Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 169 of 284
Found at i:56754237 original size:40 final size:40
Alignment explanation
Indices: 56754190--56754284 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
56754180 CAGCTATTTG
*
56754190 TGGCACTTAGTTTGCGATTTGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
* * *
56754230 TGGCACTTAGTGTGTGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
* * *
56754270 CGACACTTAATGTGC
1 TGGCACTTAGTGTGC
56754285 AAGATATCGA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTTGACATAGCTTCGGCTATATA
Found at i:56761303 original size:47 final size:47
Alignment explanation
Indices: 56761227--56761345 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
56761217 CTTCGGGACT
* * * * *
56761227 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
56761274 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
56761321 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
56761346 ACCAACCCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:56761607 original size:40 final size:39
Alignment explanation
Indices: 56761570--56761661 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
56761560 GCTACTCGTT
*
56761570 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
56761610 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
56761649 CAAATGCCTTCGG
1 CAAATGCCTTCGG
56761662 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:56761641 original size:39 final size:40
Alignment explanation
Indices: 56761551--56761711 Score: 170
Period size: 40 Copynumber: 4.0 Consensus size: 40
56761541 CGGAATTTAA
** *
56761551 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
56761591 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
56761630 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
56761670 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
56761710 CC
1 CC
56761712 AGACATCATT
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.31
40 55 0.54
41 12 0.12
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56764260 original size:39 final size:39
Alignment explanation
Indices: 56764206--56764283 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
56764196 TATCACTCTT
56764206 TCCTTCTTTTAATTATTCTTTCTTCCATAATATAAAGCC
1 TCCTTCTTTTAATTATTCTTTCTTCCATAATATAAAGCC
56764245 TCCTTCTTTTAATTATTCTTTCTTCCATAATATAAAGCC
1 TCCTTCTTTTAATTATTCTTTCTTCCATAATATAAAGCC
56764284 ATTAACTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.26, C:0.23, G:0.03, T:0.49
Consensus pattern (39 bp):
TCCTTCTTTTAATTATTCTTTCTTCCATAATATAAAGCC
Found at i:56767365 original size:38 final size:39
Alignment explanation
Indices: 56767310--56767436 Score: 175
Period size: 39 Copynumber: 3.3 Consensus size: 39
56767300 TATGAGATTG
* *
56767310 AAAATATTCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGA
* *
56767349 AAAATATCCGGA-ATGAGATCTGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGA
* * **
56767387 AATATATCCGGACTTGAGGTCTGCAGGCTACGTGCTGGA
1 AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGA
56767426 AAAATATCCGG
1 AAAATATCCGG
56767437 GTTAAAGACC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
38 34 0.45
39 42 0.55
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTCTGCAGGCTATATGCTGGA
Found at i:56767462 original size:77 final size:76
Alignment explanation
Indices: 56767309--56767462 Score: 184
Period size: 77 Copynumber: 2.0 Consensus size: 76
56767299 GTATGAGATT
* * * * *
56767309 GAAAATATTCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGAATGAGATCTGCAG
1 GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGAATAAGACCCGCAG
*
56767374 GCTATATGCTA
66 GCTATACGCTA
* * * **
56767385 GAAATATATCCGGACTTGAGGTCTGCAGGCTACGTGCTGGAAAAATATCCGGGTTAAAGACCCGC
1 GAAA-ATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGAAT-AAGACCCGC
56767450 AGGCT-TACGCTA
64 AGGCTATACGCTA
56767462 G
1 G
56767463 TAATGTATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 4 0.06
77 50 0.77
78 11 0.17
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (76 bp):
GAAAATATCCGGACATGAGGTCCGCAGGCTACATGCTGGAAAAATATCCGGAATAAGACCCGCAG
GCTATACGCTA
Found at i:56775036 original size:42 final size:42
Alignment explanation
Indices: 56774989--56775152 Score: 172
Period size: 42 Copynumber: 3.9 Consensus size: 42
56774979 TTAGGGTTAC
*
56774989 TGAGACTATGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
*
56775031 TGAGACT-TCGTGTAAGACCGTATCTGGGATATGGCATCGATGA
1 TGAGACTAT-GTGTAAGACCATATCTGGGATATGGCATCGAT-A
* * * * * *
56775074 -GAGATTTTGTGTAAGATCGTAGCTGGGCTATTGGCATCGATA
1 TGAGACTATGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* **
56775116 CGAGA-TGACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACT-ATGTGTAAGACCATATCTGGGATATGGCAT
56775153 TGGTATGGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
41 1 0.01
42 69 0.67
43 33 0.32
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (42 bp):
TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:56782518 original size:42 final size:42
Alignment explanation
Indices: 56782471--56782633 Score: 170
Period size: 42 Copynumber: 3.9 Consensus size: 42
56782461 TTAGGGTTAC
* * *
56782471 TGAGACTATGTGTAAGACCATATTTGGGATATGGCATCCAAA
1 TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
* * *
56782513 TGAGACT-TCGTGTAAGATCGTATCTGGGATATGGCATCGATG
1 TGAGACTAT-GTGTAAGACCATATCTGGGATATGGCATCGATA
* * * * *
56782555 TGAGATTTTGTGTAAGAACAT-TCTGGGCTATTGGCATTGATA
1 TGAGACTATGTGTAAGACCATATCTGGGATA-TGGCATCGATA
*
56782597 TGAGA-TGATATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACT-ATGTGTAAGACCATATCTGGGATATGGCAT
56782634 TGGTATGGTA
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
41 10 0.10
42 81 0.81
43 9 0.09
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (42 bp):
TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:56784899 original size:54 final size:55
Alignment explanation
Indices: 56784833--56784951 Score: 204
Period size: 54 Copynumber: 2.2 Consensus size: 55
56784823 TGTTTTTCGA
*
56784833 AAACCATGTTTCCATTAAAAACCCTTCTTAATAATTAAAAACTTATACCCTTTTT
1 AAACCATGTTTCCATTAAAAACACTTCTTAATAATTAAAAACTTATACCCTTTTT
*
56784888 AAACCA-GTTTCCATTAAAAACAGTTCTTAATAATTAAAAACTTATACCCTTTTT
1 AAACCATGTTTCCATTAAAAACACTTCTTAATAATTAAAAACTTATACCCTTTTT
*
56784942 AAACCTTGTT
1 AAACCATGTT
56784952 AGAAAACCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 51 0.85
55 9 0.15
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (55 bp):
AAACCATGTTTCCATTAAAAACACTTCTTAATAATTAAAAACTTATACCCTTTTT
Found at i:56786358 original size:27 final size:27
Alignment explanation
Indices: 56786328--56786468 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 27
56786318 GGGCAAAATG
* * *
56786328 GTAATTTTACCCCAT-GAGGGTATCTCA
1 GTAATTCTACCCTATAG-GGGTATTTCA
* *
56786355 GTAATTCTACCTTATAGGGGTATTTAA
1 GTAATTCTACCCTATAGGGGTATTTCA
*
56786382 GTAATTCTACCTTATAGGGGTATTTCA
1 GTAATTCTACCCTATAGGGGTATTTCA
*
56786409 GTAATTCTACCCTATAAGGGTATTTC-
1 GTAATTCTACCCTATAGGGGTATTTCA
* * * *
56786435 GTTAATTCTGCCGTAAAGGGGTATTTTA
1 G-TAATTCTACCCTATAGGGGTATTTCA
56786463 GTAATT
1 GTAATT
56786469 TTACAAATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
26 1 0.01
27 95 0.97
28 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (27 bp):
GTAATTCTACCCTATAGGGGTATTTCA
Found at i:56786484 original size:27 final size:27
Alignment explanation
Indices: 56786451--56786739 Score: 318
Period size: 27 Copynumber: 10.7 Consensus size: 27
56786441 TCTGCCGTAA
* *
56786451 AGGGGTATTTTAGTAATTTTACAAATT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
56786478 AGAGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
56786505 AGGGGTATTTTTGTAATTTTACTAA-T
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
56786531 TGAGGGTATTTTGGTAATTTCACAAATT
1 AG-GGGTATTTTGGTAATTTTACAAACT
56786559 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
56786586 AGGGGGATTTTGGTAA-TTTAGCAAACA
1 AGGGGTATTTTGGTAATTTTA-CAAACT
*
56786613 AGGGGTATTTTGGTAATTTTACAAACA
1 AGGGGTATTTTGGTAATTTTACAAACT
*
56786640 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
56786667 AGGGGTATTTTTGGTAATTTTGCTAA-T
1 AGGGGTA-TTTTGGTAATTTTACAAACT
* * * *
56786694 CAAGGGCA-TTTGGTAATTTTTCCAA-T
1 -AGGGGTATTTTGGTAATTTTACAAACT
*
56786720 CGAGGGTATTTTGGTAATTT
1 AG-GGGTATTTTGGTAATTT
56786740 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
26 25 0.11
27 173 0.77
28 26 0.12
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:56786494 original size:81 final size:81
Alignment explanation
Indices: 56786326--56786495 Score: 182
Period size: 81 Copynumber: 2.1 Consensus size: 81
56786316 AGGGGCAAAA
* * * *
56786326 TGGTAATTTTACCCCATGAGGGTATCTCAGTAATTCTACCTTATAGGGGTATTTAAGTAATTCTA
1 TGGTAATTCTACCCCATAAGGGTATCTCAGTAATTCTACCGTAAAGGGGTATTTAAGTAATTCTA
** *
56786391 CCTTATAGGGGTATTT
66 CAATATAGAGGTATTT
** * * * * *
56786407 CAGTAATTCTACCCTATAAGGGTATTTC-GTTAATTCTGCCGTAAAGGGGTATTTTAGTAATTTT
1 TGGTAATTCTACCCCATAAGGGTATCTCAG-TAATTCTACCGTAAAGGGGTATTTAAGTAATTCT
56786471 ACAA-ATTAGAGGTATTT
65 ACAATA-TAGAGGTATTT
56786488 TGGTAATT
1 TGGTAATT
56786496 TTACAAACCA
Statistics
Matches: 71, Mismatches: 16, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
80 2 0.03
81 69 0.97
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (81 bp):
TGGTAATTCTACCCCATAAGGGTATCTCAGTAATTCTACCGTAAAGGGGTATTTAAGTAATTCTA
CAATATAGAGGTATTT
Found at i:56790902 original size:21 final size:20
Alignment explanation
Indices: 56790863--56790902 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
56790853 TAAGCATGTA
*
56790863 TTTTGATGTTTGATGATAGG
1 TTTTGATGCTTGATGATAGG
*
56790883 TTTTGAATGCTTGTTGATAG
1 TTTTG-ATGCTTGATGATAG
56790903 ATATACAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.50
Consensus pattern (20 bp):
TTTTGATGCTTGATGATAGG
Found at i:56791197 original size:141 final size:141
Alignment explanation
Indices: 56790943--56791249 Score: 560
Period size: 141 Copynumber: 2.2 Consensus size: 141
56790933 GAAAATGTAA
56790943 AATAAGGATTAAATTGAGAAATGTTAAAATAGTGGTTGAAATGTAAATTAAATGAATGAACAATA
1 AATAAGGATTAAATTGAGAAATGTTAAAATAGTGGTTGAAATGTAAATTAAATGAATGAACAATA
56791008 TGGGCTGCTAGGGGCATATTCAAAATTCGGCTAAGCATGGGTGTCTTGAAATTTACATGAATTTG
66 TGGGCTGCTAGGGGCATATTCAAAATTCGGCTAAGCATGGGTGTCTTGAAATTTACATGAATTTG
*
56791073 GGATTTTTTGT
131 GGATTTTATGT
56791084 AATAAGGATTAAATTGAGAAATGTTAAAATAGTGGTTGAAATGTAAATTAAATGAATGAACAATA
1 AATAAGGATTAAATTGAGAAATGTTAAAATAGTGGTTGAAATGTAAATTAAATGAATGAACAATA
*
56791149 TGGGCTGCTAGGGGCATATTCATAATTCGGCTAAGCATGGGTGTCTTGAAATTTACATGAATTTG
66 TGGGCTGCTAGGGGCATATTCAAAATTCGGCTAAGCATGGGTGTCTTGAAATTTACATGAATTTG
*
56791214 TGATTTTATGT
131 GGATTTTATGT
* *
56791225 AATAAGGACTAAATTGTAAAAATGT
1 AATAAGGATTAAATTG-AGAAATGT
56791250 GAAAGTTTAG
Statistics
Matches: 160, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
141 153 0.96
142 7 0.04
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.33
Consensus pattern (141 bp):
AATAAGGATTAAATTGAGAAATGTTAAAATAGTGGTTGAAATGTAAATTAAATGAATGAACAATA
TGGGCTGCTAGGGGCATATTCAAAATTCGGCTAAGCATGGGTGTCTTGAAATTTACATGAATTTG
GGATTTTATGT
Found at i:56793361 original size:42 final size:42
Alignment explanation
Indices: 56793314--56793477 Score: 181
Period size: 42 Copynumber: 3.9 Consensus size: 42
56793304 TTAGGGTTAC
*
56793314 TGAGACTATGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
*
56793356 TGAGACT-TCGTGTAAGACCGTATCTGGGATATGGCATCGATGA
1 TGAGACTAT-GTGTAAGACCATATCTGGGATATGGCATCGAT-A
* * * * *
56793399 -GAGATTTTGTGTAAGACCGTAGCTGGGTTATTGGCATCGATA
1 TGAGACTATGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* **
56793441 CGAGA-TGACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGACT-ATGTGTAAGACCATATCTGGGATATGGCAT
56793478 TGGTATGGTA
Statistics
Matches: 105, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
41 1 0.01
42 70 0.67
43 34 0.32
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.29
Consensus pattern (42 bp):
TGAGACTATGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:56793439 original size:85 final size:84
Alignment explanation
Indices: 56793322--56793477 Score: 215
Period size: 85 Copynumber: 1.8 Consensus size: 84
56793312 ACTGAGACTA
* * * * *
56793322 TGTGTAAGACCATATCTAGGATATGGCATCGATATGAGACT-TCGTGTAAGACCGTATCTGGGAT
1 TGTGTAAGACCATAGCTAGGATATGGCATCGATACGAGA-TGACATGTAAGACCATATCTGGGAT
56793386 ATGGCATCGATGAGAGATTT
65 ATGGCATCGATGAGAGATTT
* * *
56793406 TGTGTAAGACCGTAGCTGGGTTATTGGCATCGATACGAGATGACATGTAAGACCATATCTGGGAT
1 TGTGTAAGACCATAGCTAGGATA-TGGCATCGATACGAGATGACATGTAAGACCATATCTGGGAT
56793471 ATGGCAT
65 ATGGCAT
56793478 TGGTATGGTA
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 20 0.32
85 42 0.68
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (84 bp):
TGTGTAAGACCATAGCTAGGATATGGCATCGATACGAGATGACATGTAAGACCATATCTGGGATA
TGGCATCGATGAGAGATTT
Found at i:56794321 original size:200 final size:200
Alignment explanation
Indices: 56793978--56794377 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
56793968 ATGAGTTGGC
56793978 CTATATTGGTTGATAATTCATTTTGTAAATGGCCATTTGGAATTGGCTAATATTGGTCTAAGTAT
1 CTATATTGGTTGATAATTCATTTTGTAAATGGCCATTTGGAATTGGCTAATATTGGTCTAAGTAT
56794043 ATATGGATATGATGATGTTTTTATGGATGTGAAAATTTGCATGGTTTAAGTTGATAAGTATGCGG
66 ATATGGATATGATGATGTTTTTATGGATGTGAAAATTTGCATGGTTTAAGTTGATAAGTATGCGG
56794108 TGTTCGTATGTGGTAAATGGTAGCATGTGAATGATGTGTGGAAGTCTTAATTGTGGCTGAATTGG
131 TGTTCGTATGTGGTAAATGGTAGCATGTGAATGATGTGTGGAAGTCTTAATTGTGGCTGAATTGG
56794173 TTGAA
196 TTGAA
56794178 CTATATTGGTTGATAATTCATTTTGTAAATGGCCATTTGGAATTGGCTAATATTGGTCTAAGTAT
1 CTATATTGGTTGATAATTCATTTTGTAAATGGCCATTTGGAATTGGCTAATATTGGTCTAAGTAT
56794243 ATATGGATATGATGATGTTTTTATGGATGTGAAAATTTGCATGGTTTAAGTTGATAAGTATGCGG
66 ATATGGATATGATGATGTTTTTATGGATGTGAAAATTTGCATGGTTTAAGTTGATAAGTATGCGG
*
56794308 TGTTCGTATGTGGTAAATGGTAGCATGTGAATGATGTGTGGATGTCTTAATTGTGGCTGAATTGG
131 TGTTCGTATGTGGTAAATGGTAGCATGTGAATGATGTGTGGAAGTCTTAATTGTGGCTGAATTGG
56794373 TTGAA
196 TTGAA
56794378 TGTAATTACT
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.40
Consensus pattern (200 bp):
CTATATTGGTTGATAATTCATTTTGTAAATGGCCATTTGGAATTGGCTAATATTGGTCTAAGTAT
ATATGGATATGATGATGTTTTTATGGATGTGAAAATTTGCATGGTTTAAGTTGATAAGTATGCGG
TGTTCGTATGTGGTAAATGGTAGCATGTGAATGATGTGTGGAAGTCTTAATTGTGGCTGAATTGG
TTGAA
Found at i:56797686 original size:54 final size:54
Alignment explanation
Indices: 56797624--56797732 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
56797614 TCAATATCAT
56797624 ACTTACTTCACATTACCAACCCTTTTATTCATAAACAAAGATCAACTTAGCCAA
1 ACTTACTTCACATTACCAACCCTTTTATTCATAAACAAAGATCAACTTAGCCAA
*
56797678 ACTTACTTCACATTACCAACCCTTTTATTCATACACAAAGATCAACTTAGCCAA
1 ACTTACTTCACATTACCAACCCTTTTATTCATAAACAAAGATCAACTTAGCCAA
56797732 A
1 A
56797733 GGCCGGTAGC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.29
Consensus pattern (54 bp):
ACTTACTTCACATTACCAACCCTTTTATTCATAAACAAAGATCAACTTAGCCAA
Found at i:56797953 original size:40 final size:40
Alignment explanation
Indices: 56797883--56798101 Score: 214
Period size: 40 Copynumber: 5.5 Consensus size: 40
56797873 AAATCACGTA
* * **
56797883 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGAACTTAACCCGGATTTAG-TAACTCGCACAAATG
* *
56797922 CCTTCGGAACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACAAATG
56797962 CCTTC-GAGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGA-ACTTAACCCGGATTTAGTAACTCGCACAAATG
* *
56798002 CCTTCGGGACTTAACCTGGATTTAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
* ** * * * *
56798042 CCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGAACTTAACCCGGATTTAGTAAC-TCGCACAAATG
* *
56798082 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGAACTTAACCCGGA
56798102 CATCATTCAA
Statistics
Matches: 151, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
39 15 0.10
40 125 0.83
41 11 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:56802378 original size:40 final size:40
Alignment explanation
Indices: 56802278--56802502 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
56802268 GCTCCTCGTT
* * ** *
56802278 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
56802318 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
56802357 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
56802397 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
56802437 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
56802478 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56802503 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 124 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:56810167 original size:129 final size:127
Alignment explanation
Indices: 56809930--56810189 Score: 439
Period size: 129 Copynumber: 2.0 Consensus size: 127
56809920 AGTGAAAATG
*
56809930 ATTTGTGATATATATAAGTTAAAATGAGGTTAGCACAAATAATGTGTGAAAGAGTGAAATTAGCA
1 ATTTGTGATATATATAAGTTAAAATGAGGTTAGCACAAAGAATGTGTGAAAGAGTGAAATTAGCA
*
56809995 TTAAAACTGTTTTGGACAGTATCAGTGACGTAATTTTTAAAAAATCACAAAAAATAGAAGGA
66 TTAAAACTGTTTTGAACAGTATCAGTGACGTAATTTTTAAAAAATCACAAAAAATAGAAGGA
*
56810057 ATTTGTGATATATATATAAGTTAAAATGAGGTTAGTACAAAGAATGTGTGAAAGAGTGAAATTAG
1 ATTTGTG--ATATATATAAGTTAAAATGAGGTTAGCACAAAGAATGTGTGAAAGAGTGAAATTAG
* * * *
56810122 CATTAAAACTGTTTTGAACAGTATCAGTGTCGTGATTTTTCAAAAATCACCAAAAATAGAAGGA
64 CATTAAAACTGTTTTGAACAGTATCAGTGACGTAATTTTTAAAAAATCACAAAAAATAGAAGGA
56810186 ATTT
1 ATTT
56810190 AATTAGAGGT
Statistics
Matches: 124, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
127 7 0.06
129 117 0.94
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (127 bp):
ATTTGTGATATATATAAGTTAAAATGAGGTTAGCACAAAGAATGTGTGAAAGAGTGAAATTAGCA
TTAAAACTGTTTTGAACAGTATCAGTGACGTAATTTTTAAAAAATCACAAAAAATAGAAGGA
Found at i:56822701 original size:47 final size:47
Alignment explanation
Indices: 56822647--56822840 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
56822637 TAGGAATTTT
** * * *
56822647 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
56822694 ATGTGATGAATGTGAACATGCATATAGGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
56822741 ATGTGATGAATGTGACCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
56822788 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
56822835 ATGTGA
1 ATGTGA
56822841 ATATGTATGA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:56822796 original size:25 final size:25
Alignment explanation
Indices: 56822720--56822796 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
56822710 CATGCATATA
56822720 GGTGATAAGGCCGAATGGCCAATGT
1 GGTGATAAGGCCGAATGGCCAATGT
* *
56822745 GATGA-ATGTGACC--AT-G-CATATGT
1 GGTGATAAG-G-CCGAATGGCCA-ATGT
56822768 -GTGATAAGGCCGAATGGCCAATGT
1 GGTGATAAGGCCGAATGGCCAATGT
56822792 GGTGA
1 GGTGA
56822797 ATATGAACAT
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
21 2 0.05
22 6 0.15
23 9 0.23
24 9 0.23
25 11 0.28
26 2 0.05
ACGTcount: A:0.29, C:0.14, G:0.34, T:0.23
Consensus pattern (25 bp):
GGTGATAAGGCCGAATGGCCAATGT
Found at i:56822874 original size:94 final size:94
Alignment explanation
Indices: 56822667--56822977 Score: 267
Period size: 94 Copynumber: 3.3 Consensus size: 94
56822657 TGTGAATGTG
* * * * * * * *
56822667 TATATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAACATGCATATAGGTGATAAGGCC
1 TATATATGTGATAAAGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCC
* * *
56822732 GAATGGCCAATGTG-ATGAATG--TGACCATG
66 GAATGGCTAATGTGAAT--ATGTATGA-GATA
* * *
56822761 CATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCC
1 TATATATGTGATAAAGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCC
56822826 GAATGGCTAATGTGAATATGTATGAGATA
66 GAATGGCTAATGTGAATATGTATGAGATA
* * * *
56822855 TATATATGTGGTAAAGCCGAATGGCTAATGTGAAGT-ATGTATGAGATATGC--ATATGTGGTAA
1 TATATATGTGATAAAGCCGAATGGCCAATGTG--GTGA-ATATGA-ACATGCATATATGTGGTAA
** *
56822917 AGCTAAATGG-TCAATGTGAAATATATATATGAGATA
62 AGCCGAATGGCT-AATGTG--A-ATATGTATGAGATA
* *
56822953 TGTATATGTGGTAAAGCCGAATGGC
1 TATATATGTGATAAAGCCGAATGGC
56822978 TAGTGTGAAA
Statistics
Matches: 183, Mismatches: 23, Indels: 18
0.82 0.10 0.08
Matches are distributed among these distances:
93 3 0.02
94 99 0.54
95 31 0.17
96 7 0.04
97 6 0.03
98 37 0.20
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.28
Consensus pattern (94 bp):
TATATATGTGATAAAGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGGTAAAGCC
GAATGGCTAATGTGAATATGTATGAGATA
Found at i:56822971 original size:98 final size:95
Alignment explanation
Indices: 56822811--56822993 Score: 269
Period size: 98 Copynumber: 1.9 Consensus size: 95
56822801 GAACATGCAT
* *
56822811 ATATGTGGTAAAGCCGAATGGCTAATGTGAATATGTATGAGATATATATATGTGGTAAAGCCGAA
1 ATATGTGGTAAAGCCAAATGGCTAATGTGAATATATATGAGATATATATATGTGGTAAAGCCGAA
*
56822876 TGGCTAATGTGAAGTATGTATGAGATATGC
66 TGGCTAATGTGAAATATGTATGAGATATGC
* *
56822906 ATATGTGGTAAAGCTAAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCAAATGGCT-AATGTG--A-ATATATATGAGATATATATATGTGGTAAAGC
*
56822970 CGAATGGCTAGTGTGAAATATGTA
62 CGAATGGCTAATGTGAAATATGTA
56822994 GGCGATGTGC
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
94 1 0.01
95 25 0.32
97 1 0.01
98 51 0.65
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (95 bp):
ATATGTGGTAAAGCCAAATGGCTAATGTGAATATATATGAGATATATATATGTGGTAAAGCCGAA
TGGCTAATGTGAAATATGTATGAGATATGC
Found at i:56823009 original size:50 final size:48
Alignment explanation
Indices: 56822810--56822993 Score: 264
Period size: 48 Copynumber: 3.8 Consensus size: 48
56822800 TGAACATGCA
*
56822810 TATATGTGGTAAAGCCGAATGGCTAATGTG-AATATGTATGAGATATA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
56822857 TATATGTGGTAAAGCCGAATGGCTAATGTGAAGTATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* ** *
56822905 CATATGTGGTAAAGCTAAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
56822955 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
56822994 GGCGATGTGC
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
47 31 0.26
48 46 0.38
49 4 0.03
50 38 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.32
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:56823189 original size:37 final size:37
Alignment explanation
Indices: 56823139--56823210 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
56823129 GGAAATATAT
*
56823139 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGAAGATTTTG
* *
56823176 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATAACTACGTGTGAAGATTT
56823211 CGTCTGAGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGAAGATTTTG
Found at i:56828949 original size:8 final size:9
Alignment explanation
Indices: 56828929--56828961 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
56828919 GTACAAGGCC
56828929 AAATGACCA
1 AAATGACCA
56828938 AAATGACC-
1 AAATGACCA
56828946 AAATGACCA
1 AAATGACCA
56828955 AAATGAC
1 AAATGAC
56828962 TTATTTTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.55, C:0.21, G:0.12, T:0.12
Consensus pattern (9 bp):
AAATGACCA
Found at i:56828949 original size:17 final size:17
Alignment explanation
Indices: 56828927--56828961 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
56828917 AGGTACAAGG
56828927 CCAAATGACCAAAATGA
1 CCAAATGACCAAAATGA
56828944 CCAAATGACCAAAATGA
1 CCAAATGACCAAAATGA
56828961 C
1 C
56828962 TTATTTTTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.26, G:0.11, T:0.11
Consensus pattern (17 bp):
CCAAATGACCAAAATGA
Found at i:56831224 original size:42 final size:43
Alignment explanation
Indices: 56831178--56831279 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
56831168 AGTGGTCCAG
* *
56831178 GTTCATGATATATGTG-GCATCCAAGCTCGTTAAGAGGTCCGA
1 GTTCATGATAGATGCGAGCATCCAAGCTCGTTAAGAGGTCCGA
* * * * *
56831220 GTTCATTATAGATGCGAGCATCCGAGCTTGTTGAGAGGTTCGA
1 GTTCATGATAGATGCGAGCATCCAAGCTCGTTAAGAGGTCCGA
* *
56831263 GTTCATTATGGATGCGA
1 GTTCATGATAGATGCGA
56831280 TACATGTGAT
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 13 0.25
43 38 0.75
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
GTTCATGATAGATGCGAGCATCCAAGCTCGTTAAGAGGTCCGA
Found at i:56831257 original size:43 final size:43
Alignment explanation
Indices: 56831194--56831279 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
56831184 GATATATGTG
56831194 GCATCCAAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCGA
1 GCATCCAAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCGA
* * * * *
56831237 GCATCCGAGCTTGTTGAGAGGTTCGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCGA
56831280 TACATGTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (43 bp):
GCATCCAAGCTCGTTAAGAGGTCCGAGTTCATTATAGATGCGA
Found at i:56841126 original size:43 final size:43
Alignment explanation
Indices: 56841071--56841156 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
56841061 GATATATATG
56841071 GCATCCAAGCTCGTTGAGAGGTCCGACTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGAGGTCCGACTTCATTATGGATGCGA
** *
56841114 GCATCCAAGCTCGTTGAGAGGTTTGAGTTCATTATGGATGCGA
1 GCATCCAAGCTCGTTGAGAGGTCCGACTTCATTATGGATGCGA
56841157 TACATGTGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (43 bp):
GCATCCAAGCTCGTTGAGAGGTCCGACTTCATTATGGATGCGA
Found at i:56849257 original size:28 final size:28
Alignment explanation
Indices: 56849191--56849343 Score: 220
Period size: 28 Copynumber: 5.5 Consensus size: 28
56849181 ATATTAAGTC
* * *
56849191 CGCACACTCAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
56849218 CGAACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
56849246 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
56849274 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
56849302 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
56849329 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56849344 GCACCATTTA
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 37 0.32
28 77 0.68
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:56849295 original size:83 final size:83
Alignment explanation
Indices: 56849191--56849343 Score: 227
Period size: 83 Copynumber: 1.8 Consensus size: 83
56849181 ATATTAAGTC
* *
56849191 CGCACACTCAGTGCTATATAATC-AGCTCGAACACCTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATCAAACTCGAACACCTAGTGCTACATAATC-AACTCGCACACTT
56849255 AGTGCTACATAGTCAAACT
65 AGTGCTACATAGTCAAACT
* * * * *
56849274 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAAACTCGAACACCTAGTGCTACATAATCAACTCGCACACTTA
56849339 GTGCT
66 GTGCT
56849344 GCACCATTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
83 39 0.63
84 23 0.37
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAAACTCGAACACCTAGTGCTACATAATCAACTCGCACACTTA
GTGCTACATAGTCAAACT
Found at i:56854246 original size:89 final size:90
Alignment explanation
Indices: 56854126--56854291 Score: 253
Period size: 89 Copynumber: 1.9 Consensus size: 90
56854116 AATAAACGAG
*
56854126 TAAGACTATAGCTAAAAGACGTTATGACATCAAAATTCTATCGAGTAAGACCATAGCTGAAAGAA
1 TAAGACTATAGCTAAAAGACGTTATGACATCAAAATTCTATCAAGTAAGACCATAGCTGAAAGAA
56854191 ATTATGGCATCAAAATTATATCGAC
66 ATTATGGCATCAAAATTATATCGAC
* * ** * *
56854216 TAAGAC-ATAGCTGAAAGACGTTATGGCATCACGATTCTGTCAAGTAAGACCATAGCTGAAAGAC
1 TAAGACTATAGCTAAAAGACGTTATGACATCAAAATTCTATCAAGTAAGACCATAGCTGAAAGAA
*
56854280 GTTATGGCATCA
66 ATTATGGCATCA
56854292 CGAATCAAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
89 62 0.91
90 6 0.09
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (90 bp):
TAAGACTATAGCTAAAAGACGTTATGACATCAAAATTCTATCAAGTAAGACCATAGCTGAAAGAA
ATTATGGCATCAAAATTATATCGAC
Found at i:56854294 original size:45 final size:45
Alignment explanation
Indices: 56854122--56854291 Score: 234
Period size: 45 Copynumber: 3.8 Consensus size: 45
56854112 ATACAATAAA
* * *
56854122 CGAGTAAGACTATAGCTAAAAGACGTTATGACATCAAAATTCTAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTAT
** *
56854167 CGAGTAAGACCATAGCTGAAAGAAATTATGGCATCAAAATTATAT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTAT
* ** *
56854212 CGACTAAGA-CATAGCTGAAAGACGTTATGGCATCACGATTCTGT
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTAT
*
56854256 CAAGTAAGACCATAGCTGAAAGACGTTATGGCATCA
1 CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCA
56854292 CGAATCAAAG
Statistics
Matches: 109, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 36 0.33
45 73 0.67
ACGTcount: A:0.39, C:0.17, G:0.19, T:0.24
Consensus pattern (45 bp):
CGAGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTAT
Found at i:56854309 original size:89 final size:89
Alignment explanation
Indices: 56854126--56854322 Score: 227
Period size: 89 Copynumber: 2.2 Consensus size: 89
56854116 AATAAACGAG
* *
56854126 TAAGACTATAGCTAAAAGACGTTATGACATCAAAATTCTATCGAGTAAGACCATAGCTGAAAGAA
1 TAAGAC-ATAGCTGAAAGACGTTATGACATCAAAATTCTATCAAGTAAGACCATAGCTGAAAGAA
* * *
56854191 ATTATGGCATCAAAATTATATCGAC
65 ATTATGGCATCAAAATCATATAGAA
* ** * **
56854216 TAAGACATAGCTGAAAGACGTTATGGCATCACGATTCTGTCAAGTAAGACCATAGCTGAAAGACG
1 TAAGACATAGCTGAAAGACGTTATGACATCAAAATTCTATCAAGTAAGACCATAGCTGAAAGAAA
*
56854281 TTATGGCATCACGAATCA-A-AGAAA
66 TTATGGCATCA-AAATCATATAG-AA
*
56854305 TAAGACCATAGTTGAAAG
1 TAAGA-CATAGCTGAAAG
56854323 CCACTATGGG
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
88 1 0.01
89 69 0.76
90 21 0.23
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (89 bp):
TAAGACATAGCTGAAAGACGTTATGACATCAAAATTCTATCAAGTAAGACCATAGCTGAAAGAAA
TTATGGCATCAAAATCATATAGAA
Found at i:56854331 original size:45 final size:45
Alignment explanation
Indices: 56854171--56854423 Score: 149
Period size: 45 Copynumber: 5.6 Consensus size: 45
56854161 TTCTATCGAG
* * * ** * * *
56854171 TAAGACCATAGCTGAAAGAAATTATGGCATCAAAAT-TATATCGAC
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGATGCAAAT-GAA
* ** * ** *
56854216 TAAGA-CATAGCTGAAAGACGTTATGGCATCACGATTC-TGTCAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGATGCAAATGAA
* **
56854259 GTAAGACCATAGCTGAAAGACGTTATGGCATCACGAAT-CAAA-GAAA
1 -TAAGACCATAGTTGAAAGACACTATGGCATCACG-ATGCAAATG-AA
* * * *
56854305 TAAGACCATAGTTGAAAGCCACTATGGGAACACGATGGAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGATGCAAATGAA
* * * * *
56854350 TAAGACCATGGTTGAAAGACACTATGGCATTAAGACG-AGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCATCACGATGCA-AATGAA
* * *
56854395 TAACACCATGGTTGAAAGACACCATGGCA
1 TAAGACCATAGTTGAAAGACACTATGGCA
56854424 CTCTTTGATC
Statistics
Matches: 171, Mismatches: 28, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
43 1 0.01
44 36 0.21
45 129 0.75
46 5 0.03
ACGTcount: A:0.42, C:0.17, G:0.21, T:0.21
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCATCACGATGCAAATGAA
Found at i:56857817 original size:48 final size:48
Alignment explanation
Indices: 56857746--56858059 Score: 307
Period size: 48 Copynumber: 6.5 Consensus size: 48
56857736 TATGTGTGCT
* * *
56857746 AGTGTAAGACCATGTCTAGGACATGGCAACGACCATATTATGAGGGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
* * * * *
56857794 AGTGTAAGACCATGTTTGGGACATGGCATTGGCAATGTTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
* *
56857842 AGTGTAAGACTATGTCTGGGACATGGCATC-AGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCATATTATGAGAGCC
* * * * * *
56857890 AGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
* * *
56857938 AGAGTAAGACCATGTCTGGGACATGGCATCGA-CAT-TGA-GACAAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATG---AGAGCC
* * * * *
56857986 AGTGTAAGACCATGTCTGGGACATGGCATTGGCC-TCGA-CATGTGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAT--ATTATGAGAGCC
*
56858034 AGTGTAAGACCATGTCTAGGACATGG
1 AGTGTAAGACCATGTCTGGGACATGG
56858060 AATGGTAATT
Statistics
Matches: 222, Mismatches: 34, Indels: 20
0.80 0.12 0.07
Matches are distributed among these distances:
45 1 0.00
46 2 0.01
47 2 0.01
48 213 0.96
49 2 0.01
50 1 0.00
51 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATATTATGAGAGCC
Found at i:56857914 original size:96 final size:95
Alignment explanation
Indices: 56857743--56858059 Score: 381
Period size: 96 Copynumber: 3.3 Consensus size: 95
56857733 TGATATGTGT
* * *
56857743 GCTAGTGTAAGACCATGTCTAGGACATGGCAACGACCATATTATGAGGGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCG-CCACATTATGAGAGCCAGTGTAAGACCATG
56857808 TTTGGGACATGGCATTGGCAATGTTATGAGA
65 TTTGGGACATGGCATTGGCAATGTTATGAGA
* * *
56857839 GCCAGTGTAAGACTATGTCTGGGACATGGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATC-GCCACATTATGAGAGCCAGTGTAAGACCATG
* * * *
56857904 TTTGGAACATGGCATCGACAATGTTACGAGA
65 TTTGGGACATGGCATTGGCAATGTTATGAGA
* * *
56857935 GCTAGAGTAAGACCATGTCTGGGACATGGCATCG--ACATTGA-GACAAGAGCTAGTGTAAGACC
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGCCACATT-ATG---AGAGCCAGTGTAAGACC
* * ** *
56857997 ATGTCTGGGACATGGCATTGGC-CTCGACATGTGA
62 ATGTTTGGGACATGGCATTGGCAAT-GTTATGAGA
56858031 GCTAGTGTAAGACCATGTCTAGGACATGG
1 GCTAGTGTAAGACCATGTCTAGGACATGG
56858060 AATGGTAATT
Statistics
Matches: 190, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
93 6 0.03
94 1 0.01
95 2 0.01
96 180 0.95
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGCCACATTATGAGAGCCAGTGTAAGACCATGT
TTGGGACATGGCATTGGCAATGTTATGAGA
Found at i:56858006 original size:144 final size:144
Alignment explanation
Indices: 56857746--56858059 Score: 380
Period size: 144 Copynumber: 2.2 Consensus size: 144
56857736 TATGTGTGCT
* * * * *
56857746 AGTGTAAGACCATGTCTAGGACATGGCAACGACCATATTATGAGGGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTAGGACATGGCAACGACAATATTACGAGAGCCAGAGTAAGACCATGTCT
* * ** ** *
56857811 GGGACATGGCATTGGCAATGTTATGAGAGCCAGTGTAAGACTATGTCTGGGACATGGCATCAGCC
66 GGGACATGGCATCGACAATGAGACAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCC
56857876 ACATTATGAGAGCC
131 ACATTATGAGAGCC
* * * *
56857890 AGTGTAAGACCATGT-TTGGAACATGGCATCGACAATGTTACGAGAGCTAGAGTAAGACCATGTC
1 AGTGTAAGACCATGTCTAGG-ACATGGCAACGACAATATTACGAGAGCCAGAGTAAGACCATGTC
* * **
56857954 TGGGACATGGCATCGACATTGAGACAAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGC
65 TGGGACATGGCATCGACAATGAGACAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGC
* * * *
56858019 CTCGA-CATGTGAGCT
130 CAC-ATTATGAGAGCC
56858034 AGTGTAAGACCATGTCTAGGACATGG
1 AGTGTAAGACCATGTCTAGGACATGG
56858060 AATGGTAATT
Statistics
Matches: 142, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
143 3 0.02
144 135 0.95
145 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.23
Consensus pattern (144 bp):
AGTGTAAGACCATGTCTAGGACATGGCAACGACAATATTACGAGAGCCAGAGTAAGACCATGTCT
GGGACATGGCATCGACAATGAGACAAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCC
ACATTATGAGAGCC
Found at i:56866516 original size:65 final size:65
Alignment explanation
Indices: 56866438--56866568 Score: 226
Period size: 65 Copynumber: 2.0 Consensus size: 65
56866428 ACTTAAACTT
* * *
56866438 TAGGGAAACAACCTAGGATTTTAAATTCTTAAAGATCAACTTATCATGCTTGATTCTCTAATGTC
1 TAGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACATATCATGCTTGATTCTCTAATGTC
*
56866503 TAGGGAAAGAACCTAAGATTTTAAATTCTTAAAAATCAACATATCATGCTTGATTCTCTAATGTC
1 TAGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACATATCATGCTTGATTCTCTAATGTC
56866568 T
1 T
56866569 TAAAGTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (65 bp):
TAGGGAAACAACCTAAGATTTTAAATTCTTAAAAATCAACATATCATGCTTGATTCTCTAATGTC
Found at i:56878360 original size:39 final size:40
Alignment explanation
Indices: 56878265--56878526 Score: 301
Period size: 39 Copynumber: 6.7 Consensus size: 40
56878255 TTGAATGATG
*
56878265 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* * *
56878303 ATCCGGACTAAGAT-CCGAAGGCATTGGTGCTAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56878344 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56878383 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56878422 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56878461 TCCGGGTTAAGTCCCGAAGGCATTTGGGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56878500 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56878527 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 16, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
39 128 0.65
40 58 0.29
41 11 0.06
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56878548 original size:79 final size:79
Alignment explanation
Indices: 56878317--56878559 Score: 239
Period size: 78 Copynumber: 3.1 Consensus size: 79
56878307 GGACTAAGAT
* * **
56878317 CCGAAGGCA-TTGGTGCTAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGAT-ACT
1 CCGAAGGCATTTGG-GCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAG-TGACT
* * *
56878380 AATTTCGGGCTAAG-C
64 AAATCCGGGTTAAGTC
* * ** *
56878395 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGGGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
56878460 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
*
56878474 CCGAAGGCATTTGGGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGGGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* * *
56878536 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAGTC
56878553 CCGAAGG
1 CCGAAGG
56878560 TACGTGATTT
Statistics
Matches: 144, Mismatches: 14, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
77 1 0.01
78 69 0.48
79 49 0.34
80 25 0.17
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGGGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:56879352 original size:29 final size:29
Alignment explanation
Indices: 56879314--56879371 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
56879304 TTAAATAGTG
56879314 AATAAATTATGTAAACAAACCTTGATGAA
1 AATAAATTATGTAAACAAACCTTGATGAA
56879343 AATAAATTATGTAAACAAACCTTGATGAA
1 AATAAATTATGTAAACAAACCTTGATGAA
56879372 TCTACTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (29 bp):
AATAAATTATGTAAACAAACCTTGATGAA
Found at i:56883984 original size:47 final size:47
Alignment explanation
Indices: 56883915--56884075 Score: 195
Period size: 47 Copynumber: 3.4 Consensus size: 47
56883905 ACTGACGCCC
* *
56883915 TGTCCCATACATGGTCTTACACTGGCTCATATCTCTAGTCAATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTCATATCTCTAGTCGATGCCA
* *
56883962 TGTCCCAGACATGGTCTTACACTGACT-ATTATCTCGTAGCCGATG-CA
1 TGTCCCAGACATGGTCTTACACTGGCTCA-TATCTC-TAGTCGATGCCA
* *
56884009 TGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTCAATGTCGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCTA-GTCGATGCCA
*
56884056 TGTCCTAGACATGGTCTTAC
1 TGTCCCAGACATGGTCTTAC
56884076 GCTAGGTCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
45 2 0.02
46 24 0.24
47 58 0.59
48 14 0.14
ACGTcount: A:0.23, C:0.29, G:0.17, T:0.31
Consensus pattern (47 bp):
TGTCCCAGACATGGTCTTACACTGGCTCATATCTCTAGTCGATGCCA
Found at i:56886214 original size:35 final size:35
Alignment explanation
Indices: 56886175--56886247 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
56886165 TGGATTAGGG
*
56886175 TGTGTACTAATGCAAGAAGGAAAATTGATAGCCTA
1 TGTGTACTAATGCAAGAAGGAAAAGTGATAGCCTA
*
56886210 TGTGTACTTATGCAAGAAGGAAAAGTGATAGCCTA
1 TGTGTACTAATGCAAGAAGGAAAAGTGATAGCCTA
56886245 TGT
1 TGT
56886248 ATTTAGACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.27
Consensus pattern (35 bp):
TGTGTACTAATGCAAGAAGGAAAAGTGATAGCCTA
Found at i:56891919 original size:39 final size:40
Alignment explanation
Indices: 56891824--56892085 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
56891814 TTGAATGATG
*
56891824 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
56891862 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
56891903 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56891942 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
56891981 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
56892020 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
56892059 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56892086 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
39 130 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:56895176 original size:29 final size:29
Alignment explanation
Indices: 56895143--56895200 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
56895133 TTAAATAGTG
56895143 AATAAATTATGTAAACAAACCTTGATGAA
1 AATAAATTATGTAAACAAACCTTGATGAA
56895172 AATAAATTATGTAAACAAACCTTGATGAA
1 AATAAATTATGTAAACAAACCTTGATGAA
56895201 TCTACTTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (29 bp):
AATAAATTATGTAAACAAACCTTGATGAA
Found at i:56899276 original size:45 final size:45
Alignment explanation
Indices: 56899227--56899441 Score: 250
Period size: 45 Copynumber: 4.8 Consensus size: 45
56899217 ACCAGAAATA
* * * *
56899227 AGTAAGACTATAGCTGAAAGACATTATGACATCAAAATTCTCTCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTATCG
* *
56899272 AGTAAGACCATAGCTGAAAGATGTTATGGCATCAAAATTATATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTATCG
* * * * * * ** *
56899317 ACTAAAACCATAGCTAAAAGGCATTATGGTATCACGATTCTATTG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTATCG
* **
56899362 AGTAAGACCATAGCTGAAAGATGTTATGGCATCATGATTCTATCG
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTATCG
* *
56899407 AGTAAGAACATAGCTGAAAGACGTTATGGGATCAA
1 AGTAAGACCATAGCTGAAAGACGTTATGGCATCAA
56899442 TAATCAAAGA
Statistics
Matches: 140, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 140 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGTTATGGCATCAAAATTCTATCG
Found at i:56899472 original size:90 final size:90
Alignment explanation
Indices: 56899274--56899464 Score: 224
Period size: 90 Copynumber: 2.1 Consensus size: 90
56899264 TTCTCTCGAG
*
56899274 TAAGACCATAGCTGAAAGATGTTATGGCATCAAAATTATATCGACTAAAACCATAGCTAAAAGGC
1 TAAGACCATAGCTGAAAGATGTTATGGCATCAAAATTATATCGACTAAAACCATAGCTAAAAGAC
* * * ** *
56899339 ATTATGGTATCACGATTCTATTGAG
66 ATTATGGGATCAAGAATCTAAAGAA
** * * *
56899364 TAAGACCATAGCTGAAAGATGTTATGGCATCATGATTCTATCGAGTAAGAA-CATAGCTGAAAGA
1 TAAGACCATAGCTGAAAGATGTTATGGCATCAAAATTATATCGACTAA-AACCATAGCTAAAAGA
* *
56899428 CGTTATGGGATCAATAATC-AAAGAAA
65 CATTATGGGATCAAGAATCTAAAG-AA
56899454 TAAGACCATAG
1 TAAGACCATAG
56899465 TTTAAAGACA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
89 2 0.02
90 81 0.95
91 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (90 bp):
TAAGACCATAGCTGAAAGATGTTATGGCATCAAAATTATATCGACTAAAACCATAGCTAAAAGAC
ATTATGGGATCAAGAATCTAAAGAA
Found at i:56899480 original size:45 final size:43
Alignment explanation
Indices: 56899421--56899610 Score: 141
Period size: 45 Copynumber: 4.2 Consensus size: 43
56899411 AGAACATAGC
* * *
56899421 TGAAAGACGTTATGGGATCAATAATCAAAGAAATAAGACCATAGT
1 TGAAAGACATTATGGCATCAATAAT-AAA-AAATAAGACCATGGT
* * **
56899466 TTAAAGACACTATGGGGACA-CAATGGAA-AATGAATAAGACCATGGT
1 TGAAAGACATTAT--GG-CATCAAT--AATAAAAAATAAGACCATGGT
*
56899512 TGAAAGACATTATGGCATCAATACTAGAATAAATAAGACCATGGT
1 TGAAAGACATTATGGCATCAATAATA-AA-AAATAAGACCATGGT
* * * * * *
56899557 TGAAAGATATTATGGCATCAAGACTAGAATAAGTAAGACAATAGT
1 TGAAAGACATTATGGCATCAATAATA-AA-AAATAAGACCATGGT
56899602 TGAAAGACA
1 TGAAAGACA
56899611 CCATGGCACT
Statistics
Matches: 118, Mismatches: 18, Indels: 18
0.77 0.12 0.12
Matches are distributed among these distances:
42 1 0.01
43 3 0.03
44 7 0.06
45 72 0.61
46 24 0.20
47 8 0.07
48 1 0.01
49 2 0.02
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.22
Consensus pattern (43 bp):
TGAAAGACATTATGGCATCAATAATAAAAAATAAGACCATGGT
Found at i:56899480 original size:135 final size:135
Alignment explanation
Indices: 56899227--56899480 Score: 314
Period size: 135 Copynumber: 1.9 Consensus size: 135
56899217 ACCAGAAATA
* * *
56899227 AGTAAGACTATAGCTGAAAGACATTATGACATCAAAATTCTCTCGAGTAAGACCATAGCTGAAAG
1 AGTAAGACCATAGCTGAAAGACATTATGACATCAAAATTCTATCGAGTAAGAACATAGCTGAAAG
* * * * * *
56899292 ATGTTATGGCATCAAAATTATATCGACTAAAACCATAGCTAAAAGGCATTATGGTATCACGATTC
66 ACGTTATGGCATCAAAATCATATAGAATAAAACCATAGCTAAAAGACACTATGGTATCACGATTC
56899357 TATTG
131 TATTG
** * **
56899362 AGTAAGACCATAGCTGAAAGATGTTATGGCATCATGATTCTATCGAGTAAGAACATAGCTGAAAG
1 AGTAAGACCATAGCTGAAAGACATTATGACATCAAAATTCTATCGAGTAAGAACATAGCTGAAAG
* * * *
56899427 ACGTTATGGGATCAATAATCA-A-AGAAATAAGACCATAGTTTAAAGACACTATGG
66 ACGTTATGGCATCAA-AATCATATAG-AATAAAACCATAGCTAAAAGACACTATGG
56899481 GGACACAATG
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
134 1 0.01
135 94 0.95
136 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (135 bp):
AGTAAGACCATAGCTGAAAGACATTATGACATCAAAATTCTATCGAGTAAGAACATAGCTGAAAG
ACGTTATGGCATCAAAATCATATAGAATAAAACCATAGCTAAAAGACACTATGGTATCACGATTC
TATTG
Found at i:56899618 original size:45 final size:45
Alignment explanation
Indices: 56899498--56899610 Score: 181
Period size: 45 Copynumber: 2.5 Consensus size: 45
56899488 ATGGAAAATG
*
56899498 AATAAGACCATGGTTGAAAGACATTATGGCATCAATACTAGAATA
1 AATAAGACCATGGTTGAAAGACATTATGGCATCAAGACTAGAATA
*
56899543 AATAAGACCATGGTTGAAAGATATTATGGCATCAAGACTAGAATA
1 AATAAGACCATGGTTGAAAGACATTATGGCATCAAGACTAGAATA
* * *
56899588 AGTAAGACAATAGTTGAAAGACA
1 AATAAGACCATGGTTGAAAGACA
56899611 CCATGGCACT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.23
Consensus pattern (45 bp):
AATAAGACCATGGTTGAAAGACATTATGGCATCAAGACTAGAATA
Found at i:56901956 original size:70 final size:70
Alignment explanation
Indices: 56901843--56901985 Score: 207
Period size: 70 Copynumber: 2.0 Consensus size: 70
56901833 ACCTACAAAG
*** *
56901843 AATAACCAGACTTCCTTAGATCACTCCATTGGAAACTGTACCGCCTACA-CTGAACCATTACTAA
1 AATAACCAGACTTCCTTAGATCACTCCATTGGAAACCACACCGCCCACACCT-AACCATTACTAA
56901907 TATGTA
65 TATGTA
* *
56901913 AATAACCAGACTTCCTTGGATCACTCCCTTGGAAACCACACCGCCCACACCTAACCATTACTAAT
1 AATAACCAGACTTCCTTAGATCACTCCATTGGAAACCACACCGCCCACACCTAACCATTACTAAT
*
56901978 CTGTA
66 ATGTA
56901983 AAT
1 AAT
56901986 GTTGAAATGA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 63 0.97
71 2 0.03
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.25
Consensus pattern (70 bp):
AATAACCAGACTTCCTTAGATCACTCCATTGGAAACCACACCGCCCACACCTAACCATTACTAAT
ATGTA
Found at i:56926560 original size:24 final size:25
Alignment explanation
Indices: 56926528--56926579 Score: 81
Period size: 24 Copynumber: 2.1 Consensus size: 25
56926518 AGAACCCACA
56926528 TTTCAGCTTTTCA-CCTTTTCGAC-T
1 TTTCAGCTTTTCAGCCTTTT-GACGT
56926552 TTTCAGCTTTTCAGCCTTTTGACGT
1 TTTCAGCTTTTCAGCCTTTTGACGT
56926577 TTT
1 TTT
56926580 ACATCTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 16 0.62
25 10 0.38
ACGTcount: A:0.12, C:0.25, G:0.12, T:0.52
Consensus pattern (25 bp):
TTTCAGCTTTTCAGCCTTTTGACGT
Found at i:56928259 original size:40 final size:40
Alignment explanation
Indices: 56928214--56928365 Score: 207
Period size: 40 Copynumber: 3.8 Consensus size: 40
56928204 ATAACCACAA
* * *
56928214 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
56928254 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
56928294 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
56928334 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
56928366 CATTCAAATG
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.01
40 97 0.95
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Found at i:56931713 original size:43 final size:43
Alignment explanation
Indices: 56931548--56931716 Score: 166
Period size: 43 Copynumber: 4.0 Consensus size: 43
56931538 ATATAGTACA
* * ** *
56931548 ATGCCAACGTCCCAAACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGAGATCACATATCG
* * *
56931591 ATGCC-ACTATCCCAGACAGGGTCTTACATG-GATCAAATA-CG
1 ATGCCAAC-GTCCCAGACATGGTCTTACATGAGATCACATATCG
** * * *
56931632 ATGCGGATGTCCCAGACATGGTCTTCCACGTA-ATCACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATG-AGATCACATATCG
*
56931675 ATGCCAACGTCCCAGACATGGTCTTACATGAGAACACATATC
1 ATGCCAACGTCCCAGACATGGTCTTACATGAGATCACATATC
56931717 AAAAACCCTA
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 24 0.24
42 17 0.17
43 59 0.59
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGAGATCACATATCG
Found at i:56932861 original size:14 final size:15
Alignment explanation
Indices: 56932844--56932872 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56932834 TCACGAAAAT
56932844 TTCACACAT-ATAAA
1 TTCACACATAATAAA
56932858 TTCACACATAATAAA
1 TTCACACATAATAAA
56932873 CATAGGAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:56937449 original size:38 final size:40
Alignment explanation
Indices: 56937402--56937515 Score: 133
Period size: 38 Copynumber: 2.9 Consensus size: 40
56937392 AGTATGAGTT
* *
56937402 ATCGTGTAAGACCATATCTGGGATATGGCGTTGATAT-G-
1 ATCGTGTAAGACCATATCTGGGATATGGCGTCGAAATAGA
* *
56937440 ATCGTGTAAGACCATGTCTGGGACATGGCGTCGAAATGAGA
1 ATCGTGTAAGACCATATCTGGGATATGGCGTCGAAAT-AGA
* * *
56937481 ATTCGTATAAGACCATATCTCGGATATGGCATCGA
1 A-TCGTGTAAGACCATATCTGGGATATGGCGTCGA
56937516 TGTGAGATCC
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
38 33 0.52
40 1 0.02
41 1 0.02
42 28 0.44
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCGTGTAAGACCATATCTGGGATATGGCGTCGAAATAGA
Found at i:56937522 original size:42 final size:42
Alignment explanation
Indices: 56937347--56937522 Score: 130
Period size: 42 Copynumber: 4.1 Consensus size: 42
56937337 CATTAGGTTG
*
56937347 ATGAG-ATCTCGTATAAGACCATATCTAGGATATGGCATCGGTGTTAGT
1 ATGAGAAT-TCGTATAAGACCATATCTGGGATATGGCATC---G--A-T
* * * *
56937395 ATGAG-TTATCGTGTAAGACCATATCTGGGATATGGCGTTGAT
1 ATGAGAAT-TCGTATAAGACCATATCTGGGATATGGCATCGAT
* * * * *
56937437 AT--G-A-TCGTGTAAGACCATGTCTGGGACATGGCGTCGAA
1 ATGAGAATTCGTATAAGACCATATCTGGGATATGGCATCGAT
*
56937475 ATGAGAATTCGTATAAGACCATATCTCGGATATGGCATCGAT
1 ATGAGAATTCGTATAAGACCATATCTGGGATATGGCATCGAT
*
56937517 GTGAGA
1 ATGAGA
56937523 TCCCATGTAC
Statistics
Matches: 106, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
38 32 0.30
40 2 0.02
41 1 0.01
42 36 0.34
43 1 0.01
45 1 0.01
48 33 0.31
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (42 bp):
ATGAGAATTCGTATAAGACCATATCTGGGATATGGCATCGAT
Found at i:56941102 original size:22 final size:19
Alignment explanation
Indices: 56941058--56941104 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 19
56941048 AATGTGTTTG
*
56941058 GTTAATGATTTTCCATTAT
1 GTTAATGATTTTCCAGTAT
56941077 GTTAATGATTTTCCCTGAGTAT
1 GTTAATGATTTT-CC--AGTAT
56941099 GTTAAT
1 GTTAAT
56941105 TACATTGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
22 10 0.42
ACGTcount: A:0.26, C:0.11, G:0.15, T:0.49
Consensus pattern (19 bp):
GTTAATGATTTTCCAGTAT
Found at i:56947817 original size:27 final size:26
Alignment explanation
Indices: 56947787--56947839 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
56947777 GACCAAAATA
*
56947787 CCCCTAAAGGGTAAAATGACTGTTTTG
1 CCCCTAAAGGGT-AAATGACTGATTTG
**
56947814 CCCCTCGAGGGTAAATGACTGATTTG
1 CCCCTAAAGGGTAAATGACTGATTTG
56947840 TCTGTGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (26 bp):
CCCCTAAAGGGTAAATGACTGATTTG
Found at i:56948145 original size:32 final size:32
Alignment explanation
Indices: 56948098--56948185 Score: 104
Period size: 32 Copynumber: 2.8 Consensus size: 32
56948088 TGATATTGAA
** * *
56948098 ATGGGCTAGTTCCAACTGATACTGGTTCTGAT
1 ATGGGCTAGGCCCAACTGATACTGATTCTGAG
*
56948130 ATGGGCTAGGCCCAACTGATATTGATTCTGAG
1 ATGGGCTAGGCCCAACTGATACTGATTCTGAG
* * *
56948162 ATGTGCTAGGCCCAATTGAGACTG
1 ATGGGCTAGGCCCAACTGATACTG
56948186 TGATGGGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (32 bp):
ATGGGCTAGGCCCAACTGATACTGATTCTGAG
Found at i:56956606 original size:49 final size:49
Alignment explanation
Indices: 56956416--56956609 Score: 158
Period size: 50 Copynumber: 3.9 Consensus size: 49
56956406 TCTATTGTGA
* * *
56956416 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTG-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTA-CC--AGACTGTT
* * * * * ** *
56956467 GATCACGTGTCTAGTACTAAGTGTAGGCTACTACGTGTATTAGA-TGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACT-GT-T
* ** **
56956517 GGTTATGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
* * *
56956566 GGTCGCATGTGTAGTACTAAGTGCAGGTTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA
56956610 TAGCTTCGGC
Statistics
Matches: 111, Mismatches: 28, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
47 1 0.01
48 3 0.03
49 36 0.32
50 38 0.34
51 33 0.30
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGACTGTT
Found at i:56959636 original size:15 final size:15
Alignment explanation
Indices: 56959616--56959680 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
56959606 GTATCTTGGG
56959616 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56959631 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
56959646 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
56959660 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
56959674 TTTCTTT
1 TTTCTTT
56959681 TTATCTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
13 2 0.05
14 18 0.43
15 20 0.48
16 2 0.05
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56961945 original size:50 final size:49
Alignment explanation
Indices: 56961817--56961994 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 49
56961807 TGTGAGGTTG
** * *
56961817 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT-GATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCA
* **
56961868 CCTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGA-TGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCA
* * * *
56961918 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCA
56961967 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
56961995 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 31 0.28
50 41 0.38
51 32 0.29
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCA
Found at i:56965033 original size:15 final size:15
Alignment explanation
Indices: 56965013--56965077 Score: 73
Period size: 15 Copynumber: 4.5 Consensus size: 15
56965003 GTATCTTGGG
56965013 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
56965028 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
56965043 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
56965057 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
56965071 TTTCTTT
1 TTTCTTT
56965078 TTATCTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
13 2 0.05
14 18 0.43
15 20 0.48
16 2 0.05
ACGTcount: A:0.09, C:0.14, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:56967342 original size:50 final size:49
Alignment explanation
Indices: 56967214--56967391 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 49
56967204 TGTGAGGTTG
** * *
56967214 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGT-GATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTA-CC--AGACTGTAGGTCA
* **
56967265 CCTGTGTAGTACTAAGTGCAGGCTACTACATGTATTAGA-TGGTGAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACT-GT-AGGTCA
* * * *
56967315 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCA
56967364 CATGTGTAGTACTAAGTGCAGGCTACTA
1 CATGTGTAGTACTAAGTGCAGGCTACTA
56967392 TGCGTACCAG
Statistics
Matches: 109, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
47 1 0.01
48 4 0.04
49 31 0.28
50 41 0.38
51 32 0.29
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGACTGTAGGTCA
Found at i:56970574 original size:50 final size:50
Alignment explanation
Indices: 56970499--56970781 Score: 307
Period size: 50 Copynumber: 5.6 Consensus size: 50
56970489 ATGGTAAGCA
*
56970499 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGAACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGAACACG
*
56970549 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGA-ACACG
* *** * * * * *
56970599 TAGTAGCCTACACTTAGTACTACACATGTGATGGAAGCTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CAATCTGGAACACG
* * * *
56970650 TAGTAGCCTGCACTTAGTACTGCACATGCGACCTAACAATTTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGAACACG
* * * * ** *
56970700 TAGTAGCCTACACTTAATACTACACACGTGACCTAAAACCATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACAATCTGGAACACG
* *
56970752 TAGTAACCTGCACATAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
56970782 TTCTCACAAC
Statistics
Matches: 190, Mismatches: 38, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
49 2 0.01
50 115 0.61
51 37 0.19
52 36 0.19
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTGGAACACG
Found at i:56970677 original size:101 final size:100
Alignment explanation
Indices: 56970499--56970779 Score: 319
Period size: 101 Copynumber: 2.8 Consensus size: 100
56970489 ATGGTAAGCA
* * * * *
56970499 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGAACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCGAACAATCGGGAACACATAGTAGCCTGCACTT
* *
56970564 AGTACTACACATGTGACCTAACCATCTGATACACG
66 AGTACTACACATGCGACCTAACAATCTGATACACG
** * * *
56970599 TAGTAGCCTACACTTAGTACTACACATGTGATGGAAGCTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTACACTTAGTACTACACATGTGACCGAA-CAATCGGGAACACATAGTAGCCTGCACT
* * *
56970664 TAGTACTGCACATGCGACCTAACAATTTGGTACACG
65 TAGTACTACACATGCGACCTAACAATCTGATACACG
* * * * *** *
56970700 TAGTAGCCTACACTTAATACTACACACGTGACCTAAAACCATCTTAAACACATAGTAACCTGCAC
1 TAGTAGCCTACACTTAGTACTACACATGTGACC--GAACAATCGGGAACACATAGTAGCCTGCAC
*
56970765 ATAGTACTACACATG
64 TTAGTACTACACATG
56970780 TGTTCTCACA
Statistics
Matches: 149, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
100 31 0.21
101 83 0.56
102 33 0.22
103 2 0.01
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (100 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCGAACAATCGGGAACACATAGTAGCCTGCACTT
AGTACTACACATGCGACCTAACAATCTGATACACG
Found at i:56973026 original size:30 final size:30
Alignment explanation
Indices: 56972992--56973051 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56972982 CTTTAATAAG
56972992 AACTTTGGCAAAATTACA-TTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTT-CCCCTA
* *
56973022 AACTTTTGCATAATTACACTTTTTCCCCTA
1 AACTTTGGCAAAATTACACTTTTTCCCCTA
56973052 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTTCCCCTA
Found at i:56980103 original size:22 final size:22
Alignment explanation
Indices: 56980063--56980139 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
56980053 ACAGCTCGTA
*
56980063 AGAGCTTACTGTTTCAACTC-ATT
1 AGAGCTTACCG-TTCAACTCGA-T
*
56980086 GGAGCTTACCGTTCAACTCGAT
1 AGAGCTTACCGTTCAACTCGAT
56980108 AGAGCTTACCGTTCAACTCGAT
1 AGAGCTTACCGTTCAACTCGAT
56980130 AGAGCTTACC
1 AGAGCTTACC
56980140 ATTTTCAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 40 0.80
23 10 0.20
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (22 bp):
AGAGCTTACCGTTCAACTCGAT
Found at i:56980155 original size:24 final size:23
Alignment explanation
Indices: 56980063--56980189 Score: 89
Period size: 22 Copynumber: 5.4 Consensus size: 23
56980053 ACAGCTCGTA
*
56980063 AGAGCTTA-CTGTTTCAACTCATT
1 AGAGCTTACCT-TTTCAACTCAAT
* * *
56980086 GGAGCTTACC-GTTCAACTCGAT
1 AGAGCTTACCTTTTCAACTCAAT
* *
56980108 AGAGCTTACC-GTTCAACTCGAT
1 AGAGCTTACCTTTTCAACTCAAT
*
56980130 AGAGCTTACCATTTTCAGCTCAAT
1 AGAGCTTACC-TTTTCAACTCAAT
* * * *
56980154 AGAACTTACTTCTTATCAGCTCAGT
1 AGAGCTTAC--CTTTTCAACTCAAT
56980179 AAGAGCTTACC
1 -AGAGCTTACC
56980190 GATCATGACT
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
22 40 0.47
23 7 0.08
24 19 0.22
25 11 0.13
26 9 0.10
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (23 bp):
AGAGCTTACCTTTTCAACTCAAT
Found at i:56990260 original size:13 final size:13
Alignment explanation
Indices: 56990242--56990267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56990232 GATACTGTCT
56990242 GAAAATTCTATTC
1 GAAAATTCTATTC
56990255 GAAAATTCTATTC
1 GAAAATTCTATTC
56990268 ATCAAATCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
GAAAATTCTATTC
Found at i:56991598 original size:26 final size:26
Alignment explanation
Indices: 56991562--56991614 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
56991552 TTGTCTTCCA
*
56991562 CATTGATCACATTCAGCTTTTTCATT
1 CATTGATCACACTCAGCTTTTTCATT
*
56991588 CATTGATCACACTCAGGTTTTTCATT
1 CATTGATCACACTCAGCTTTTTCATT
56991614 C
1 C
56991615 TTTGCATTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.09, T:0.43
Consensus pattern (26 bp):
CATTGATCACACTCAGCTTTTTCATT
Found at i:56992261 original size:17 final size:18
Alignment explanation
Indices: 56992229--56992262 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56992219 ATATTCGTAT
*
56992229 GCTCATAAGGTACACTCA
1 GCTCATAAGATACACTCA
56992247 GCTCATAA-ATACACTC
1 GCTCATAAGATACACTC
56992263 CAATCTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.35, C:0.29, G:0.12, T:0.24
Consensus pattern (18 bp):
GCTCATAAGATACACTCA
Found at i:56993567 original size:40 final size:39
Alignment explanation
Indices: 56993509--56993587 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
56993499 ACTTAATTCA
* * *
56993509 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCT-AACCCGGATACAATC
* *
56993549 CCAGCATGAAGCCAGCGGGTCTCTAACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
56993588 TCAGAACAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
39 14 0.41
40 20 0.59
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.18
Consensus pattern (39 bp):
CCAGCATGAAGCCAGCGGGACTCTAACCCGGATACAATC
Found at i:56998912 original size:49 final size:49
Alignment explanation
Indices: 56998807--56999730 Score: 1743
Period size: 49 Copynumber: 19.0 Consensus size: 49
56998797 ATGATAGTAA
*
56998807 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGAGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56998854 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56998903 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56998952 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999001 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999050 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999099 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999148 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999197 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999246 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999295 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999344 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999393 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999442 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999491 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999540 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
56999589 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
*
56999638 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
* * * * *
56999685 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
56999731 AGTCCCGAAG
Statistics
Matches: 865, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 81 0.09
48 1 0.00
49 783 0.91
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
Found at i:56999907 original size:37 final size:37
Alignment explanation
Indices: 56999851--56999929 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
56999841 CCGAGCTCTA
* * * *
56999851 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
* *
56999888 AAGACCTGATAACTTCGTGTGGAGATTATGTCCGAGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
56999925 AAGAC
1 AAGAC
56999930 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGAGT
Found at i:57003115 original size:46 final size:48
Alignment explanation
Indices: 57002995--57003121 Score: 149
Period size: 47 Copynumber: 2.7 Consensus size: 48
57002985 TGTAACCCGC
*
57002995 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGACGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * *
57003045 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
57003088 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
57003122 AGATGCCCAA
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 26 0.39
47 28 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:57017125 original size:27 final size:27
Alignment explanation
Indices: 57017063--57017125 Score: 92
Period size: 27 Copynumber: 2.3 Consensus size: 27
57017053 TTATATTAAT
*
57017063 ACATAGTTTTAATGTGTCTAGTTTAGG
1 ACATAATTTTAATGTGTCTAGTTTAGG
*
57017090 ACATCATTTTAATGTGTCTAGTTTAGGG
1 ACATAATTTTAATGTGTCTAGTTTA-GG
57017118 ACA-AATTT
1 ACATAATTT
57017126 ATTAGGTGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 27 0.84
28 5 0.16
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.43
Consensus pattern (27 bp):
ACATAATTTTAATGTGTCTAGTTTAGG
Found at i:57023007 original size:5 final size:5
Alignment explanation
Indices: 57022992--57023024 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
57022982 GGCTAAGGAG
57022992 AAATCA AAATA AAATA AAATA AAATA AAATA AA
1 AAAT-A AAATA AAATA AAATA AAATA AAATA AA
57023025 TAAGTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:57043652 original size:24 final size:24
Alignment explanation
Indices: 57043617--57043692 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
57043607 AGTCTGTCAA
*
57043617 GAGAGGATTTAGGAGTTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
*
57043641 GATAGGATTTAGGAGCTGATAAGG
1 GAGAGGATTTAGGAGCTGATAAGG
* *
57043665 AAGAGGATTTAGGAGCTGATTAGG
1 GAGAGGATTTAGGAGCTGATAAGG
57043689 GAGA
1 GAGA
57043693 ACAGTGTTGG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.34, C:0.03, G:0.39, T:0.24
Consensus pattern (24 bp):
GAGAGGATTTAGGAGCTGATAAGG
Found at i:57045097 original size:27 final size:27
Alignment explanation
Indices: 57045057--57045167 Score: 152
Period size: 27 Copynumber: 4.1 Consensus size: 27
57045047 AGGAAGCGTC
* **
57045057 CTGGTGGCTATGCCACATTTATCTAAT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
57045084 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
57045111 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
57045138 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
57045164 CTGG
1 CTGG
57045168 CAGCAATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
26 13 0.17
27 63 0.83
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:57051530 original size:24 final size:24
Alignment explanation
Indices: 57051431--57051531 Score: 150
Period size: 24 Copynumber: 4.2 Consensus size: 24
57051421 AAGTCTGTCA
*
57051431 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
57051455 GGATAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
57051479 GG-GTAGGATTTAGGAGCTGATAAG
1 GGAG-AGGATTTAGGAGCTGATAAG
*
57051503 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
57051527 GGAGA
1 GGAGA
57051532 ACAGTGTTGG
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
24 70 0.99
25 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.42, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:57052375 original size:123 final size:123
Alignment explanation
Indices: 57052156--57052406 Score: 493
Period size: 123 Copynumber: 2.0 Consensus size: 123
57052146 GCTGAAACCC
57052156 CTAAAGGTTAGGGGGCTATCGATTTGGGCATGTAGCTCTAAAGGGTGTTATAACTGTTTTATTTT
1 CTAAAGGTTAGGGGGCTATCGATTTGGGCATGTAGCTCTAAAGGGTGTTATAACTGTTTTATTTT
57052221 GATAATAGTGGGATCTAAAGCTGCTGATCGAAGGCTTGGACAAGTGGAGTGACTGGAT
66 GATAATAGTGGGATCTAAAGCTGCTGATCGAAGGCTTGGACAAGTGGAGTGACTGGAT
*
57052279 CTAAAGGTTAGGGGGCTGTCGATTTGGGCATGTAGCTCTAAAGGGTGTTATAACTGTTTTATTTT
1 CTAAAGGTTAGGGGGCTATCGATTTGGGCATGTAGCTCTAAAGGGTGTTATAACTGTTTTATTTT
57052344 GATAATAGTGGGATCTAAAGCTGCTGATCGAAGGCTTGGACAAGTGGAGTGACTGGAT
66 GATAATAGTGGGATCTAAAGCTGCTGATCGAAGGCTTGGACAAGTGGAGTGACTGGAT
57052402 CTAAA
1 CTAAA
57052407 CATAATCGCT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 127 1.00
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (123 bp):
CTAAAGGTTAGGGGGCTATCGATTTGGGCATGTAGCTCTAAAGGGTGTTATAACTGTTTTATTTT
GATAATAGTGGGATCTAAAGCTGCTGATCGAAGGCTTGGACAAGTGGAGTGACTGGAT
Found at i:57053089 original size:27 final size:27
Alignment explanation
Indices: 57053059--57053163 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
57053049 AGGAAGCATC
* *
57053059 CTGGTGGCTATGCCATATTTATCTGAT
1 CTGGTGGCTCTGCCACATTTATCTGAT
* *
57053086 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGAT
*
57053113 CTGGTGGCTCTGCCACAATTATCT-ATT
1 CTGGTGGCTCTGCCACATTTATCTGA-T
* * *
57053140 CTGGTGACTCAGTCACA-TTATCTG
1 CTGGTGGCTCTGCCACATTTATCTG
57053164 TTCTAGCAGC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
26 6 0.09
27 60 0.91
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGAT
Found at i:57053143 original size:54 final size:53
Alignment explanation
Indices: 57053059--57053167 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 53
57053049 AGGAAGCATC
* * * *
57053059 CTGGTGGCTATGCCATATTTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCAGCCACAT-TATCTGTT
* *
57053113 CTGGTGGCTCTGCCACAATTATCT-ATTCTGGTGACTCAGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGA-TCTGGTGACTCAGCCACATTATCTGTT
57053166 CT
1 CT
57053168 AGCAGCAATG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
53 11 0.23
54 37 0.77
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCAGCCACATTATCTGTT
Found at i:57054427 original size:83 final size:82
Alignment explanation
Indices: 57054286--57054459 Score: 330
Period size: 83 Copynumber: 2.1 Consensus size: 82
57054276 GGCTTGTGTA
57054286 TTTTGAATGTGGCATGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGG
1 TTTTGAATGTGGCATGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGG
57054351 CTTGGTAAGAAAAGGGT
66 CTTGGTAAGAAAAGGGT
57054368 TTGTTGAATGTGGCATGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATG
1 TT-TTGAATGTGGCATGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATG
*
57054433 GTTTGGTAAGAAAAGGGT
65 GCTTGGTAAGAAAAGGGT
57054451 TTTTGAATG
1 TTTTGAATG
57054460 ATTAGCCATT
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 9 0.10
83 81 0.90
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (82 bp):
TTTTGAATGTGGCATGTATGGCAAAATACTCACTTTGTGTAAATGATTTTATGACATGGTTATGG
CTTGGTAAGAAAAGGGT
Found at i:57058943 original size:40 final size:40
Alignment explanation
Indices: 57058781--57058936 Score: 226
Period size: 40 Copynumber: 3.9 Consensus size: 40
57058771 CCTTCAGCAT
* * *
57058781 TTAG-CCGGATATAG-CAACTCGCACGAATGCCTTTGGGAC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
* *
57058820 TTAGCCCAGACATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
57058860 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
* *
57058900 TTAGCCCGGATATAATCGCTAGCACAAATGCCTTCGG
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGG
57058937 ATCTTAGTCC
Statistics
Matches: 106, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.04
40 101 0.95
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGAC
Found at i:57066739 original size:40 final size:40
Alignment explanation
Indices: 57066660--57066863 Score: 304
Period size: 40 Copynumber: 5.1 Consensus size: 40
57066650 AACCCAAGTA
* * * *
57066660 CCTTCGGAAATTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
57066699 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
57066739 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
57066779 CCTTCGGGACATAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
57066819 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
57066859 CCTTC
1 CCTTC
57066864 AGATCTTAGT
Statistics
Matches: 152, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.08
40 139 0.91
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:57070425 original size:40 final size:40
Alignment explanation
Indices: 57070381--57070642 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
57070371 GCTCCTCGTT
* *
57070381 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57070421 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57070461 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57070500 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57070539 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
57070578 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
57070619 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57070643 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57074092 original size:31 final size:31
Alignment explanation
Indices: 57074050--57074111 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
57074040 TTTTCTCATG
*
57074050 TGGCTTTAATTGTCTCGACGCATAGGCCACA
1 TGGCTTCAATTGTCTCGACGCATAGGCCACA
57074081 TGGCTTCAATTGTCTCGACGCATAGGCCACA
1 TGGCTTCAATTGTCTCGACGCATAGGCCACA
57074112 ACTCGACCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (31 bp):
TGGCTTCAATTGTCTCGACGCATAGGCCACA
Found at i:57074617 original size:202 final size:202
Alignment explanation
Indices: 57074271--57074669 Score: 622
Period size: 202 Copynumber: 2.0 Consensus size: 202
57074261 CGTCCATTCG
57074271 AACTTAACATCCTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAA
1 AACTTAACATCCTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAA
* * * * ** ** *
57074336 TCGTCGGTAATAACCGGCGAGTCCGAGGAAGCTCCGAACTTCGGTAATATTTCTTGGAGGCTTCC
66 GCGTCGGTAATAACCAGCAAGTCCCAAAAAGCTCCGAACTTCAATAATATTTCTCGGAGGCTTCC
* **
57074401 AGTTAAGTATGGCTGAAATTTTGCTCGGGTCAACTCGAATACCCGATGTGGATACCACATGACCC
131 AGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGACCC
57074466 AATTTCA
196 AATTTCA
* *
57074473 AACTTAACAT-CTTTCTGAAGTAGTTTCGTTATTGGTGTGGCTATCATCGAGAAACCCTTT-ACA
1 AACTTAACATCCTTT-TGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAA-CCTTTGACA
* *
57074536 AAGCGTCTGTAGTAACCAGCAAGTCCCAAAAAGCTCCGAACTTCAATAATATTTCTCGGAGGCTT
64 AAGCGTCGGTAATAACCAGCAAGTCCCAAAAAGCTCCGAACTTCAATAATATTTCTCGGAGGCTT
57074601 CCAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGAC
129 CCAGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGAC
57074666 CCAA
194 CCAA
57074670 GAAGCTAACC
Statistics
Matches: 179, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
201 4 0.02
202 170 0.95
203 5 0.03
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (202 bp):
AACTTAACATCCTTTTGAAGTAGCTTCGTCATTGGTGTGGCTATCATCGAGAAACCTTTGACAAA
GCGTCGGTAATAACCAGCAAGTCCCAAAAAGCTCCGAACTTCAATAATATTTCTCGGAGGCTTCC
AGTTAAGTATGGCTGAAATTTTGCTCGGATCAACTCGAATACCCGATGCAGATACCACATGACCC
AATTTCA
Found at i:57078266 original size:40 final size:40
Alignment explanation
Indices: 57078222--57078483 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
57078212 GCTCCTCGTT
* *
57078222 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
57078262 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57078302 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57078341 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
57078380 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
57078419 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
57078460 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
57078484 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:57089418 original size:30 final size:31
Alignment explanation
Indices: 57089372--57089430 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
57089362 CCGAGCCTAG
57089372 GGGCAAAAAGTGTAATTATGCAAAAGTTTAA
1 GGGCAAAAAGTGTAATTATGCAAAAGTTTAA
* *
57089403 GGGCAAAAA-TGTAATTTTGCCAAAGTTT
1 GGGCAAAAAGTGTAATTATGCAAAAGTTT
57089431 GTTTTAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (31 bp):
GGGCAAAAAGTGTAATTATGCAAAAGTTTAA
Found at i:57095463 original size:46 final size:49
Alignment explanation
Indices: 57095340--57095470 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 49
57095330 TCGGGCATTC
*
57095340 GCATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT
1 GCATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATACCTA-TT
* * * * *
57095390 ACAT-C-TCA-CGAACTCAGACTCACCTCAACGAGTTC-GA-ACGT-TT
1 GCATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATACCTATT
* *
57095433 GCATCCATAAGTGAACTCGGACTCAACTCAATGAGTTC
1 GCATCCATAAGTGAACTCAGACTCAACTCAACGAGTTC
57095471 AGATGCTCAA
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.08
44 1 0.02
45 4 0.06
46 25 0.38
47 25 0.38
48 2 0.03
49 1 0.02
50 3 0.05
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (49 bp):
GCATCCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATACCTATT
Found at i:57099506 original size:307 final size:307
Alignment explanation
Indices: 57098952--57099566 Score: 1221
Period size: 307 Copynumber: 2.0 Consensus size: 307
57098942 AATGAAATAC
57098952 ATGGACTTTTATGAATACTAGGAATATTCGGCCAAACATGGGTATATTGAAATTTTGCATATTTT
1 ATGGACTTTTATGAATACTAGGAATATTCGGCCAAACATGGGTATATTGAAATTTTGCATATTTT
57099017 GTGTTTTGTGCAATTGGGACTAAATTCTAAAAAGTGTAAATGTCAGGGGAAAATAGTAATTTACC
66 GTGTTTTGTGCAATTGGGACTAAATTCTAAAAAGTGTAAATGTCAGGGGAAAATAGTAATTTACC
57099082 CATTTATGTGTTTTTGGACTAAATTGAATGAAAATATGTTTGAATGACCTTAATTTAAATATTTT
131 CATTTATGTGTTTTTGGACTAAATTGAATGAAAATATGTTTGAATGACCTTAATTTAAATATTTT
57099147 TAGATCAAGAACCAAAGAAATCAGATTTGGATCGAGGGAAAACCAAAGTTGTCGACTAGCTGTCC
196 TAGATCAAGAACCAAAGAAATCAGATTTGGATCGAGGGAAAACCAAAGTTGTCGACTAGCTGTCC
57099212 CATTCCATTTTATATCGTCCGAGGTAAGTTTATAACCAAATAGACAT
261 CATTCCATTTTATATCGTCCGAGGTAAGTTTATAACCAAATAGACAT
57099259 ATGGACTTTTATGAATACTAGGAATATTCGGCCAAACATGGGTATATTGAAATTTTGCATATTTT
1 ATGGACTTTTATGAATACTAGGAATATTCGGCCAAACATGGGTATATTGAAATTTTGCATATTTT
*
57099324 GTGTTTTGTGCAATTGGGACTAAATTGTAAAAAGTGTAAATGTCAGGGGAAAATAGTAATTTACC
66 GTGTTTTGTGCAATTGGGACTAAATTCTAAAAAGTGTAAATGTCAGGGGAAAATAGTAATTTACC
57099389 CATTTATGTGTTTTTGGACTAAATTGAATGAAAATATGTTTGAATGACCTTAATTTAAATATTTT
131 CATTTATGTGTTTTTGGACTAAATTGAATGAAAATATGTTTGAATGACCTTAATTTAAATATTTT
57099454 TAGATCAAGAACCAAAGAAATCAGATTTGGATCGAGGGAAAACCAAAGTTGTCGACTAGCTGTCC
196 TAGATCAAGAACCAAAGAAATCAGATTTGGATCGAGGGAAAACCAAAGTTGTCGACTAGCTGTCC
57099519 CATTCCATTTTATATCGTCCGAGGTAAGTTTATAACCAAATAGACAT
261 CATTCCATTTTATATCGTCCGAGGTAAGTTTATAACCAAATAGACAT
57099566 A
1 A
57099567 CTCAATTTTA
Statistics
Matches: 307, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
307 307 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (307 bp):
ATGGACTTTTATGAATACTAGGAATATTCGGCCAAACATGGGTATATTGAAATTTTGCATATTTT
GTGTTTTGTGCAATTGGGACTAAATTCTAAAAAGTGTAAATGTCAGGGGAAAATAGTAATTTACC
CATTTATGTGTTTTTGGACTAAATTGAATGAAAATATGTTTGAATGACCTTAATTTAAATATTTT
TAGATCAAGAACCAAAGAAATCAGATTTGGATCGAGGGAAAACCAAAGTTGTCGACTAGCTGTCC
CATTCCATTTTATATCGTCCGAGGTAAGTTTATAACCAAATAGACAT
Found at i:57106986 original size:23 final size:23
Alignment explanation
Indices: 57106959--57107010 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
57106949 AATTAAACCA
57106959 AAATGAAAAACTAACAAATTCAC
1 AAATGAAAAACTAACAAATTCAC
57106982 AAATGAAAAACTAACAAATTCAC
1 AAATGAAAAACTAACAAATTCAC
57107005 AAATGA
1 AAATGA
57107011 TGACTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.17
Consensus pattern (23 bp):
AAATGAAAAACTAACAAATTCAC
Found at i:57110703 original size:40 final size:40
Alignment explanation
Indices: 57110620--57110882 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
57110610 TTGAATGCTG
* * * * * *
57110620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
57110660 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
57110700 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
57110740 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
57110780 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57110820 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
57110859 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
57110883 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:57110902 original size:79 final size:80
Alignment explanation
Indices: 57110659--57110917 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
57110649 AAGTGAATAT
* * * * * *
57110659 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
57110723 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
57110739 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
57110804 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
57110819 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
57110883 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
57110898 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
57110918 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:57119512 original size:40 final size:40
Alignment explanation
Indices: 57119457--57119804 Score: 651
Period size: 40 Copynumber: 8.7 Consensus size: 40
57119447 GAGCATTGGA
57119457 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57119497 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57119537 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57119577 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57119617 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
57119657 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
57119697 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
57119737 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
57119777 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
57119805 ATGTGTTTGC
Statistics
Matches: 301, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 301 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:57130100 original size:13 final size:13
Alignment explanation
Indices: 57130082--57130106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57130072 TCAATTTTTA
57130082 TTACTTTAGCCAT
1 TTACTTTAGCCAT
57130095 TTACTTTAGCCA
1 TTACTTTAGCCA
57130107 GGTTCTTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (13 bp):
TTACTTTAGCCAT
Found at i:57135447 original size:24 final size:25
Alignment explanation
Indices: 57135364--57135458 Score: 113
Period size: 24 Copynumber: 3.8 Consensus size: 25
57135354 CTCTTTTAAT
* * * *
57135364 AACTGGGGCAAAGCCCTTTTTGATG
1 AACTAGGGCAAAGCCCTTTTCGGTA
57135389 AACT-GGGACAAAAGCCCTTTTCGGTA
1 AACTAGGG-C-AAAGCCCTTTTCGGTA
57135415 AACTAGGGCAAAGCCCTTTTCGGT-
1 AACTAGGGCAAAGCCCTTTTCGGTA
*
57135439 AACTAGGGCATAGCCCTTTT
1 AACTAGGGCAAAGCCCTTTT
57135459 GCACTTCCTT
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
24 22 0.35
25 20 0.32
26 18 0.29
27 3 0.05
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTAGGGCAAAGCCCTTTTCGGTA
Found at i:57143454 original size:26 final size:27
Alignment explanation
Indices: 57143400--57143470 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 27
57143390 CTCTTTTAAT
*
57143400 AACTGGGGCAAAA-CCC-TTTTTGATG
1 AACTGGGGCAAAAGCCCTTTTTTGATA
*
57143425 AACTGAGGCAAAAGCCCTTTTTTG-TA
1 AACTGGGGCAAAAGCCCTTTTTTGATA
*
57143451 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
57143471 GCACTTCCTC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 22 0.55
26 12 0.30
27 6 0.15
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.30
Consensus pattern (27 bp):
AACTGGGGCAAAAGCCCTTTTTTGATA
Found at i:57150590 original size:33 final size:33
Alignment explanation
Indices: 57150541--57150604 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
57150531 GATCAACAAT
* *
57150541 AGTCTGGACCTGAGCCCTATTCAGTATTAGTAC
1 AGTCTGGACCTGAGCCCTATACAGTAATAGTAC
* *
57150574 AGTCTGGGCCTTAGCCCTATACAGTAATAGT
1 AGTCTGGACCTGAGCCCTATACAGTAATAGT
57150605 GTGGCCTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (33 bp):
AGTCTGGACCTGAGCCCTATACAGTAATAGTAC
Found at i:57150817 original size:27 final size:27
Alignment explanation
Indices: 57150787--57150841 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
57150777 AGCTGCCAAA
*
57150787 AATAGTAAATGTGGCAAAGCCACCAGT
1 AATAGTAAATGTGACAAAGCCACCAGT
* * *
57150814 AATAGTGAATGTGACATAGTCACCAGT
1 AATAGTAAATGTGACAAAGCCACCAGT
57150841 A
1 A
57150842 CAGTACTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (27 bp):
AATAGTAAATGTGACAAAGCCACCAGT
Found at i:57151014 original size:27 final size:27
Alignment explanation
Indices: 57150983--57151047 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
57150973 GGGCATCATC
57150983 GTCATTTTACCAAACAAAGATATTACG
1 GTCATTTTACCAAACAAAGATATTACG
** * *
57151010 GTCATTTTACCCTACAAGGGTATTACG
1 GTCATTTTACCAAACAAAGATATTACG
57151037 GTCATTTTACC
1 GTCATTTTACC
57151048 CTATAAGGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (27 bp):
GTCATTTTACCAAACAAAGATATTACG
Found at i:57151048 original size:27 final size:27
Alignment explanation
Indices: 57151004--57151293 Score: 334
Period size: 27 Copynumber: 10.6 Consensus size: 27
57150994 AAACAAAGAT
*
57151004 ATTACGGTCATTTTACCCTACAAGGGT
1 ATTACGGTCATTTTACCCTACAAGGGC
*
57151031 ATTACGGTCATTTTACCCTATAAGGGC
1 ATTACGGTCATTTTACCCTACAAGGGC
* * * *
57151058 ATTATGGTCTTTTTACCCTACAGGGGA
1 ATTACGGTCATTTTACCCTACAAGGGC
* *
57151085 ATTACGATCATTTTACCTTAC-AGGTGC
1 ATTACGGTCATTTTACCCTACAAGG-GC
*
57151112 ATTACGGTAATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAAGGGC
*
57151139 ATTACGGTCATTTTACCGTACAAGGGC
1 ATTACGGTCATTTTACCCTACAAGGGC
* *
57151166 ATTACGGTCATTTTACCCTAC-ACGGT
1 ATTACGGTCATTTTACCCTACAAGGGC
*
57151192 ATTACGGTCATTTTACCTTACCCTACAGGGGC
1 ATTACGGTCA--TT---TTACCCTACAAGGGC
* * * *
57151224 ATTACGATTATTTTACCCTAC-GGGGT
1 ATTACGGTCATTTTACCCTACAAGGGC
* *
57151250 ATTATGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAAGGGC
57151277 ATTACGGTCATTTTACC
1 ATTACGGTCATTTTACC
57151294 TATTTTGGGG
Statistics
Matches: 222, Mismatches: 32, Indels: 18
0.82 0.12 0.07
Matches are distributed among these distances:
26 37 0.17
27 159 0.72
28 5 0.02
30 2 0.01
31 9 0.04
32 10 0.05
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAAGGGC
Found at i:57151237 original size:32 final size:31
Alignment explanation
Indices: 57151178--57151240 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
57151168 TACGGTCATT
* *
57151178 TTACCCTACACGGTATTACGGTCATTTTACC
1 TTACCCTACACGGCATTACGATCATTTTACC
* *
57151209 TTACCCTACAGGGGCATTACGATTATTTTACC
1 TTACCCTACA-CGGCATTACGATCATTTTACC
57151241 CTACGGGGTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (31 bp):
TTACCCTACACGGCATTACGATCATTTTACC
Found at i:57157917 original size:35 final size:35
Alignment explanation
Indices: 57157877--57158037 Score: 173
Period size: 35 Copynumber: 4.6 Consensus size: 35
57157867 AGGAAAGTAT
*
57157877 ATGTGAGGTTATATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* **
57157912 ATGTGAGGTTATATTGAACTTGTGTATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* * *
57157947 ATGTGAGCTTATATTGCACTTGTATAATT-GGTTAC
1 ATGTGAGGTTATATTGAACTTGTAT-ATTCGGCTAC
* * * * *
57157982 ATATGAGGTTATATTGAATTTTTATATTCGGCCAT
1 ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
* *
57158017 ATGAGATGTTAT-TTGAACTTG
1 ATGTGAGGTTATATTGAACTTG
57158038 AACGTTATGT
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
34 10 0.10
35 90 0.87
36 3 0.03
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGCTAC
Found at i:57162533 original size:13 final size:13
Alignment explanation
Indices: 57162517--57162541 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57162507 TTAAATCAGT
57162517 TAATTAGTTTAAA
1 TAATTAGTTTAAA
57162530 TAATTAGTTTAA
1 TAATTAGTTTAA
57162542 TAAACAAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TAATTAGTTTAAA
Found at i:57165906 original size:24 final size:24
Alignment explanation
Indices: 57165877--57165926 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
57165867 TGTGGGAATG
*
57165877 AAAACCCACGGGCATGCCAGGGAC
1 AAAACCCACGGGCATGCCAAGGAC
57165901 AAAACCCACGGGCATGCCAAGGAC
1 AAAACCCACGGGCATGCCAAGGAC
57165925 AA
1 AA
57165927 GGCTCGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.38, C:0.32, G:0.26, T:0.04
Consensus pattern (24 bp):
AAAACCCACGGGCATGCCAAGGAC
Found at i:57167972 original size:5 final size:5
Alignment explanation
Indices: 57167948--57168025 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
57167938 CCTCCTATTT
* *
57167948 TTTTA -TTTA GTTTTA TTTTTA TTTTA -TTT- TTTTA TTTTG TTTTT TTTTA
1 TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
57167997 TTTTCA TTTCAA TTTTA --TTA TTTTA TTTT
1 TTTT-A TTT-TA TTTTA TTTTA TTTTA TTTT
57168026 GAAAGACATA
Statistics
Matches: 59, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
3 3 0.05
4 10 0.17
5 29 0.49
6 17 0.29
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:57167979 original size:13 final size:13
Alignment explanation
Indices: 57167943--57167993 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
57167933 TGAATCCTCC
57167943 TATTTTTTTATTT
1 TATTTTTTTATTT
*
57167956 AGTTTTATTTTTATTT
1 --TATT-TTTTTATTT
57167972 TATTTTTTTATTT
1 TATTTTTTTATTT
*
57167985 TGTTTTTTT
1 TATTTTTTT
57167994 TTATTTTCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
13 17 0.53
14 3 0.09
15 3 0.09
16 9 0.28
ACGTcount: A:0.14, C:0.00, G:0.04, T:0.82
Consensus pattern (13 bp):
TATTTTTTTATTT
Found at i:57167989 original size:29 final size:28
Alignment explanation
Indices: 57167943--57168005 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 28
57167933 TGAATCCTCC
57167943 TATTTTTTTATTTAGTTTTATTTTTATTT
1 TATTTTTTTATTTAGTTTT-TTTTTATTT
*
57167972 TATTTTTTTATTTTGTTTTTTTTTATTT
1 TATTTTTTTATTTAGTTTTTTTTTATTT
57168000 TCATTT
1 T-ATTT
57168006 CAATTTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.14, C:0.02, G:0.03, T:0.81
Consensus pattern (28 bp):
TATTTTTTTATTTAGTTTTTTTTTATTT
Found at i:57168012 original size:40 final size:41
Alignment explanation
Indices: 57167946--57168026 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
57167936 ATCCTCCTAT
** *
57167946 TTTTTTATTTAGTTTTATTTTTATTTTATTTTTTTATTTTG
1 TTTTTTATTTAGTTTTATTTCAATTTTATTATTTTATTTTG
57167987 TTTTTT-TTTA-TTTTCATTTCAATTTTATTATTTTATTTTG
1 TTTTTTATTTAGTTTT-ATTTCAATTTTATTATTTTATTTTG
57168027 AAAGACATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 4 0.11
40 26 0.72
41 6 0.17
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (41 bp):
TTTTTTATTTAGTTTTATTTCAATTTTATTATTTTATTTTG
Found at i:57178096 original size:50 final size:49
Alignment explanation
Indices: 57178020--57178149 Score: 172
Period size: 50 Copynumber: 2.6 Consensus size: 49
57178010 ATGACTTCGA
*
57178020 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGG-TGGTGAGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATGGT-AGG
* * * *
57178070 TCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATGGTAGG
* *
57178119 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
57178150 TGCATATCAG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
49 33 0.46
50 38 0.54
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACAGGATGGTAGG
Done.