TCCCAGAC-GTGGTCTTACATGTAATCAAATATCGATGCCATTG
1 TCCCAGACAG-GGTCTTACACGTAATCAAATATCGATGCCAATG
*
69761756 TCCCAGACAGGGTCTTACACG-AAGTCATATA-CGATGCCAATG
1 TCCCAGACAGGGTCTTACACGTAA-TCAAATATCGATGCCAATG
* * *
69761798 TCCCAGACATGGTCTTACATGTAAATCACAA-ATCGATGCCAACG
1 TCCCAGACAGGGTCTTACACGT-AATCA-AATATCGATGCCAATG
69761842 TCCCA-A-ATGTGGTCTTACACG
1 TCCCAGACA-G-GGTCTTACACG
69761863 ATGACACATA
Statistics
Matches: 90, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
42 32 0.36
43 29 0.32
44 29 0.32
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
TCCCAGACAGGGTCTTACACGTAATCAAATATCGATGCCAATG
Found at i:69764472 original size:39 final size:40
Alignment explanation
Indices: 69764427--69764593 Score: 97
Period size: 40 Copynumber: 4.2 Consensus size: 40
69764417 CGGGGTTTAG
* * *
69764427 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
69764466 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
69764506 CCGGATATAGTCGCTAGCACAAATGCCTTC--GATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
69764545 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
69764586 CCGGATAT
1 CCGGATAT
69764594 CATTCGAGTA
Statistics
Matches: 107, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.02
39 33 0.31
40 58 0.54
41 12 0.11
42 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:69764497 original size:40 final size:40
Alignment explanation
Indices: 69764450--69764593 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
69764440 CTCGCACAAG
* * * * *
69764450 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
69764490 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
69764530 GCCTTC--GATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
69764570 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
69764594 CATTCGAGTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 18 0.20
40 56 0.62
41 12 0.13
42 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:69772444 original size:39 final size:40
Alignment explanation
Indices: 69772399--69772566 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
69772389 CGGGGTTTAG
* * *
69772399 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
69772438 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
69772478 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
69772518 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
69772559 CCGGATAT
1 CCGGATAT
69772567 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:69772549 original size:41 final size:40
Alignment explanation
Indices: 69772422--69772566 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
69772412 CTCGCACAAG
* * * * *
69772422 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
69772462 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
69772502 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
69772543 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
69772567 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:69776713 original size:43 final size:44
Alignment explanation
Indices: 69776665--69776874 Score: 171
Period size: 43 Copynumber: 4.9 Consensus size: 44
69776655 ATCGAAATGT
**
69776665 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT-TTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATAAGA
* * * * *
69776708 GATTACGTGTAAAACCACAG-CTGGAACATTGGCATTGTAT-TGA
1 GATTACATGTAAGACCA-TGTCTGGGACATTGGCATTGTATAAGA
** * **
69776751 GATTATGTGTAAGACCATGTCTAGGACATTGGCATTGT-TAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATAAGA
* * * * * *
69776794 GATTTCATTTAATACCCTGTCTGGGACAGTGGCATCG-ATAAGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATAAGA
* * * *
69776837 GATAACATATAAGACCATATCTGGGATA-TGGCATTGTA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTA
69776875 CAAGTTATAT
Statistics
Matches: 130, Mismatches: 32, Indels: 10
0.76 0.19 0.06
Matches are distributed among these distances:
42 9 0.07
43 120 0.92
44 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATAAGA
Found at i:69784034 original size:18 final size:17
Alignment explanation
Indices: 69784008--69784041 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
69783998 CCATAGCACG
69784008 GCCCATGTGGGCCCACAT
1 GCCCATGT-GGCCCACAT
*
69784026 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
69784042 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (17 bp):
GCCCATGTGGCCCACAT
Found at i:69785755 original size:16 final size:17
Alignment explanation
Indices: 69785721--69785755 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
69785711 ATTTTAAAGA
69785721 AAGGTTTTCAATGAAAAC
1 AAGGTTTTCAA-GAAAAC
69785739 AAGGTTTTCAA-AAAAC
1 AAGGTTTTCAAGAAAAC
69785755 A
1 A
69785756 CTTCCATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
18 11 0.65
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (17 bp):
AAGGTTTTCAAGAAAAC
Found at i:69787928 original size:21 final size:21
Alignment explanation
Indices: 69787902--69787951 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
69787892 TTTCCAGCAC
*
69787902 ATTTTTACATAAAATTTTATA
1 ATTTTTACATAAAATTTTACA
*
69787923 ATTTTT-CATTAAATTTTACA
1 ATTTTTACATAAAATTTTACA
69787943 A-TTTTACAT
1 ATTTTTACAT
69787952 TTTAGTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.15
20 16 0.62
21 6 0.23
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTTACATAAAATTTTACA
Found at i:69795248 original size:50 final size:49
Alignment explanation
Indices: 69795129--69795315 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 49
69795119 TGAGGTCGCA
* * * * *
69795129 TGTGTGGTACTAAGTGCAAGCTACTATGTGTACCCAAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
** *
69795180 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
69795230 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* *
69795279 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
69795316 TAGCTTCGGC
Statistics
Matches: 116, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 39 0.34
50 42 0.36
51 30 0.26
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:69798340 original size:15 final size:15
Alignment explanation
Indices: 69798320--69798371 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
69798310 CTTGGGTTTT
69798320 TTTATTCTGGATTTC
1 TTTATTCTGGATTTC
*
69798335 TTTATTCTGGGTTT-
1 TTTATTCTGGATTTC
69798349 TTCTA-TCTTGGATTTC
1 TT-TATTC-TGGATTTC
69798365 TTTATTC
1 TTTATTC
69798372 AGTTTTCTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
14 4 0.13
15 23 0.74
16 4 0.13
ACGTcount: A:0.12, C:0.13, G:0.13, T:0.62
Consensus pattern (15 bp):
TTTATTCTGGATTTC
Found at i:69798346 original size:30 final size:30
Alignment explanation
Indices: 69798312--69798371 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
69798302 TATCGTATCT
*
69798312 TGGGTTTTTTTAT-TCTGGATTTCTTTATTC
1 TGGGTTTTTCTATCT-TGGATTTCTTTATTC
69798342 TGGGTTTTTCTATCTTGGATTTCTTTATTC
1 TGGGTTTTTCTATCTTGGATTTCTTTATTC
69798372 AGTTTTCTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.10, C:0.12, G:0.17, T:0.62
Consensus pattern (30 bp):
TGGGTTTTTCTATCTTGGATTTCTTTATTC
Found at i:69803537 original size:20 final size:19
Alignment explanation
Indices: 69803512--69803580 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 19
69803502 GAACTTTAAG
69803512 AATTTTTCGTGACTTTTCAA
1 AATTTTTCG-GACTTTTCAA
69803532 AATTTTTCCAGGAAC-TTT-AA
1 AATTTTT-C-GG-ACTTTTCAA
69803552 GAATTTTTCGCGACTTTTCAA
1 -AATTTTTCG-GACTTTTCAA
69803573 AATTTTTC
1 AATTTTTC
69803581 CAAGGTGCAG
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
19 3 0.07
20 22 0.52
21 14 0.33
22 3 0.07
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (19 bp):
AATTTTTCGGACTTTTCAA
Found at i:69803556 original size:21 final size:21
Alignment explanation
Indices: 69803499--69803560 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
69803489 GGGACTTAAT
69803499 CAGGAACTTTAAGAATTTTT-
1 CAGGAACTTTAAGAATTTTTC
69803519 C-GTG-ACTTTTCAA-AATTTTTC
1 CAG-GAAC-TTT-AAGAATTTTTC
69803540 CAGGAACTTTAAGAATTTTTC
1 CAGGAACTTTAAGAATTTTTC
69803561 GCGACTTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
19 3 0.09
20 14 0.40
21 15 0.43
22 3 0.09
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (21 bp):
CAGGAACTTTAAGAATTTTTC
Found at i:69803556 original size:41 final size:41
Alignment explanation
Indices: 69803499--69803582 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
69803489 GGGACTTAAT
*
69803499 CAGGAACTTTAAGAATTTTTCGTGACTTTTCAAAATTTTTC
1 CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
69803540 CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
1 CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
69803581 CA
1 CA
69803583 AGGTGCAGGG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.42
Consensus pattern (41 bp):
CAGGAACTTTAAGAATTTTTCGCGACTTTTCAAAATTTTTC
Found at i:69805721 original size:28 final size:28
Alignment explanation
Indices: 69805681--69805752 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
69805671 ATGTACTAGA
69805681 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATTACCATC
*
69805709 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATC
*
69805737 ATACCCCTATATATGC
1 ATACCCCTATGTATGC
69805753 CCCTATGTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATC
Found at i:69805932 original size:28 final size:27
Alignment explanation
Indices: 69805892--69805980 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 27
69805882 GGAAGCGTCG
69805892 TGGTGGCTA-TGCCACAAATTATCTGTTC
1 TGGTGGC-ACTGCCACAAA-TATCTGTTC
* * *
69805920 TGGTGGCCCTGCCACATATATCTGTTA
1 TGGTGGCACTGCCACAAATATCTGTTC
*
69805947 TGGTGGCACTGCCACAAAATATTTGTATC
1 TGGTGGCACTGCCAC-AAATATCTGT-TC
69805976 TGGTG
1 TGGTG
69805981 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 22 0.43
28 23 0.45
29 6 0.12
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (27 bp):
TGGTGGCACTGCCACAAATATCTGTTC
Found at i:69805950 original size:27 final size:28
Alignment explanation
Indices: 69805892--69805964 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
69805882 GGAAGCGTCG
*
69805892 TGGTGGCTA-TGCCACAAATTATCTGTTC
1 TGGTGGC-ACTGCCACAAATTATCTGTTA
* *
69805920 TGGTGGCCCTGCCACATA-TATCTGTTA
1 TGGTGGCACTGCCACAAATTATCTGTTA
69805947 TGGTGGCACTGCCACAAA
1 TGGTGGCACTGCCACAAA
69805965 ATATTTGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
27 24 0.62
28 15 0.38
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (28 bp):
TGGTGGCACTGCCACAAATTATCTGTTA
Found at i:69807117 original size:11 final size:10
Alignment explanation
Indices: 69807089--69807123 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
69807079 AGCCTGTAAG
69807089 TATTCTGAAT
1 TATTCTGAAT
*
69807099 TTTTCTGAAT
1 TATTCTGAAT
69807109 ATATTCTGAAT
1 -TATTCTGAAT
69807120 TATT
1 TATT
69807124 TGTCTCTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.54
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:69813470 original size:28 final size:28
Alignment explanation
Indices: 69813430--69813522 Score: 150
Period size: 28 Copynumber: 3.3 Consensus size: 28
69813420 ATATACTAGA
69813430 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
69813458 ATACCCTTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* * *
69813486 ATACCCCTATGTATGCAAAGTGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
69813514 ATACCCCTA
1 ATACCCCTA
69813523 GGGTTAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:69813682 original size:27 final size:28
Alignment explanation
Indices: 69813628--69813717 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
69813618 AAGAAGCGTC
*
69813628 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* * *
69813656 CTGGTGGCCCTGCTAC-ATATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
*
69813683 ATGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
69813712 CTGGTG
1 CTGGTG
69813718 ACTCTGTCTC
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 22 0.44
29 6 0.12
ACGTcount: A:0.21, C:0.22, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:69835687 original size:18 final size:18
Alignment explanation
Indices: 69835664--69835699 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
69835654 ATAAGTATGT
69835664 GAGATTAATCTTTGAGTG
1 GAGATTAATCTTTGAGTG
69835682 GAGATTAATCTTTGAGTG
1 GAGATTAATCTTTGAGTG
69835700 ATATCGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (18 bp):
GAGATTAATCTTTGAGTG
Found at i:69836136 original size:29 final size:29
Alignment explanation
Indices: 69836071--69836185 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 29
69836061 GCATGAGTAT
* *
69836071 AATATGATTTGGGCCTAATGGGCCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
** * *
69836100 AAGGTGAATTAGGCCTAGTGGGCCATAAG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* *
69836129 AATATGAATTGGGCC-AGATGAGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* *
69836158 AATAAG-ATTGGGCCTAGTGGGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
69836186 CATGTATGTA
Statistics
Matches: 68, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
28 18 0.26
29 50 0.74
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:69838307 original size:12 final size:12
Alignment explanation
Indices: 69838292--69838317 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69838282 GATTACATTT
69838292 CTATTACTGTTA
1 CTATTACTGTTA
69838304 CTATTACTGTTA
1 CTATTACTGTTA
69838316 CT
1 CT
69838318 GTAATGGGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (12 bp):
CTATTACTGTTA
Found at i:69838351 original size:34 final size:34
Alignment explanation
Indices: 69838308--69838379 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
69838298 CTGTTACTAT
*
69838308 TACTGTTACTGTAATGGGCTAAGGCCC-ACACTGA
1 TACTGTTACTATAATGGGCTAAGGCCCTA-ACTGA
*
69838342 TACTGTTACTATAATGGGCTATGGCCCTAACTGA
1 TACTGTTACTATAATGGGCTAAGGCCCTAACTGA
69838376 TACT
1 TACT
69838380 AGACTGTCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 34 0.97
35 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (34 bp):
TACTGTTACTATAATGGGCTAAGGCCCTAACTGA
Found at i:69840216 original size:27 final size:28
Alignment explanation
Indices: 69840161--69840216 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
69840151 AGACTGCTAC
* *
69840161 TGTTACTGAAATGGGCTAAGGCCCTAAT
1 TGTTACCGAAATGGGCTAAGGCCCAAAT
* *
69840189 TGTTACCGAAA-GGGCTTAGGCCGAAAT
1 TGTTACCGAAATGGGCTAAGGCCCAAAT
69840216 T
1 T
69840217 TTGCTTACTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (28 bp):
TGTTACCGAAATGGGCTAAGGCCCAAAT
Found at i:69852794 original size:19 final size:18
Alignment explanation
Indices: 69852770--69852810 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
69852760 TAGGGTGGCA
*
69852770 TTTTTCTCTTTTTTTTCT
1 TTTTTCTCTTTTCTTTCT
69852788 CTTTTTCTCTTTTCTTTCT
1 -TTTTTCTCTTTTCTTTCT
69852807 TTTT
1 TTTT
69852811 CACTTGTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTCTCTTTTCTTTCT
Found at i:69852805 original size:11 final size:10
Alignment explanation
Indices: 69852770--69852810 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
69852760 TAGGGTGGCA
69852770 TTTTTCTCTT
1 TTTTTCTCTT
*
69852780 TTTTT-TCTC
1 TTTTTCTCTT
69852789 TTTTTCTCTT
1 TTTTTCTCTT
69852799 TTCTTTCT-TT
1 TT-TTTCTCTT
69852809 TT
1 TT
69852811 CACTTGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 8 0.30
10 14 0.52
11 5 0.19
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:69854229 original size:20 final size:20
Alignment explanation
Indices: 69854196--69854270 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
69854186 ATACGTGGGA
69854196 TATGATAT--ACATGAT-TG
1 TATGATATGCACATGATATG
69854213 ATATGATATGCACATGATATG
1 -TATGATATGCACATGATATG
*
69854234 TATGATATGCATATGATATG
1 TATGATATGCACATGATATG
*
69854254 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
69854271 GTATTCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.36
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:69854231 original size:11 final size:11
Alignment explanation
Indices: 69854213--69854270 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
69854203 TACATGATTG
69854213 ATATGATATGC
1 ATATGATATGC
*
69854224 ACATGATATG-
1 ATATGATATGC
69854234 -TATGATATGC
1 ATATGATATGC
69854244 ATATGATATG-
1 ATATGATATGC
*
69854254 -TATGAAATGC
1 ATATGATATGC
*
69854264 ACATGAT
1 ATATGAT
69854271 GTATTCATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 16 0.42
11 22 0.58
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (11 bp):
ATATGATATGC
Found at i:69854349 original size:26 final size:26
Alignment explanation
Indices: 69854320--69854508 Score: 242
Period size: 26 Copynumber: 7.3 Consensus size: 26
69854310 GAGGAAGTGC
69854320 AAAAGGGCTTATGCCCCAGTTT-TCTG
1 AAAAGGGCTTATGCCCCAGTTTAT-TG
** *
69854346 AAAATAGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
69854372 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
69854398 AAAAGGGCTTATGCCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
69854424 AAAAGGGCTTATGCCCCAATTTATGG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
69854450 AAAAGGGCTTATGCCCCAGATTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
*
69854476 -AAAGGGCTTCTGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
69854499 AAAAGAGGCT
1 AAAAG-GGCT
69854509 AGGCCTCCAG
Statistics
Matches: 144, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
24 7 0.05
25 21 0.15
26 115 0.80
27 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:69863578 original size:30 final size:30
Alignment explanation
Indices: 69863544--69863602 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
69863534 TCCTTGACTC
*
69863544 AAACTTTGGCAAAATTACATTTTTGCCCTT
1 AAACTTTGACAAAATTACATTTTTGCCCTT
* * *
69863574 AAACTTTTACATATTTACATTTTTGCCCT
1 AAACTTTGACAAAATTACATTTTTGCCCT
69863603 AAGACTCGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.44
Consensus pattern (30 bp):
AAACTTTGACAAAATTACATTTTTGCCCTT
Found at i:69867206 original size:21 final size:20
Alignment explanation
Indices: 69867161--69867206 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
69867151 TTGTCGGAAT
69867161 GGTT-AATTTAATCAATTTA
1 GGTTGAATTTAATCAATTTA
*
69867180 GCTTGAATTTAATTC-ATGTTA
1 GGTTGAATTTAA-TCAAT-TTA
69867201 GGTTGA
1 GGTTGA
69867207 TTGCACTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.46
Consensus pattern (20 bp):
GGTTGAATTTAATCAATTTA
Found at i:69879068 original size:19 final size:19
Alignment explanation
Indices: 69879041--69879078 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
69879031 CTTACAATTC
69879041 CATAAAT-AATATATACCTT
1 CATAAATAAATAT-TACCTT
*
69879060 CATATATAAATATTACCTT
1 CATAAATAAATATTACCTT
69879079 GGTCGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (19 bp):
CATAAATAAATATTACCTT
Found at i:69879566 original size:55 final size:55
Alignment explanation
Indices: 69879504--69879638 Score: 216
Period size: 55 Copynumber: 2.5 Consensus size: 55
69879494 TCTCAGACAG
*
69879504 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGCATAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACACATAAACGT
* * *
69879559 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATGCCAACATATAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACACATAAACGT
* *
69879614 TGTCTTACTCACACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
69879639 TTCCATGGTC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 73 1.00
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (55 bp):
GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACACATAAACGT
Found at i:69882372 original size:47 final size:47
Alignment explanation
Indices: 69882288--69882461 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 47
69882278 ACTCTTAGCC
* * *
69882288 GATGCGTGTCCCAGACACGTCTTACACTGGCTA-TCATCATCGAGGAT
1 GATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCATCGAGGCT
* * *
69882335 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATC-TCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCT
* * * *
69882381 GATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAAT-GTGGCT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCATCGAGGCT
* * *
69882429 GATGCATGTCCTAGACATGTCTCACATTGGCAC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC
69882462 ACAAGAAATT
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
46 20 0.19
47 61 0.58
48 23 0.22
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.27
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCATCGAGGCT
Found at i:69882433 original size:48 final size:47
Alignment explanation
Indices: 69882145--69882447 Score: 167
Period size: 47 Copynumber: 6.4 Consensus size: 47
69882135 ATAAGTTTTC
* * * *
69882145 GATGCCATGTCCTAGACATGGTCTTACACTAGCTA-GCATCATCTAGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTAGC-ACTCAT-ATCTACGCT
* * * * * * *
69882194 GATCCCTTGTCCCAGGCATGGTCTTAAACTAGCTCTCGTATATACGTGCT
1 GAT-GCATGTCCCAGACATGGTCTTACACTAGCACTCATATCTAC--GCT
* * * * *
69882244 AACGCATGTCCTAGACAT-GTTTTACACTAGCA--CA-ACTCTTA-GCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCACTCATA-TC-TACGCT
* * * * * *
69882288 GATGCGTGTCCCAGACA-CGTCTTACACTGGCTA-TCATCATCGAGGAT
1 GATGCATGTCCCAGACATGGTCTTACACTAGC-ACTCAT-ATCTACGCT
* * *
69882335 GATGCATGTCCCAGACAT-GTCTTACACTGGCACTCATCTCTACGCC
1 GATGCATGTCCCAGACATGGTCTTACACTAGCACTCATATCTACGCT
* * *
69882381 GATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAATGT-GGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTAGCACTCAT-ATCTACGCT
*
69882429 GATGCATGTCCTAGACATG
1 GATGCATGTCCCAGACATG
69882448 TCTCACATTG
Statistics
Matches: 192, Mismatches: 45, Indels: 36
0.70 0.16 0.13
Matches are distributed among these distances:
44 26 0.14
45 2 0.01
46 14 0.07
47 66 0.34
48 39 0.20
49 42 0.22
50 3 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGGTCTTACACTAGCACTCATATCTACGCT
Found at i:69882461 original size:94 final size:91
Alignment explanation
Indices: 69882145--69882450 Score: 278
Period size: 94 Copynumber: 3.2 Consensus size: 91
69882135 ATAAGTTTTC
* * *
69882145 GATGCCATGTCCTAGACATGGTCTTACACTAGCTAGCATCATCTAGGCCGATCCCTTGTCCCAGG
1 GATG-CATGTCCTAGACAT-GTCTTACACTAGC-A-CATC-TCTA-GCCGATGCCATGTCCCAGA
* *
69882210 CATGGTCTTAAACTAGCTCTCGTATATACGT-GCT
60 CATGGTCTTAAACTAGCACTC--ATA-ATGTGGCT
* * * * * *
69882244 AACGCATGTCCTAGACATGTTTTACACTAGCACAACTCTTAGCCGATG-CGTGTCCCAGACA-CG
1 GATGCATGTCCTAGACATGTCTTACACTAGCACATCTC-TAGCCGATGCCATGTCCCAGACATGG
* * * * *
69882307 TCTTACACTGGCTA-TCATCATCGAGGAT
65 TCTTAAACTAGC-ACTCATAAT-GTGGCT
* *
69882335 GATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCCCAGACAT
1 GATGCATGTCCTAGACATGTCTTACACTAGCA--CATCTCTA-GCCGATGCCATGTCCCAGACAT
*
69882400 GGTCTTATACTAGCACTCATAATGTGGCT
63 GGTCTTAAACTAGCACTCATAATGTGGCT
69882429 GATGCATGTCCTAGACATGTCT
1 GATGCATGTCCTAGACATGTCT
69882451 CACATTGGCA
Statistics
Matches: 168, Mismatches: 29, Indels: 25
0.76 0.13 0.11
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 29 0.17
92 15 0.09
93 23 0.14
94 46 0.27
95 22 0.13
96 1 0.01
97 12 0.07
98 14 0.08
99 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (91 bp):
GATGCATGTCCTAGACATGTCTTACACTAGCACATCTCTAGCCGATGCCATGTCCCAGACATGGT
CTTAAACTAGCACTCATAATGTGGCT
Found at i:69888524 original size:43 final size:43
Alignment explanation
Indices: 69888375--69888533 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
69888365 TATGTGTTTT
* *
69888375 CGTGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGGTTTATA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTCG-AT-TA
* * * * *
69888419 CGTGTAAGACCAAGTGTGGGAAGTTGGCATC-ATAATCGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTCGATTA
*
69888461 CGTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTCGATTA
* *
69888504 CATGTAAGACCACGTATGGGACGTTGGCAT
1 CGTGTAAGACCACGTCTGGGACGTTGGCAT
69888534 TGTAAGAGCT
Statistics
Matches: 94, Mismatches: 15, Indels: 13
0.77 0.12 0.11
Matches are distributed among these distances:
42 27 0.29
43 36 0.38
44 31 0.33
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATCGATATTCGATTA
Found at i:69904538 original size:29 final size:29
Alignment explanation
Indices: 69904505--69904714 Score: 178
Period size: 29 Copynumber: 7.3 Consensus size: 29
69904495 CATGAAGATG
**
69904505 TCCTTTTAACAGAGATAGCCACAAATACA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * * * *
69904534 TCCTTTTAAAAAAGATAGCTACAAATGCT
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
*
69904563 TCCTTTTAATAGAGATAGCCACAAAGGCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* * * *
69904592 TACATTTAACTGAGATAGCCACAAAGCCA
1 TCCTTTTAACAGAGATAGCCACAAAGGCA
* *
69904621 TCCTTTTAACAAAGATCA-CCACAAAGGCT
1 TCCTTTTAACAGAGAT-AGCCACAAAGGCA
* * *
69904650 TTCTTATAACAGAGATCA-CCACAAAGAC-
1 TCCTTTTAACAGAGAT-AGCCACAAAGGCA
* *
69904678 TCCTTATT-ATAGAGATCA-CCACAAAGGCT
1 TCCTT-TTAACAGAGAT-AGCCACAAAGGCA
69904707 TCCTTTTA
1 TCCTTTTA
69904715 GAGATAACGA
Statistics
Matches: 148, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
28 24 0.16
29 123 0.83
30 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (29 bp):
TCCTTTTAACAGAGATAGCCACAAAGGCA
Found at i:69904607 original size:87 final size:87
Alignment explanation
Indices: 69904509--69904675 Score: 221
Period size: 87 Copynumber: 1.9 Consensus size: 87
69904499 AAGATGTCCT
* * * * *
69904509 TTTAACAGAGATAGCCACAAATACATCCTTTTAAAAAAGAT-AGCTACAAATGCTTCCTTTTAAT
1 TTTAACAGAGATAGCCACAAAGACATCCTTTTAAAAAAGATCA-CCACAAAGGCTTCCTTATAAC
69904573 AGAGAT-AGCCACAAAGGCATACA
65 AGAGATCA-CCACAAAGGCATACA
* * * *
69904596 TTTAACTGAGATAGCCACAAAGCCATCCTTTTAACAAAGATCACCACAAAGGCTTTCTTATAACA
1 TTTAACAGAGATAGCCACAAAGACATCCTTTTAAAAAAGATCACCACAAAGGCTTCCTTATAACA
69904661 GAGATCACCACAAAG
66 GAGATCACCACAAAG
69904676 ACTCCTTATT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
87 67 0.97
88 2 0.03
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (87 bp):
TTTAACAGAGATAGCCACAAAGACATCCTTTTAAAAAAGATCACCACAAAGGCTTCCTTATAACA
GAGATCACCACAAAGGCATACA
Found at i:69905883 original size:17 final size:17
Alignment explanation
Indices: 69905850--69905883 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
69905840 GCCTTATATC
*
69905850 TCATAACCATCCTTTTT
1 TCATAACCATACTTTTT
69905867 TCATAACCACTACTTTT
1 TCATAACCA-TACTTTT
69905884 GTTTCACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.44
Consensus pattern (17 bp):
TCATAACCATACTTTTT
Found at i:69906132 original size:17 final size:17
Alignment explanation
Indices: 69906110--69906145 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
69906100 TGAACACTAC
69906110 TTAGCTTATTGTACATT
1 TTAGCTTATTGTACATT
69906127 TTAGCTTATTGTACATT
1 TTAGCTTATTGTACATT
69906144 TT
1 TT
69906146 TATAACTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (17 bp):
TTAGCTTATTGTACATT
Found at i:69912360 original size:49 final size:49
Alignment explanation
Indices: 69912287--69912382 Score: 174
Period size: 49 Copynumber: 2.0 Consensus size: 49
69912277 CCAAAATCGC
* *
69912287 GATGTAAATCTCGGATCTCTATCCGAAATGATTGAGAAAGGTACTCCGT
1 GATGTAAATCTCGGATCTCAATCCGAAATGATTGAAAAAGGTACTCCGT
69912336 GATGTAAATCTCGGATCTCAATCCGAAATGATTGAAAAAGGTACTCC
1 GATGTAAATCTCGGATCTCAATCCGAAATGATTGAAAAAGGTACTCC
69912383 ATGAAGTCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (49 bp):
GATGTAAATCTCGGATCTCAATCCGAAATGATTGAAAAAGGTACTCCGT
Found at i:69922245 original size:57 final size:57
Alignment explanation
Indices: 69922155--69922330 Score: 253
Period size: 57 Copynumber: 3.1 Consensus size: 57
69922145 AACTCATCTA
* * * * *
69922155 AATGTCATATTCCATCATCAATCGATAATATCATACAAATTTCACATAATTCATTTC
1 AATGTCACATTCTATTATCAATCCATAAGATCATACAAATTTCACATAATTCATTTC
* * *
69922212 AATGTCACATTTTATTATCAATCTATAGGATCATACAAATTTCACATAATTCATTTC
1 AATGTCACATTCTATTATCAATCCATAAGATCATACAAATTTCACATAATTCATTTC
* * *
69922269 AATGTCATATTCTATTATCAATCCATAAGATCCTACCAATTTCACATAATTCATTTC
1 AATGTCACATTCTATTATCAATCCATAAGATCATACAAATTTCACATAATTCATTTC
69922326 AATGT
1 AATGT
69922331 TATATCAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 106 1.00
ACGTcount: A:0.37, C:0.20, G:0.05, T:0.39
Consensus pattern (57 bp):
AATGTCACATTCTATTATCAATCCATAAGATCATACAAATTTCACATAATTCATTTC
Found at i:69929914 original size:12 final size:12
Alignment explanation
Indices: 69929897--69929929 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
69929887 GGTGGCAAGT
69929897 TGGCTATTCAAA
1 TGGCTATTCAAA
69929909 TGGCTATTCAAA
1 TGGCTATTCAAA
69929921 TGGCCTATT
1 TGG-CTATT
69929930 TTTGTCCACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (12 bp):
TGGCTATTCAAA
Found at i:69934727 original size:24 final size:24
Alignment explanation
Indices: 69934678--69934741 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
69934668 AAATTTTAGT
* *
69934678 TTTTATATTTAAAATTCGAATTTAA
1 TTTTATATTT-TAATTCGAATATAA
*
69934703 TTTTATATTTTAATTCTAATATAA
1 TTTTATATTTTAATTCGAATATAA
69934727 -TTTAGTATTTTAATT
1 TTTTA-TATTTTAATT
69934742 TTATAATCAC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.11
24 21 0.60
25 10 0.29
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (24 bp):
TTTTATATTTTAATTCGAATATAA
Found at i:69952225 original size:29 final size:29
Alignment explanation
Indices: 69952166--69952223 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
69952156 CAAATAACCG
*
69952166 AAGCTAGTTAAATCGCACACTTAGTGCCC
1 AAGCTAGTTAAATCACACACTTAGTGCCC
69952195 AAGCTAGTTTAAATCACACACTTAGTGCC
1 AAGCTAG-TTAAATCACACACTTAGTGCC
69952224 AAAACTTCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.26
30 20 0.74
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAATCACACACTTAGTGCCC
Done.