Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 172 of 253
Found at i:55831862 original size:37 final size:37
Alignment explanation
Indices: 55831749--55831946 Score: 67
Period size: 37 Copynumber: 5.4 Consensus size: 37
55831739 AGAAACATTA
* * * *
55831749 TCAGAA-CTAGAATCAAAATCAGA-ATCAAAATCAGAA
1 TCAGAATC-AGAATCAGAATCAGATAACAGAATCAAAA
* * *
55831785 TCAGAATCAGAATCAGATGAT-AGA-ATCAAAATCCAAA
1 TCAGAATCAGAATCAGA--ATCAGATAACAGAATCAAAA
* * * **
55831822 TCAGAATCAGAATTAGGTAA-CAGA-ATCAAAATCAGTA
1 TCAGAATCAGAATCA-G-AATCAGATAACAGAATCAAAA
* *
55831859 TCAGGTAA-CAAAATCAGAATCAGA-ACCAGAATCAAAA
1 TCA-G-AATCAGAATCAGAATCAGATAACAGAATCAAAA
* *
55831896 TTAGGTAA-CAGAATCAGAATCAG-TATCAGGTAA-CAAAA
1 TCA-G-AATCAGAATCAGAATCAGATAACA-G-AATCAAAA
*
55831934 TCATAATCAGAAT
1 TCAGAATCAGAAT
55831947 GTGAATGTGA
Statistics
Matches: 131, Mismatches: 18, Indels: 25
0.75 0.10 0.14
Matches are distributed among these distances:
36 18 0.14
37 90 0.69
38 18 0.14
39 5 0.04
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (37 bp):
TCAGAATCAGAATCAGAATCAGATAACAGAATCAAAA
Found at i:55831913 original size:25 final size:25
Alignment explanation
Indices: 55831867--55831942 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
55831857 TATCAGGTAA
*
55831867 CAAAATCA-G-AATCAGAACCAGAAT
1 CAAAATCAGGTAA-CAGAATCAGAAT
*
55831891 CAAAATTAGGTAACAGAATCAGAAT
1 CAAAATCAGGTAACAGAATCAGAAT
** * *
55831916 CAGTATCAGGTAACAAAATCATAAT
1 CAAAATCAGGTAACAGAATCAGAAT
55831941 CA
1 CA
55831943 GAATGTGAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
24 7 0.16
25 34 0.79
26 2 0.05
ACGTcount: A:0.51, C:0.17, G:0.13, T:0.18
Consensus pattern (25 bp):
CAAAATCAGGTAACAGAATCAGAAT
Found at i:55832118 original size:27 final size:26
Alignment explanation
Indices: 55832070--55832129 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55832060 ACGAGGCTGC
*
55832070 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55832097 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55832123 CAGATAT
1 CAGATAT
55832130 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55832174 original size:71 final size:67
Alignment explanation
Indices: 55832097--55832238 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
55832087 TCACCAGATA
* * * *
55832097 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAAATTGCAGCGA
55832162 GGCTGC
62 GGCTGC
* * * *
55832168 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACTAAATTGCTGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
55832233 GC
66 GC
55832235 CAGA
1 CAGA
55832239 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAAATTGCAGCGAGGCT
GC
Found at i:55832511 original size:54 final size:54
Alignment explanation
Indices: 55832453--55832567 Score: 126
Period size: 54 Copynumber: 2.1 Consensus size: 54
55832443 TTAACACCCT
* * *
55832453 AGGGGTAAAATGGTAATTTTAACCC-ACAAGG-GTATCTCGGTAATTCTACCCTAC
1 AGGGGTAAAATAGTAATTCT-ACCCTAC-AGGAGTATCTCGATAATTCTACCCTAC
*** * *
55832507 AGGGGTATTTTAGTAATTCTACCCTACAGGAGTATTTCGATATTTCTACCCTAC
1 AGGGGTAAAATAGTAATTCTACCCTACAGGAGTATCTCGATAATTCTACCCTAC
55832561 AGGGGTA
1 AGGGGTA
55832568 TTTAGGTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 7 0.14
54 44 0.86
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (54 bp):
AGGGGTAAAATAGTAATTCTACCCTACAGGAGTATCTCGATAATTCTACCCTAC
Found at i:55832522 original size:27 final size:27
Alignment explanation
Indices: 55832496--55832624 Score: 154
Period size: 27 Copynumber: 4.8 Consensus size: 27
55832486 ATCTCGGTAA
*
55832496 TTCTACCCTACAGGGGTATTTTAGTAA
1 TTCTACCCTACAGGGGTATTTTAGTAT
* *
55832523 TTCTACCCTACAGGAGTA-TTTCGATAT
1 TTCTACCCTACAGGGGTATTTTAG-TAT
55832550 TTCTACCCTACAGGGGTA-TTTAGGTAT
1 TTCTACCCTACAGGGGTATTTTA-GTAT
* * * *
55832577 TTCTACACTACAAGGATATTTTGGTAT
1 TTCTACCCTACAGGGGTATTTTAGTAT
*
55832604 TTCTACCCTACAAGGGTATTT
1 TTCTACCCTACAGGGGTATTT
55832625 CGATAATTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
26 4 0.05
27 80 0.91
28 4 0.05
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (27 bp):
TTCTACCCTACAGGGGTATTTTAGTAT
Found at i:55832568 original size:54 final size:55
Alignment explanation
Indices: 55832478--55832624 Score: 183
Period size: 54 Copynumber: 2.7 Consensus size: 55
55832468 ATTTTAACCC
* * * * *
55832478 ACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTA-GTAATTCTACCCT
1 ACAAGGATATTTCGATATTTCTACCCTACAGGGGTATTTTAGGTAATTCTACACT
*
55832532 AC-AGGAGTATTTCGATATTTCTACCCTACAGGGGTA-TTTAGGTATTTCTACACT
1 ACAAGGA-TATTTCGATATTTCTACCCTACAGGGGTATTTTAGGTAATTCTACACT
* * *
55832586 ACAAGGATATTTTGGTATTTCTACCCTACAAGGGTATTT
1 ACAAGGATATTTCGATATTTCTACCCTACAGGGGTATTT
55832625 CGATAATTTT
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
53 7 0.09
54 67 0.84
55 6 0.08
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (55 bp):
ACAAGGATATTTCGATATTTCTACCCTACAGGGGTATTTTAGGTAATTCTACACT
Found at i:55832623 original size:81 final size:80
Alignment explanation
Indices: 55832474--55832629 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 80
55832464 GGTAATTTTA
* * * *
55832474 ACCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGAG
1 ACCCACAAGGGTATCTAGGTAATTCTACACTACAAGGATATTTTAGTAATTCTACCCTACAGGAG
55832539 TATTTCGATATTTCT
66 TATTTCGATATTTCT
* * * * *
55832554 ACCCTACAGGGGTATTTAGGTATTTCTACACTACAAGGATATTTTGGTATTTCTACCCTACAAGG
1 ACCC-ACAAGGGTATCTAGGTAATTCTACACTACAAGGATATTTTAGTAATTCTACCCTAC-AGG
55832619 -GTATTTCGATA
64 AGTATTTCGATA
55832630 ATTTTATAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 4 0.06
81 58 0.89
82 3 0.05
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (80 bp):
ACCCACAAGGGTATCTAGGTAATTCTACACTACAAGGATATTTTAGTAATTCTACCCTACAGGAG
TATTTCGATATTTCT
Found at i:55832712 original size:27 final size:27
Alignment explanation
Indices: 55832682--55832746 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
55832672 GGTACTTTGG
* *
55832682 TAATTTTGCAAGTCGAGGGTATCTCAA
1 TAATTTTACAAGTCGAGAGTATCTCAA
* * *
55832709 TAATTTTACAGGTCGAGAGTATTTCAG
1 TAATTTTACAAGTCGAGAGTATCTCAA
*
55832736 TAATTTCACAA
1 TAATTTTACAA
55832747 ATCAGGGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGAGTATCTCAA
Found at i:55832785 original size:27 final size:27
Alignment explanation
Indices: 55832750--55833018 Score: 349
Period size: 27 Copynumber: 9.9 Consensus size: 27
55832740 TTCACAAATC
*
55832750 AGGGATATTTTGGTAATTTTACAAACCA
1 AGGG-TATTTTGGTAATTTTATAAACCA
*
55832778 AGGGTATTTGGGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55832805 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
55832832 AGGGTATTTTAGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
55832859 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55832886 AGGGTATTTTGGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* ** *
55832913 AGAGTATTTTCATAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55832940 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
55832967 GGGGTATTTTGGTGATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
55832994 GGGGTATTTTAGTAATTTGATAAAC
1 AGGGTATTTTGGTAATTTTATAAAC
55833019 TAAAGTATTC
Statistics
Matches: 213, Mismatches: 28, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
27 209 0.98
28 4 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:55835382 original size:6 final size:6
Alignment explanation
Indices: 55835356--55835497 Score: 96
Period size: 6 Copynumber: 23.0 Consensus size: 6
55835346 AATCAGGTGA
* *
55835356 CAGAAT CAAAAT CCA-AAT CAGAAT CAGAAT TAGGTAA- CAGAAT CAGAAT
1 CAGAAT CAGAAT -CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* * * *
55835405 CAGTAT CAGGTAA- CAGAAT CAGAAT CAGAAC CAGAAT CAAAAT TAGGTAA-
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT
* *
55835455 CAGAAT CAGAAT CAGTAT CAGGTAA- CAAAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
55835498 GTGAATGTGA
Statistics
Matches: 107, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
5 10 0.09
6 80 0.75
7 11 0.10
8 6 0.06
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
CAGAAT
Found at i:55835398 original size:19 final size:19
Alignment explanation
Indices: 55835374--55835466 Score: 91
Period size: 19 Copynumber: 4.6 Consensus size: 19
55835364 AAATCCAAAT
55835374 CAGAATCAGAATTAGGTAA
1 CAGAATCAGAATTAGGTAA
55835393 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG-A--A-T-T-AGGTAA
*
55835418 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
*
55835435 CCAGAATCAAAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
55835455 CAGAATCAGAAT
1 CAGAATCAGAAT
55835467 CAGTATCAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 22 0.36
20 3 0.05
21 1 0.02
22 2 0.03
23 1 0.02
24 2 0.03
25 15 0.25
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:55835399 original size:25 final size:25
Alignment explanation
Indices: 55835371--55835434 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
55835361 TCAAAATCCA
*
55835371 AATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
55835396 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
55835421 AATCAGAATCAGAA
1 AATCAGAATCAGAA
55835435 CCAGAATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:55835421 original size:62 final size:63
Alignment explanation
Indices: 55835347--55835496 Score: 234
Period size: 62 Copynumber: 2.4 Consensus size: 63
55835337 TAAAATGAGA
* * * *
55835347 ATCAGGTGACAGAATCAAAATCCA-AATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGT
1 ATCAGGTAACAGAATCAGAATCCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
55835409 ATCAGGTAACAGAATCAGAAT-CAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
1 ATCAGGTAACAGAATCAGAATCCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
*
55835471 ATCAGGTAACAAAATCAGAAT-CAGAA
1 ATCAGGTAACAGAATCAGAATCCAGAA
55835497 TGTGAATGTG
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
61 2 0.02
62 80 0.98
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (63 bp):
ATCAGGTAACAGAATCAGAATCCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
Found at i:55835434 original size:37 final size:37
Alignment explanation
Indices: 55835393--55835488 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
55835383 AATTAGGTAA
**
55835393 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
* *
55835430 CAGAACCAGAATCAAAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
*
55835467 CAGTATCAGGTAA-CAAAATCAG
1 CAGAATCA-G-AATCAAAATCAG
55835489 AATCAGAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 39 0.78
38 9 0.18
39 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
Found at i:55835464 original size:25 final size:25
Alignment explanation
Indices: 55835430--55835493 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
55835420 GAATCAGAAT
* *
55835430 CAGAACCAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
**
55835455 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
*
55835480 CAAAATCAGAATCA
1 CAGAATCAGAATCA
55835494 GAATGTGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:55835669 original size:27 final size:26
Alignment explanation
Indices: 55835621--55835680 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
55835611 ACGAGGCTGC
*
55835621 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55835648 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55835674 CAGATAT
1 CAGATAT
55835681 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55836046 original size:27 final size:27
Alignment explanation
Indices: 55836016--55836239 Score: 249
Period size: 27 Copynumber: 8.3 Consensus size: 27
55836006 GGGTAAAATG
* *
55836016 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
* *
55836043 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
*
55836070 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAAGGGTATTTCA
*
55836097 GT-ATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCA
* *
55836124 GTAATTCTACCCTACAAGGGTATTTTA
1 GTAATTTTACCCTACAAGGGTATTTCA
* * * *
55836151 ATAATTCTACCCTA-TAGGCGTATTTCG
1 GTAATTTTACCCTACAAGG-GTATTTCA
* *
55836178 GT-ATTTCTACCCTACAGGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCA
*
55836205 GT-ATTTCTACCCTACAAGGGTATTTCG
1 GTAATTT-TACCCTACAAGGGTATTTCA
55836232 GTAATTTT
1 GTAATTTT
55836240 GTAAATCAAG
Statistics
Matches: 172, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
26 10 0.06
27 153 0.89
28 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:55836062 original size:54 final size:54
Alignment explanation
Indices: 55836015--55836239 Score: 299
Period size: 54 Copynumber: 4.2 Consensus size: 54
55836005 GGGGTAAAAT
* *
55836015 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
55836069 AGTAATTTTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * * *
55836123 GGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCTATAGGCGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
55836177 GGT-ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
55836231 GGTAATTTT
1 GGTAATTTT
55836240 GTAAATCAAG
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
53 3 0.02
54 138 0.95
55 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:55836115 original size:81 final size:81
Alignment explanation
Indices: 55836019--55836239 Score: 318
Period size: 81 Copynumber: 2.7 Consensus size: 81
55836009 TAAAATGGTA
* * * *
55836019 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTTTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCT
*
55836083 ACAGGGGTATTTCAGT
66 ACAGGCGTATTTCAGT
* * *
55836099 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCT
* *
55836164 ATAGGCGTATTTCGGT
66 ACAGGCGTATTTCAGT
* * *
55836180 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTTT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTT
55836240 GTAAATCAAG
Statistics
Matches: 124, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
80 4 0.03
81 120 0.97
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTTTACCCT
ACAGGCGTATTTCAGT
Found at i:55836306 original size:27 final size:27
Alignment explanation
Indices: 55836276--55836429 Score: 100
Period size: 27 Copynumber: 5.7 Consensus size: 27
55836266 TGTAAATCAG
*
55836276 GGGTACTTTGGTAATTTTGCAAGTCGA
1 GGGTACTTTGGTAATTTTACAAGTCGA
* **
55836303 GGGT-GTTTCAATAATTTTACAAGTCGA
1 GGGTACTTT-GGTAATTTTACAAGTCGA
* * *
55836330 GGGTATTTTGGTAATTTTACAA-ACTAA
1 GGGTACTTTGGTAATTTTACAAGTC-GA
* * * *
55836357 GGGTATTTTGATAATTTTACAA-ACCA
1 GGGTACTTTGGTAATTTTACAAGTCGA
* * * *
55836383 TGGGTATTTTGGTAATTTTATAA-ACTA
1 -GGGTACTTTGGTAATTTTACAAGTCGA
*
55836410 GGGGTATTTTGGTAATTTTA
1 -GGGTACTTTGGTAATTTTA
55836430 TAAACAAAGG
Statistics
Matches: 108, Mismatches: 15, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
26 5 0.05
27 100 0.93
28 3 0.03
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (27 bp):
GGGTACTTTGGTAATTTTACAAGTCGA
Found at i:55836340 original size:54 final size:54
Alignment explanation
Indices: 55836276--55836741 Score: 303
Period size: 54 Copynumber: 8.6 Consensus size: 54
55836266 TGTAAATCAG
* * * * * * *
55836276 GGGTACTTTGGTAATTTTGC-AAGTCGAGGGTGTTTCAATAATTTTACAAGTCGA-
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTCAATAATTTTACAA-ACCAT
**
55836330 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGATAATTTTACAAACCAT
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
* * *** * * *
55836384 GGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
* * * * *** ** * *
55836438 GGGTATTTTAGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTGTAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
* * * *** ** *
55836492 AGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
* * * *** **
55836546 GGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAAT
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACC-AT
* ** * * *** *
55836601 -GGTATTTTTGTAATTTTGTAAACCAAGGATATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
** * ***
55836654 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTT-TGGAATTTTACAAACCA-
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
* *
55836706 GGTGTATTTTGGTGATTTTACAAACTAGGGGTATTT
1 GG-GTATTTTGGTAATTTTACAAACTAAGGGTATTT
55836742 TGGTAATTTG
Statistics
Matches: 364, Mismatches: 43, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
52 2 0.01
53 46 0.13
54 312 0.86
55 4 0.01
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCAATAATTTTACAAACCAT
Found at i:55836759 original size:27 final size:27
Alignment explanation
Indices: 55836329--55836757 Score: 538
Period size: 27 Copynumber: 15.9 Consensus size: 27
55836319 TTACAAGTCG
* *
55836329 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836356 AGGGTATTTTGATAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836383 TGGGTATTTTGGTAATTTTATAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836410 GGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
55836437 AGGGTATTTTAGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
55836464 GGGGTATTTTGGTAATTTTGTAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836491 AAGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836518 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836545 AGGGTATTTTAGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836572 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
55836599 ATGGTATTTTTGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836626 AGGATATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
55836653 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
55836680 AGGGTATTTTGG-AATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
55836705 AGGTGTATTTTGGTGATTTTACAAACTA
1 AGG-GTATTTTGGTAATTTTATAAACCA
* *
55836733 GGGGTATTTTGGTAATTTGATAAAC
1 AGGGTATTTTGGTAATTTTATAAAC
55836758 TAAAGTATTC
Statistics
Matches: 346, Mismatches: 53, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
25 3 0.01
26 20 0.06
27 321 0.93
28 2 0.01
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:55840521 original size:33 final size:33
Alignment explanation
Indices: 55840484--55840594 Score: 141
Period size: 33 Copynumber: 3.4 Consensus size: 33
55840474 TACTCTTTGT
* *
55840484 TTGGTGTGTTGGTTGGACTAGCTCTTATAAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
**
55840517 TTGGTGTGACGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * **
55840550 TTGGTGTGCTGCTTGGATTAGCTCTTCGGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
55840583 TTAGTGTGTTGG
1 TTGGTGTGTTGG
55840595 AGGGATTGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 66 1.00
ACGTcount: A:0.15, C:0.13, G:0.33, T:0.39
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:55840601 original size:33 final size:33
Alignment explanation
Indices: 55840531--55840606 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
55840521 TGTGACGGTT
* * **
55840531 GGATTAGCTCTTATGAGCATTGGTGTGCTGCTT
1 GGATTAGCTCTTAGGAGCATTAGTGTGCTGCAG
* * *
55840564 GGATTAGCTCTTCGGAGCATTAGTGTGTTGGAG
1 GGATTAGCTCTTAGGAGCATTAGTGTGCTGCAG
*
55840597 GGATTGGCTC
1 GGATTAGCTC
55840607 GTGTGAGTTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (33 bp):
GGATTAGCTCTTAGGAGCATTAGTGTGCTGCAG
Found at i:55846785 original size:26 final size:26
Alignment explanation
Indices: 55846756--55846810 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
55846746 TAATAAATTT
55846756 TTTAAGTAATTGCATGAATTGAATGG
1 TTTAAGTAATTGCATGAATTGAATGG
55846782 TTTAAGTAATTGCATGAATTGAATGG
1 TTTAAGTAATTGCATGAATTGAATGG
55846808 TTT
1 TTT
55846811 TCTTTTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.42
Consensus pattern (26 bp):
TTTAAGTAATTGCATGAATTGAATGG
Found at i:55847776 original size:16 final size:18
Alignment explanation
Indices: 55847755--55847791 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
55847745 ACTAAATAAT
55847755 TATGT-ATATAT-ATATA
1 TATGTAATATATAATATA
55847771 TATGTAATATATAATATA
1 TATGTAATATATAATATA
55847789 TAT
1 TAT
55847792 TCGAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 6 0.32
18 8 0.42
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (18 bp):
TATGTAATATATAATATA
Found at i:55854266 original size:6 final size:6
Alignment explanation
Indices: 55854255--55854280 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
55854245 CCTTCTTTAC
55854255 CCTGTA CCTGTA CCTGTA CCTGTA CC
1 CCTGTA CCTGTA CCTGTA CCTGTA CC
55854281 ATATATAGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (6 bp):
CCTGTA
Found at i:55859370 original size:117 final size:118
Alignment explanation
Indices: 55859162--55859392 Score: 374
Period size: 117 Copynumber: 2.0 Consensus size: 118
55859152 ACCTTGATGC
* * *
55859162 TTTGATTCGTTCATGATAGATTGATTTCGAGGCAATATGAAGAGCAACTTAATTATGGCACCAAA
1 TTTGATTCGTTCATGATAGATTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGCACCAAA
*
55859227 ATTTTGCTAGTGGTGTATGCTCCAATCCAA-TTCAATTAACAGATGTTAAAAG
66 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAAG
* * *
55859279 TTTGATTCTTTCATGATAGTTTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGTACCAAA
1 TTTGATTCGTTCATGATAGATTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGCACCAAA
* *
55859344 GTTTTGCTAGTGATGTATGCTTCAATCCAATTTCAATTAACAGATGTTA
66 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTA
55859393 TATCCACATG
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
117 86 0.83
118 18 0.17
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (118 bp):
TTTGATTCGTTCATGATAGATTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGCACCAAA
ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAAG
Found at i:55868637 original size:13 final size:13
Alignment explanation
Indices: 55868619--55868643 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55868609 CCTCCATCAG
55868619 TTCCTTTTTCTTC
1 TTCCTTTTTCTTC
55868632 TTCCTTTTTCTT
1 TTCCTTTTTCTT
55868644 TTATGTAATA
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCCTTTTTCTTC
Found at i:55871226 original size:21 final size:21
Alignment explanation
Indices: 55871202--55871268 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
55871192 CACATGGTCA
* *
55871202 TGTGCATGGGTCACACAGCCT
1 TGTGGATGGGTCACACGGCCT
55871223 TGTGGATGGGTCACACGGCCT
1 TGTGGATGGGTCACACGGCCT
* *
55871244 TGTGGATAGGTCACACGGCCG
1 TGTGGATGGGTCACACGGCCT
55871265 TGTG
1 TGTG
55871269 TCCAAACCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (21 bp):
TGTGGATGGGTCACACGGCCT
Found at i:55877234 original size:79 final size:81
Alignment explanation
Indices: 55877098--55877280 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
55877088 TCGAATGATG
* *
55877098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
55877162 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
55877177 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
55877239 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
55877257 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55877281 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:55877296 original size:40 final size:40
Alignment explanation
Indices: 55877099--55877282 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
55877089 CGAATGATGT
* * * *
55877099 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
55877139 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
55877179 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55877217 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55877258 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55877283 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:55877304 original size:79 final size:79
Alignment explanation
Indices: 55877151--55877305 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
55877141 GGACTAAGAT
* **
55877151 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
55877216 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
55877230 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
55877293 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
55877306 ATTCGAAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:55885405 original size:79 final size:81
Alignment explanation
Indices: 55885269--55885451 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
55885259 TCGAATGATG
* *
55885269 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
55885333 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
55885348 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
55885410 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
55885428 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
55885452 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:55885467 original size:40 final size:40
Alignment explanation
Indices: 55885270--55885453 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
55885260 CGAATGATGT
* * * *
55885270 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
55885310 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
55885350 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55885388 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
55885429 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
55885454 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:55885475 original size:79 final size:79
Alignment explanation
Indices: 55885322--55885486 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
55885312 GGACTAAGAT
* **
55885322 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
55885387 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
55885401 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
55885464 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
55885480 CCGAAGG
1 CCGAAGG
55885487 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:55888440 original size:46 final size:46
Alignment explanation
Indices: 55888373--55888501 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
55888363 TGTAACCCGC
* * * * *
55888373 CCATAAGCGAAATCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55888419 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
55888465 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
55888502 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:55888520 original size:46 final size:45
Alignment explanation
Indices: 55888385--55888520 Score: 132
Period size: 46 Copynumber: 3.0 Consensus size: 45
55888375 ATAAGCGAAA
* ** * *
55888385 TCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGTGAAC
*** *
55888431 TCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGTGAAC
1 TCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGTGAAC
55888477 TCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTGA
1 TCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGTGA
55888521 CATGTCACTT
Statistics
Matches: 81, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 75 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
TCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGTGAAC
Found at i:55891540 original size:26 final size:25
Alignment explanation
Indices: 55891511--55891664 Score: 166
Period size: 26 Copynumber: 5.9 Consensus size: 25
55891501 ATGTTACTGA
*
55891511 TTAGCAGGCTTTGAGCTAGTGATTAG
1 TTAGCAGGCTTTGAGC-CGTGATTAG
* * *
55891537 TTAGCAGGCTTTAAGCTTGTGACT-G
1 TTAGCAGGCTTTGAGC-CGTGATTAG
55891562 ATTAGCAGGCTTTGAGCCGGTGATTAG
1 -TTAGCAGGCTTTGAGCC-GTGATTAG
*
55891589 TTAGTAGGCTTTGAGCCGATGATTAG
1 TTAGCAGGCTTTGAGCCG-TGATTAG
*
55891615 TTAGTAGGCTTTGAGCCGATGATTAG
1 TTAGCAGGCTTTGAGCCG-TGATTAG
* *
55891641 TTAGTAGGCTTTGAGTCGGTGATT
1 TTAGCAGGCTTTGAG-CCGTGATT
55891665 TATATAACAT
Statistics
Matches: 115, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
25 2 0.02
26 110 0.96
27 3 0.03
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.35
Consensus pattern (25 bp):
TTAGCAGGCTTTGAGCCGTGATTAG
Found at i:55891585 original size:52 final size:52
Alignment explanation
Indices: 55891506--55891652 Score: 190
Period size: 52 Copynumber: 2.8 Consensus size: 52
55891496 TGAGTATGTT
** * *
55891506 ACTGATTAGCAGGCTTTGAGCTAGTGATTAGTTAGCAGGCTTTAAGCTTG-TG
1 ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTAAGC-CGATG
*
55891558 ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTGAGCCGATG
1 ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTAAGCCGATG
* * *
55891610 A-TTAGTTAGTAGGCTTTGAGCCGATGATTAGTTAGTAGGCTTT
1 ACTGA-TTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTT
55891653 GAGTCGGTGA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.04
52 82 0.96
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.35
Consensus pattern (52 bp):
ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTAAGCCGATG
Found at i:55891650 original size:78 final size:78
Alignment explanation
Indices: 55891511--55891664 Score: 188
Period size: 78 Copynumber: 2.0 Consensus size: 78
55891501 ATGTTACTGA
* *
55891511 TTAGCAGGCTTTGAGCTAGTGATTAGTTAGCAGGCTTTAAGCTTGTGACTGATTAGCAGGCTTTG
1 TTAGCAGGCTTTGAGCGAGTGATTAGTTAGCAGGCTTTAAGCTCGTGACTGATTAGCAGGCTTTG
55891576 AGCCGGTGATTAG
66 AGCCGGTGATTAG
* * * * *
55891589 TTAGTAGGCTTTGAGCCGA-TGATTAGTTAGTAGGCTTTGAGC-CGATGA-TTAGTTAGTAGGCT
1 TTAGCAGGCTTTGAG-CGAGTGATTAGTTAGCAGGCTTTAAGCTCG-TGACTGA-TTAGCAGGCT
*
55891651 TTGAGTCGGTGATT
63 TTGAGCCGGTGATT
55891665 TATATAACAT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
77 3 0.05
78 60 0.92
79 2 0.03
ACGTcount: A:0.21, C:0.12, G:0.31, T:0.35
Consensus pattern (78 bp):
TTAGCAGGCTTTGAGCGAGTGATTAGTTAGCAGGCTTTAAGCTCGTGACTGATTAGCAGGCTTTG
AGCCGGTGATTAG
Found at i:55903942 original size:45 final size:45
Alignment explanation
Indices: 55903878--55904009 Score: 230
Period size: 45 Copynumber: 2.9 Consensus size: 45
55903868 ATCGTACGAC
55903878 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
* *
55903923 ACTATTCGGGCCTTTGAGCCTAGTAGGCTACAATGCCGGTGAGAT
1 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
55903968 ACTATTCGGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA
1 ACTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGA
55904010 AAGGATATCG
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
44 4 0.05
45 78 0.95
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (45 bp):
ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGAT
Found at i:55923615 original size:22 final size:23
Alignment explanation
Indices: 55923599--55923643 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
55923589 AATTCATGCC
55923599 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCA-CA
*
55923623 ACAAAATGTACCAATTCATCA
1 ACAAAATATACCAATTCATCA
55923644 ACCTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
ACAAAATATACCAATTCATCACA
Found at i:55923643 original size:21 final size:21
Alignment explanation
Indices: 55923589--55923645 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
55923579 ATTATCATAT
*
55923589 AATTCATGCCACAAAATATACC
1 AATTCAT-CAACAAAATATACC
*
55923611 AATTCATCATCAACAAAATGTACC
1 AA-T--TCATCAACAAAATATACC
55923635 AATTCATCAAC
1 AATTCATCAAC
55923646 CTTATACCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 8 0.27
22 2 0.07
23 2 0.07
24 14 0.47
25 4 0.13
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.25
Consensus pattern (21 bp):
AATTCATCAACAAAATATACC
Found at i:55924586 original size:42 final size:42
Alignment explanation
Indices: 55924554--55924657 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
55924544 TAGCTTAGCT
*
55924554 ATGGTTTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
* *
55924596 ATGGTCTTACACGAATCTCATATCGATGCAAATGTCCCAGTC
1 ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
*
55924638 ATGGTCTTACATGAATCTCA
1 ATGGTCTTACACGAATCTCA
55924658 CATCCCGATA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (42 bp):
ATGGTCTTACACGAATCTCATATCGATGCCAATGTCCCAGAC
Found at i:55928317 original size:189 final size:189
Alignment explanation
Indices: 55927997--55928374 Score: 677
Period size: 189 Copynumber: 2.0 Consensus size: 189
55927987 CAAAATCTGG
55927997 GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCGGAAAAGTGGTCTTC
1 GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCGGAAAAGTGGTCTTC
* * *
55928062 ACTTAGATTCCTCAGTCTCATACTCGATACCAAAGTACCTTTGCTCAGGCGGTGCCTCCAATACA
66 ACTTAGATTCCTCAATCTCATACTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATACA
55928127 TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
131 TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
* * *
55928186 GTGTTACAACTCTCCCCCCTTTAGGGATTTGT-GTCTCCGAAAATCTTACTGGAAAAGTGGTCTT
1 GTGTTACAACTCTCCACCCTTTAGGGATTT-TCGTCCCCGAAAATCTTACCGGAAAAGTGGTCTT
*
55928250 CACTTAGATTCCTCAATCTCATTCTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATAC
65 CACTTAGATTCCTCAATCTCATACTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATAC
55928315 ATCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
130 ATCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
55928375 ATTTTCAAAG
Statistics
Matches: 181, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
189 180 0.99
190 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (189 bp):
GTGTTACAACTCTCCACCCTTTAGGGATTTTCGTCCCCGAAAATCTTACCGGAAAAGTGGTCTTC
ACTTAGATTCCTCAATCTCATACTCAATACCAAAGTACCTTCGCTCAGGCGGTGCCTCCAATACA
TCTCTTTAATTTCTCATATGATCTGAAAGCTTACGGACTCAACTCCCAATTGTTCTTAA
Found at i:55935881 original size:13 final size:11
Alignment explanation
Indices: 55935854--55935887 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
55935844 TGTCTCTGCC
55935854 TGTGTGCCCAA
1 TGTGTGCCCAA
55935865 TGTGTGCCCAA
1 TGTGTGCCCAA
55935876 TGTGTGCCCAA
1 TGTGTGCCCAA
55935887 T
1 T
55935888 TCTGAGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.18, C:0.26, G:0.26, T:0.29
Consensus pattern (11 bp):
TGTGTGCCCAA
Found at i:55939089 original size:24 final size:23
Alignment explanation
Indices: 55939062--55939108 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
55939052 AACAATTTGC
*
55939062 ACCCATGACCAAAGCATCAAAAAA
1 ACCCATGACCAAAGAAT-AAAAAA
*
55939086 ACCCTTGACCAAAGAATAAAAAA
1 ACCCATGACCAAAGAATAAAAAA
55939109 CATACCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.55, C:0.26, G:0.09, T:0.11
Consensus pattern (23 bp):
ACCCATGACCAAAGAATAAAAAA
Found at i:55942418 original size:29 final size:29
Alignment explanation
Indices: 55942384--55942451 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
55942374 ATGAGAGCTT
*
55942384 TTGTGGCTATATCTATTAAGTGGACGCCC
1 TTGTGGCTATATCTATTAAGTAGACGCCC
* * *
55942413 TTGTGGCTATATTTATTATGTAGACGCCT
1 TTGTGGCTATATCTATTAAGTAGACGCCC
55942442 TTGTGGCTAT
1 TTGTGGCTAT
55942452 TTATCTGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (29 bp):
TTGTGGCTATATCTATTAAGTAGACGCCC
Found at i:55942497 original size:27 final size:28
Alignment explanation
Indices: 55942438--55942508 Score: 101
Period size: 27 Copynumber: 2.6 Consensus size: 28
55942428 TTATGTAGAC
*
55942438 GCCTTTGTGGCTAT-TTATCTGTTTGGAT
1 GCCTTTGTGGCTATCTTA-CTATTTGGAT
55942466 GCCTTTGTGGCTATCTTA-TATTTGGAT
1 GCCTTTGTGGCTATCTTACTATTTGGAT
*
55942493 GCCTTTTTGGCTATCT
1 GCCTTTGTGGCTATCT
55942509 ATCTTTGATC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.57
28 14 0.35
29 3 0.08
ACGTcount: A:0.11, C:0.17, G:0.23, T:0.49
Consensus pattern (28 bp):
GCCTTTGTGGCTATCTTACTATTTGGAT
Found at i:55946738 original size:34 final size:34
Alignment explanation
Indices: 55946666--55946748 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
55946656 CAATTCAGGA
* *
55946666 ACAGT-TCAGTTTCAGTTAGGGCCTTAGCCCATT
1 ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
55946699 ACAGTATCAGTATCAGTGT-GGGCCTAAGCCCATCT
1 ACAGTATCAGTATCAGT-TAGGGCCTAAGCCCAT-T
*
55946734 -CAGTAACAGTA-CAGT
1 ACAGTATCAGTATCAGT
55946749 ATAGATATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 9 0.20
34 33 0.75
35 2 0.05
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
ACAGTATCAGTATCAGTTAGGGCCTAAGCCCATT
Found at i:55949358 original size:31 final size:31
Alignment explanation
Indices: 55949323--55949386 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
55949313 ATTTACCATT
55949323 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
1 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
55949354 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
1 TTGAACTAAACCCCCTCGAGGGCTAAATTTC
55949385 TT
1 TT
55949387 TCTCAAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (31 bp):
TTGAACTAAACCCCCTCGAGGGCTAAATTTC
Found at i:55951120 original size:26 final size:28
Alignment explanation
Indices: 55951069--55951122 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
55951059 AAAAAAAATC
*
55951069 TAAAATATTCAAAATAAATATATATTCT
1 TAAAATATTAAAAATAAATATATATTCT
*
55951097 TAAAAT-TTAAAAATAAAT-TTTATTCT
1 TAAAATATTAAAAATAAATATATATTCT
55951123 ATAATATCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (28 bp):
TAAAATATTAAAAATAAATATATATTCT
Found at i:55951518 original size:17 final size:17
Alignment explanation
Indices: 55951505--55951540 Score: 51
Period size: 14 Copynumber: 2.3 Consensus size: 17
55951495 ACATAATGAC
55951505 ATTTAAATCATAATAAA
1 ATTTAAATCATAATAAA
55951522 ATTTAAA--ATAA-AAA
1 ATTTAAATCATAATAAA
55951536 ATTTA
1 ATTTA
55951541 CTTATAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 8 0.42
15 4 0.21
17 7 0.37
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTTAAATCATAATAAA
Found at i:55953312 original size:237 final size:237
Alignment explanation
Indices: 55952897--55953371 Score: 941
Period size: 237 Copynumber: 2.0 Consensus size: 237
55952887 GGTCCTCGAG
55952897 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
1 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
55952962 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
66 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
55953027 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
131 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
55953092 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
196 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
55953134 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
1 ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
*
55953199 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATTCATCTGCGTCATAGTCACT
66 TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
55953264 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
131 AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
55953329 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
196 CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
55953371 A
1 A
55953372 AGCCAATTAG
Statistics
Matches: 237, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
237 237 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (237 bp):
ACCCTAAAATATGAAATTGAAACGGTTCAGGAACAAACCGGAATCAATAAAAATTTTCTGATCAC
TTAAACAAATCAAACAATTCATTTCATCTTTCATAAATAAACTATCCATCTGCGTCATAGTCACT
AAATAAATCATAACTCGAGTTACGAAACTCAAAATTCAAATTTATAAATTTTCTCTGAAACTAGA
CTCATATATCTTCTTACTTAATTTGTTTCATAATTTTTTGTC
Found at i:55956968 original size:79 final size:82
Alignment explanation
Indices: 55956857--55957041 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55956847 GCTACTCGTT
* * *
55956857 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55956920 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55956937 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55957000 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55957017 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55957042 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55957041 original size:40 final size:40
Alignment explanation
Indices: 55956838--55957041 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55956828 CGGAATTTAA
** *
55956838 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55956878 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55956918 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55956957 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55956997 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55957037 CCGGA
1 CCGGA
55957042 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55965025 original size:79 final size:82
Alignment explanation
Indices: 55964914--55965098 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
55964904 GCTACTCGTT
* * *
55964914 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
55964977 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
55964994 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
55965057 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
55965074 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55965099 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:55965098 original size:40 final size:40
Alignment explanation
Indices: 55964895--55965098 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
55964885 CGGAATTTAA
** *
55964895 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
55964935 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55964975 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55965014 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
55965054 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55965094 CCGGA
1 CCGGA
55965099 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:55967279 original size:55 final size:55
Alignment explanation
Indices: 55967212--55967411 Score: 289
Period size: 55 Copynumber: 3.6 Consensus size: 55
55967202 CTTATGACAA
* * *
55967212 TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA-CTTATCAA-
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTT-CC-T-TAGAAACCTTACCAAT
* * *
55967267 TGCGATGTCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAAATCTTACCAAT
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAAACCTTACCAAT
*
55967322 TGCCATGCCTTGACATGGTCTTACATGGTATCCTTTCCTTAGAAACCTTACCAAT
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAAACCTTACCAAT
55967377 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
55967412 AAACCCTAAT
Statistics
Matches: 132, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
53 5 0.04
54 8 0.06
55 114 0.86
56 5 0.04
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.36
Consensus pattern (55 bp):
TGCCATGCCTTGGCATGGTCTTACATGGTATCCTTTCCTTAGAAACCTTACCAAT
Found at i:55970056 original size:48 final size:47
Alignment explanation
Indices: 55969985--55970213 Score: 259
Period size: 48 Copynumber: 4.8 Consensus size: 47
55969975 GAGGGTAAAT
55969985 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TCAC
* * *
55970033 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TGATG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTCA-C
* *
55970080 TGGTCGATGCCATGTCCCAGACATGGTCTTACACTAG-TGCACATATCAAC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT-CTCAT-TC-AC
* * * * * *
55970130 -ACTGATGCCATGTTCCAGGCATGGTCTTACACTGGCTCTCATGTC-G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-TCAC
55970176 TGGCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGC
55970214 ACACATATCA
Statistics
Matches: 150, Mismatches: 22, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
46 2 0.01
47 2 0.01
48 143 0.95
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATTCAC
Found at i:55970153 original size:96 final size:96
Alignment explanation
Indices: 55969986--55970223 Score: 347
Period size: 96 Copynumber: 2.5 Consensus size: 96
55969976 AGGGTAAATT
* * *
55969986 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-ACTGCCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCAACTACCGATGCCATGTCCC
55970050 AGACATGGTCTTACACTGGCTCTCATGAT-GTG
65 AGACATGGTCTTACACTGGCTCTCATG-TCGTG
* * *
55970082 GTCGATGCCATGTCCCAGACATGGTCTTACACTAGTGCACATATCAAC-ACTGATGCCATGTTCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGT-CACATATCAACTACCGATGCCATGTCCC
*
55970146 AGGCATGGTCTTACACTGGCTCTCATGTCGTG
65 AGACATGGTCTTACACTGGCTCTCATGTCGTG
*
55970178 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-TCACATATCA
55970224 CCCAAATGAC
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
95 2 0.02
96 125 0.97
97 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (96 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGTCACATATCAACTACCGATGCCATGTCCCA
GACATGGTCTTACACTGGCTCTCATGTCGTG
Found at i:55979306 original size:45 final size:45
Alignment explanation
Indices: 55979242--55979333 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
55979232 CCTAGACTAG
* *
55979242 TAGTTTAAAGTAAGCAAGCAAATGCCCAATTAAAATTTAAATCCA
1 TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
55979287 TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
1 TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
55979332 TA
1 TA
55979334 AAAGGCCTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.48, C:0.16, G:0.10, T:0.26
Consensus pattern (45 bp):
TAGTTTAAAGTAAACAAGCAAATGCCCAATTAAAACTTAAATCCA
Found at i:55988273 original size:26 final size:27
Alignment explanation
Indices: 55988222--55988277 Score: 87
Period size: 26 Copynumber: 2.1 Consensus size: 27
55988212 CTAGCCTAAG
* *
55988222 AATAGTGGGGTTTTGTTTTAATTAACT
1 AATAATGGGGTTTTGTTTTAACTAACT
55988249 AATAATGGGG-TTTGTTTTAACTAACT
1 AATAATGGGGTTTTGTTTTAACTAACT
55988275 AAT
1 AAT
55988278 TAACTAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 18 0.67
27 9 0.33
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (27 bp):
AATAATGGGGTTTTGTTTTAACTAACT
Found at i:55992717 original size:21 final size:21
Alignment explanation
Indices: 55992666--55992717 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
55992656 TTTTTCCTAG
*
55992666 GATG-TTAATTGAATTAAATT
1 GATGATTAAATGAATTAAATT
*
55992686 GA-GTATGAAATGAATTAAATT
1 GATG-ATTAAATGAATTAAATT
55992707 GATGATTAAAT
1 GATGATTAAAT
55992718 TCATTTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 22 0.85
22 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
GATGATTAAATGAATTAAATT
Found at i:55996456 original size:43 final size:43
Alignment explanation
Indices: 55996355--55996519 Score: 165
Period size: 43 Copynumber: 3.8 Consensus size: 43
55996345 CAATGCCATA
* * * * **
55996355 TCCCAGATATGGTCTTACATGTTATCACA-TATCGACGCCATTG
1 TCCCAGACATGGTCTTACATGTAATCATAGTA-CGATGCCAACG
* * * *
55996398 GCCCACACA-GTGTCTTACACGAAATCATAGTACGATGCCAACG
1 TCCCAGACATG-GTCTTACATGTAATCATAGTACGATGCCAACG
* * *
55996441 TCCCAGACATGGTCTTACATGTAATC-TCAATACAATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCAT-AGTACGATGCCAACG
55996484 TCCCAGACATGGTCTTACATGTAATCATAGTACGAT
1 TCCCAGACATGGTCTTACATGTAATCATAGTACGAT
55996520 AACCCAGTGT
Statistics
Matches: 98, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
42 2 0.02
43 92 0.94
44 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACATGTAATCATAGTACGATGCCAACG
Found at i:55996462 original size:86 final size:86
Alignment explanation
Indices: 55996355--55996519 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 86
55996345 CAATGCCATA
* * * *
55996355 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGACGCCATTGGCCCACACA-GTGTCTTACAC
1 TCCCAGACATGGTCTTACATGTAATCACAATA-CAACGCCAATGGCCCACACATG-GTCTTACAC
55996418 GAAATCATAGTACGATGCCAACG
64 GAAATCATAGTACGATGCCAACG
* * * * * *
55996441 TCCCAGACATGGTCTTACATGTAATCTCAATACAATGCCAATGTCCCAGACATGGTCTTACATGT
1 TCCCAGACATGGTCTTACATGTAATCACAATACAACGCCAATGGCCCACACATGGTCTTACACGA
55996506 AATCATAGTACGAT
66 AATCATAGTACGAT
55996520 AACCCAGTGT
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
86 63 0.94
87 4 0.06
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (86 bp):
TCCCAGACATGGTCTTACATGTAATCACAATACAACGCCAATGGCCCACACATGGTCTTACACGA
AATCATAGTACGATGCCAACG
Found at i:56004124 original size:43 final size:43
Alignment explanation
Indices: 56004077--56004183 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
56004067 TCGACGACAC
* **
56004077 TGTCCCAGACAGGGTCTTACACGAAATCAT-AATACGATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATC-TCAATAAAATGCCAA
* * *
56004120 TGTCCTAGACATGGTCTTATACGTAATCTCAATAAAATGCCAA
1 TGTCCCAGACATGGTCTTACACGAAATCTCAATAAAATGCCAA
56004163 TGTCCCAGACATGGTCTTACA
1 TGTCCCAGACATGGTCTTACA
56004184 TGTTATCACA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGAAATCTCAATAAAATGCCAA
Found at i:56009800 original size:23 final size:22
Alignment explanation
Indices: 56009744--56009801 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
56009734 GGGGAATAAC
56009744 GATTTATTGCATTTTTACTGGTA
1 GATTT-TTGCATTTTTACTGGTA
* *
56009767 GCTTGTCTGCATTTTTACTGGTA
1 GATT-TTTGCATTTTTACTGGTA
56009790 GAATTTTTGCAT
1 G-ATTTTTGCAT
56009802 ATTATTGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (22 bp):
GATTTTTGCATTTTTACTGGTA
Found at i:56014314 original size:43 final size:44
Alignment explanation
Indices: 56014203--56014351 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 44
56014193 AATGCCAAGG
* *
56014203 TCCCAGACATGGTCTTACATGT-AATCAAATATCGATGCTACTG
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCTACTA
* *
56014246 TCCCAGACAGGGTCTTACACG-AAATCAAATA-CGATGTTGA-TA
1 TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCT-ACTA
* * *
56014288 TCCTAGACATGGTCTTACACGTAAATCATAA-GTCGATGCCAAC-A
1 TCCCAGACATGGTCTTACACGTAAATCA-AATATCGATG-CTACTA
*
56014332 TCCCAGACCTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
56014352 AAAATAACAT
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
42 26 0.30
43 35 0.40
44 27 0.31
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCAAATATCGATGCTACTA
Found at i:56015462 original size:13 final size:13
Alignment explanation
Indices: 56015444--56015468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56015434 ACAAACAATC
56015444 AAATTTTCATACG
1 AAATTTTCATACG
56015457 AAATTTTCATAC
1 AAATTTTCATAC
56015469 ATACTAATTT
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:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATTTTCATACG
Found at i:56020541 original size:42 final size:43
Alignment explanation
Indices: 56020426--56020545 Score: 120
Period size: 43 Copynumber: 2.8 Consensus size: 43
56020416 CAAAAATCTC
* * * * *
56020426 ATACAATGCCAACGTCCCAGACGTGGTCTTACA-TATAATCAA
1 ATACGATGCCAACGTCCAAAACGTGGTCTTACACGATAACCAA
** * *
56020468 ATATCGATGCCATTGTCCTATAC-TGGATCTTACACGA-AACCAA
1 ATA-CGATGCCAACGTCCAAAACGTGG-TCTTACACGATAACCAA
56020511 ATACGATGCCAACGTCCAAAACGTGGTCTTACACG
1 ATACGATGCCAACGTCCAAAACGTGGTCTTACACG
56020546 TAAATCATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
42 30 0.48
43 32 0.51
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATACGATGCCAACGTCCAAAACGTGGTCTTACACGATAACCAA
Found at i:56021897 original size:13 final size:13
Alignment explanation
Indices: 56021879--56021906 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
56021869 AGCTGAAGTG
56021879 TTAGTATTAGATT
1 TTAGTATTAGATT
56021892 TTAGTATTAGATT
1 TTAGTATTAGATT
56021905 TT
1 TT
56021907 GCACAATCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
TTAGTATTAGATT
Found at i:56024703 original size:43 final size:42
Alignment explanation
Indices: 56024656--56024806 Score: 119
Period size: 43 Copynumber: 3.5 Consensus size: 42
56024646 CTAGACGTGA
* *
56024656 TCTTACATGTAATCAAATATCGATGCCACCGTCCCAGACAGGG
1 TCTTACACGAAATCAAATATCGATGCCA-CGTCCCAGACAGGG
* * * * *
56024699 TCTTACACGAAATCAAATA-CAATACTGATGTCCCAGACATGG
1 TCTTACACGAAATCAAATATCGATGC-CACGTCCCAGACAGGG
* * *
56024741 TCTTACACGTAAATCATAA-GTCGATGCCAACGTCCCATAC-GTTG
1 TCTTACACG-AAATCA-AATATCGATGCC-ACGTCCCAGACAG-GG
* *
56024785 TCTTACATGAAATCACATATCG
1 TCTTACACGAAATCAAATATCG
56024807 GATCCTATGT
Statistics
Matches: 83, Mismatches: 18, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
42 26 0.31
43 33 0.40
44 24 0.29
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (42 bp):
TCTTACACGAAATCAAATATCGATGCCACGTCCCAGACAGGG
Found at i:56027537 original size:15 final size:15
Alignment explanation
Indices: 56027505--56027533 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56027495 ATTTTCTGTG
56027505 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56027520 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56027534 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56030424 original size:15 final size:15
Alignment explanation
Indices: 56030392--56030420 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56030382 ATTTTCTATG
56030392 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
56030407 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
56030421 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:56031906 original size:46 final size:46
Alignment explanation
Indices: 56031837--56032011 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
56031827 TGTAACCCGC
* * *
56031837 CCATAAGTGAACTCGGACCCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* *
56031883 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
* * * * * *
56031933 --TTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
*
56031976 CCATAAGTAAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
56032012 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 2 0.02
46 60 0.58
47 27 0.26
48 3 0.03
49 1 0.01
50 5 0.05
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:56031953 original size:93 final size:93
Alignment explanation
Indices: 56031845--56032015 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56031835 GCCCATAAGT
* * * *
56031845 GAACTCGGACCCAACTCAACGAGCTCGGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
56031910 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
56031938 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
56032003 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56032016 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACCCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:56032469 original size:30 final size:30
Alignment explanation
Indices: 56032435--56032494 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56032425 ATTTAATACG
56032435 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
56032465 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
56032495 GGCTCAGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:56035574 original size:26 final size:26
Alignment explanation
Indices: 56035545--56035652 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56035535 TGGTACAAAT
56035545 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56035571 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56035597 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56035623 TGATAATAGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56035649 TGAT
1 TGAT
56035653 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56056977 original size:13 final size:13
Alignment explanation
Indices: 56056961--56056985 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56056951 TTAAATCAGT
56056961 TAATTAGTTTAAA
1 TAATTAGTTTAAA
56056974 TAATTAGTTTAA
1 TAATTAGTTTAA
56056986 TAAATAAACT
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:56062355 original size:17 final size:17
Alignment explanation
Indices: 56062335--56062401 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
56062325 TTATTTACTC
56062335 TTATTTTTTATTTTATT
1 TTATTTTTTATTTTATT
*
56062352 TTATTTTTCT-TTTGATT
1 TTATTTTT-TATTTTATT
* *
56062369 TT-TATTTTCATTTCAATT
1 TTAT-TTTTTATTT-TATT
56062387 TTATTATTTTATTTT
1 TTATT-TTTTATTTT
56062402 GAAAGACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 1 0.03
17 23 0.59
18 7 0.18
19 8 0.21
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.76
Consensus pattern (17 bp):
TTATTTTTTATTTTATT
Found at i:56064878 original size:27 final size:27
Alignment explanation
Indices: 56064711--56064888 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
56064701 TAAATTGTAC
*
56064711 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
56064738 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
56064764 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
56064792 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
56064820 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
56064847 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
56064874 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56064889 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:56064879 original size:82 final size:81
Alignment explanation
Indices: 56064708--56064888 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
56064698 GATTAAATTG
* * * *
56064708 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56064773 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
56064789 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56064853 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
56064871 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56064889 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:56072768 original size:27 final size:27
Alignment explanation
Indices: 56072738--56072807 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
56072728 TCTACTTTGT
*
56072738 TGCACTAAGTGTGCGAAATGA-ATATG
1 TGCACTAAGTGTGCGAAATGACATACG
* *
56072764 ATGCACTAAGAGTGCGAATTGACCATACG
1 -TGCACTAAGTGTGCGAAATGA-CATACG
56072793 -GCACTAAGTGTGCGA
1 TGCACTAAGTGTGCGA
56072808 GTCTAACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 33 0.89
29 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (27 bp):
TGCACTAAGTGTGCGAAATGACATACG
Found at i:56072852 original size:82 final size:81
Alignment explanation
Indices: 56072712--56072867 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 81
56072702 AAATTGTACA
* * * *
56072712 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGA-G
1 GCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA-ATG
56072776 TGCGAATTGACCATACG
65 TGCGAATTGACCATACG
** *
56072793 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAAT
1 GCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
56072857 GTGCGAGTTGA
64 GTGCGAATTGA
56072868 TTATATAGCA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
81 20 0.31
82 44 0.69
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATACG
Found at i:56102068 original size:46 final size:46
Alignment explanation
Indices: 56101967--56102054 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
56101957 TGTAACCCGC
* * *
56101967 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
56102013 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
56102055 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:56115173 original size:21 final size:21
Alignment explanation
Indices: 56115103--56115173 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
56115093 AAATGTACTG
56115103 TACTGGCAGCTCTGCTGCAAA
1 TACTGGCAGCTCTGCTGCAAA
*** * *
56115124 TCACTGATGGCTCTAAGCCG-ATTA
1 T-ACTGGCAGCTCT--GCTGCA-AA
56115148 TACTGGCAGCTCTGCTGCAAA
1 TACTGGCAGCTCTGCTGCAAA
56115169 TACTG
1 TACTG
56115174 TTAGTGCTGT
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 10 0.29
22 10 0.29
23 10 0.29
24 5 0.14
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (21 bp):
TACTGGCAGCTCTGCTGCAAA
Found at i:56115443 original size:34 final size:35
Alignment explanation
Indices: 56115379--56115444 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
56115369 GTATTGAGAT
* *
56115379 GGGCTTAGGCCCAGACTATTTACTGATACTAAAAG
1 GGGCTAAGGCCCAGACTAGTTACTGATACTAAAAG
* *
56115414 GGGCTAAGGCCCAGGCT-GTTACTGTTACTAA
1 GGGCTAAGGCCCAGACTAGTTACTGATACTAA
56115445 TATGGGCTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 12 0.44
35 15 0.56
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (35 bp):
GGGCTAAGGCCCAGACTAGTTACTGATACTAAAAG
Found at i:56115460 original size:34 final size:35
Alignment explanation
Indices: 56115377--56115460 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 35
56115367 CTGTATTGAG
*
56115377 ATGGGCTTAGGCCCAGACTATTTACTGATACTAAA
1 ATGGGCTTAGGCCCAGACTAGTTACTGATACTAAA
* * * * *
56115412 AGGGGCTAAGGCCCAGGCT-GTTACTGTTACTAAT
1 ATGGGCTTAGGCCCAGACTAGTTACTGATACTAAA
*
56115446 ATGGGCTTATGCCCA
1 ATGGGCTTAGGCCCA
56115461 AAATGTATTC
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
34 24 0.60
35 16 0.40
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.27
Consensus pattern (35 bp):
ATGGGCTTAGGCCCAGACTAGTTACTGATACTAAA
Found at i:56118907 original size:49 final size:49
Alignment explanation
Indices: 56118850--56119023 Score: 196
Period size: 49 Copynumber: 3.6 Consensus size: 49
56118840 TCTAAGTCAG
56118850 TGCCATGTCCCAGATAGGTCTTACACTGACTTCCATATATCGAGGCTGA
1 TGCCATGTCCCAGATAGGTCTTACACTGACTTCCATATATCGAGGCTGA
* *
56118899 TGCCATGTCCCAGATAGGTCTTACACTG-GTTCTCATCTATC-AGTG-TCGA
1 TGCCATGTCCCAGATAGGTCTTACACTGACTTC-CATATATCGAG-GCT-GA
* * * **
56118948 TGCCATGTCCCAAATAGGTCTTACACT-AGCTTGCATATCTCGAGGCAAA
1 TGCCATGTCCCAGATAGGTCTTACACTGA-CTTCCATATATCGAGGCTGA
* *
56118997 TG-CATGTCCCAGACAAGTCTTACACTG
1 TGCCATGTCCCAGATAGGTCTTACACTG
56119024 GCTCTCATAA
Statistics
Matches: 105, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
48 27 0.26
49 74 0.70
50 4 0.04
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
TGCCATGTCCCAGATAGGTCTTACACTGACTTCCATATATCGAGGCTGA
Found at i:56118952 original size:98 final size:97
Alignment explanation
Indices: 56118850--56119031 Score: 267
Period size: 98 Copynumber: 1.9 Consensus size: 97
56118840 TCTAAGTCAG
* ** *
56118850 TGCCATGTCCCAGATAGGTCTTACACT-GACTTCCATATATCGAGGCTGATGCCATGTCCCAGAT
1 TGCCATGTCCCAAATAGGTCTTACACTAG-CTTCCATATATCGAGGCAAATG-CATGTCCCAGAC
* *
56118914 AGGTCTTACACTGGTTCTCATCTATCAGTGTCGA
64 AAGTCTTACACTGGCTCTCATCTATCAGTGTCGA
* *
56118948 TGCCATGTCCCAAATAGGTCTTACACTAGCTTGCATATCTCGAGGCAAATGCATGTCCCAGACAA
1 TGCCATGTCCCAAATAGGTCTTACACTAGCTTCCATATATCGAGGCAAATGCATGTCCCAGACAA
56119013 GTCTTACACTGGCTCTCAT
66 GTCTTACACTGGCTCTCAT
56119032 AATGTGGCCA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
97 30 0.40
98 44 0.59
99 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (97 bp):
TGCCATGTCCCAAATAGGTCTTACACTAGCTTCCATATATCGAGGCAAATGCATGTCCCAGACAA
GTCTTACACTGGCTCTCATCTATCAGTGTCGA
Found at i:56119017 original size:48 final size:46
Alignment explanation
Indices: 56118951--56119071 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 46
56118941 GTGTCGATGC
* * * *
56118951 CATGTCCCAAATAGGTCTTACACTAGCT-TGCATATCTCGAGGCAAATG
1 CATGTCCCAGACAAGTCTTACACTAGCTCT-CATA-AT-GAGGCAAATG
* * *
56118999 CATGTCCCAGACAAGTCTTACACTGGCTCTCATAATGTGGCCAATG
1 CATGTCCCAGACAAGTCTTACACTAGCTCTCATAATGAGGCAAATG
* *
56119045 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACAAGTCTTACACTAGC
56119072 ACACATATCA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 32 0.52
47 1 0.02
48 28 0.45
49 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACAAGTCTTACACTAGCTCTCATAATGAGGCAAATG
Found at i:56120367 original size:30 final size:31
Alignment explanation
Indices: 56120331--56120393 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
56120321 CCTTTTCATA
56120331 TTTCATAATTCATAATA-TGGGCCGAAGCCT
1 TTTCATAATTCATAATACTGGGCCGAAGCCT
* *
56120361 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAATACTGGGCCGAAGCCT
56120392 TT
1 TT
56120394 ACTCTAACCG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATAATTCATAATACTGGGCCGAAGCCT
Found at i:56120663 original size:23 final size:24
Alignment explanation
Indices: 56120586--56120729 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
56120576 GCTTTATCAT
*
56120586 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
56120611 ATAACTGGGGCA-AAGCCCTTTTTTA
1 ATAACTGGGGCATAAGCCC--TTTTA
*
56120636 ATAACTGGGGCATAAGCCC-ATTA
1 ATAACTGGGGCATAAGCCCTTTTA
56120659 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56120683 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
56120707 ATAACTGGGGCATAAACCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
56120730 GCACTTCCTC
Statistics
Matches: 110, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
23 23 0.21
24 56 0.51
25 25 0.23
26 6 0.05
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56120801 original size:9 final size:9
Alignment explanation
Indices: 56120787--56120843 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
56120777 ATCTCGTGTG
56120787 CATATCATA
1 CATATCATA
*
56120796 CATATCATGTG
1 CATATCA--TA
56120807 CATATCATA
1 CATATCATA
* *
56120816 CATGTCATGTG
1 CATATCA--TA
56120827 CATATCATA
1 CATATCATA
56120836 CATATCAT
1 CATATCAT
56120844 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:56120806 original size:20 final size:20
Alignment explanation
Indices: 56120783--56120845 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
56120773 GAACATCTCG
56120783 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
56120803 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
56120823 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
56120843 TGT
1 TGT
56120846 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:56120910 original size:25 final size:25
Alignment explanation
Indices: 56120882--56120929 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56120872 ATATATAAAC
* * *
56120882 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56120907 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56120930 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56122772 original size:20 final size:18
Alignment explanation
Indices: 56122735--56122785 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
56122725 CTATAGCAAC
56122735 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
56122752 TCACATATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
56122772 TTACAACTTTACAA
1 TCACAA-TTTACAA
56122786 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:56126773 original size:40 final size:41
Alignment explanation
Indices: 56126599--56126781 Score: 217
Period size: 40 Copynumber: 4.5 Consensus size: 41
56126589 GATATCTCGT
* * * * *
56126599 ACACTAAGTGTCGTACATAGTCGAAGCTATCTCAA-ATCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
* * * * *
56126639 ACACTAAGTTCTATATATAGCCAAAGTTATCTCAATTCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAA-TATCGC
*
56126681 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATCTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
*
56126722 ACACTAAGTGCCATATATAGCCGAAGCTATGTCAA-ATCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
* *
56126762 ACACTAGGTGCCACATATAG
1 ACACTAAGTGCCATATATAG
56126782 GTCATTTGTC
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 49 0.40
41 40 0.33
42 34 0.28
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (41 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATATCGC
Found at i:56129863 original size:48 final size:47
Alignment explanation
Indices: 56129802--56130176 Score: 247
Period size: 48 Copynumber: 7.9 Consensus size: 47
56129792 GCCACATTAT
* * *
56129802 GAGAGCCACTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGA
1 GAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* *
56129849 CGAGAGTCAGTGTAAGA-CATGTCTGGGACAT-CCATCGGCCTTGAGA
1 -GAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * *
56129895 TGTA-AGCCAATGTAAGA-CATGTCTAGGACAT-GCATCGGC--T-ACGA
1 -G-AGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
* * ** *
56129939 GATGTGTCAGTGTAAGACCATGTCTGGGACATGGAATCGAAACTT-ATA
1 GA-GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TTGAGA
* * * *
56129987 GAG-GTATCAGTGTAAGACCAAGTCTGGGACATGACATCGGGACAGAT-ATGT
1 GAGAG--TCAGTGTAAGACCATGTCTGGGACATGGCATC-GG-CA-TTGA-GA
* * * * **
56130038 GAGAG-CTAGTGTAAGACCATGTCTGCGACATGGCGTCGGCCTCGATTTC
1 GAGAGTC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GA
* * *
56130087 GATAGTCAGTGTAATACCATGTCTGGGACATGGCATCGAC-TTGATG-
1 GAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA-GA
* *
56130133 GATGAGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGCATT
1 GA-GAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
56130177 ATACCTTATG
Statistics
Matches: 258, Mismatches: 48, Indels: 42
0.74 0.14 0.12
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 13 0.05
45 13 0.05
46 52 0.20
47 50 0.19
48 53 0.21
49 40 0.16
50 30 0.12
51 3 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGAGTCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:56129909 original size:46 final size:46
Alignment explanation
Indices: 56129805--56130173 Score: 220
Period size: 46 Copynumber: 7.8 Consensus size: 46
56129795 ACATTATGAG
* * *
56129805 AGCCACTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG-CTTGAGATGTA
* *
56129852 GAGTCAGTGTAAGA-CATGTCTGGGACATCCATCGGCCTTGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGCATCGG-CTTGAGATGTA
* * *
56129899 AGCCAATGTAAGA-CATGTCTAGGACATGCATCGGCTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCT-TGAGATGTA
* * * * *
56129944 -GTCAGTGTAAGACCATGTCTGGGACATGGAATCGAAACTTATAGAGGT-
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCG--GCTT-GAGATGTA
* * * *
56129992 A-TCAGTGTAAGACCAAGTCTGGGACATGACATCGGGAC-AGATATGTGA
1 AGCCAGTGTAAGACCATGTCTGGGACATG-CATC-GG-CTTGAGATGT-A
* * * * * *
56130040 GAGCTAGTGTAAGACCATGTCTGCGACATGGCGTCGGCCT-CGATTTCGA
1 -AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTGAGATGT--A
* * *
56130089 TAGTCAGTGTAATACCATGTCTGGGACATGGCATCGACTTGATGGATG--
1 -AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGCTTGA--GATGTA
*
56130137 AGCCAGAGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGGC
56130174 ATTATACCTT
Statistics
Matches: 251, Mismatches: 49, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 59 0.24
47 49 0.20
48 51 0.20
49 38 0.15
50 25 0.10
51 1 0.00
52 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGCATCGGCTTGAGATGTA
Found at i:56140794 original size:28 final size:28
Alignment explanation
Indices: 56140735--56140796 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 28
56140725 TTACCTAAAC
56140735 CCCCTATATATGGTAAATGACTATTTTT
1 CCCCTATATATGGTAAATGACTATTTTT
*
56140763 -CCCT-TATATGGTCAGATGACT-TTTTT
1 CCCCTATATATGGT-AAATGACTATTTTT
56140789 GCCCCTAT
1 -CCCCTAT
56140797 GTGTGTATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
26 13 0.45
27 11 0.38
28 4 0.14
29 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (28 bp):
CCCCTATATATGGTAAATGACTATTTTT
Found at i:56143567 original size:5 final size:5
Alignment explanation
Indices: 56143557--56143601 Score: 56
Period size: 5 Copynumber: 9.2 Consensus size: 5
56143547 ATTATGGTTT
* * *
56143557 ATAAA ATAAA AT-AA CTAAA TTGAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
56143602 ACCCTAAACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
4 3 0.09
5 31 0.91
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (5 bp):
ATAAA
Found at i:56149977 original size:35 final size:35
Alignment explanation
Indices: 56149880--56150014 Score: 103
Period size: 35 Copynumber: 3.9 Consensus size: 35
56149870 GTATGTACAT
* * * * *
56149880 ATGTGATGATGTATTAAACTTTTATATTTGGCTAC
1 ATGTGATGTTATATTAAACTTGTATATTCGACTAC
* *
56149915 ATGTGATGTTATATTAAATTTGAATATTCGACTAC
1 ATGTGATGTTATATTAAACTTGTATATTCGACTAC
* * * *
56149950 ATGTGATGTTTTGA-TGAACTTGTATATTCG-GTCAT
1 ATGTGATGTTAT-ATTAAACTTGTATATTCGACT-AC
* * **
56149985 ATATGATGATATATTGTACTTGTATATTCG
1 ATGTGATGTTATATTAAACTTGTATATTCG
56150015 GCTATATATG
Statistics
Matches: 80, Mismatches: 17, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
34 2 0.03
35 77 0.96
36 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.18, T:0.45
Consensus pattern (35 bp):
ATGTGATGTTATATTAAACTTGTATATTCGACTAC
Found at i:56157241 original size:21 final size:20
Alignment explanation
Indices: 56157215--56157255 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
56157205 AGCATTCCAT
*
56157215 AACTCAAGATAATATAAAAAA
1 AACTC-AGATAAAATAAAAAA
56157236 AACTCAGATAAAATCAAAAA
1 AACTCAGATAAAAT-AAAAA
56157256 TCATGCTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (20 bp):
AACTCAGATAAAATAAAAAA
Found at i:56157254 original size:20 final size:21
Alignment explanation
Indices: 56157215--56157255 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
56157205 AGCATTCCAT
*
56157215 AACTCAAGATAATATAAAAAA
1 AACTCAAGATAAAATAAAAAA
*
56157236 AACTC-AGATAAAATCAAAAA
1 AACTCAAGATAAAATAAAAAA
56157256 TCATGCTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.66, C:0.12, G:0.05, T:0.17
Consensus pattern (21 bp):
AACTCAAGATAAAATAAAAAA
Found at i:56157369 original size:30 final size:30
Alignment explanation
Indices: 56157335--56157396 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
56157325 TATGGAAAAG
56157335 ATTGAAACATACTTGGAAATTTAAAAATTT
1 ATTGAAACATACTTGGAAATTTAAAAATTT
56157365 ATTGAAACATACTTGGAAATTTAAAAATTT
1 ATTGAAACATACTTGGAAATTTAAAAATTT
56157395 AT
1 AT
56157397 GCAAATATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (30 bp):
ATTGAAACATACTTGGAAATTTAAAAATTT
Found at i:56169176 original size:27 final size:27
Alignment explanation
Indices: 56169145--56169430 Score: 215
Period size: 27 Copynumber: 10.6 Consensus size: 27
56169135 TTAGAATACT
**
56169145 TTAGTTTACCAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* *
56169172 TTAGTTTGTAAAATTACTAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
*
56169199 TTGGTTTATAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* *
56169226 CTAGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * **
56169253 CTAGTTTGTAAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * **
56169280 CT-GATTTGTAAAATTACTGAAATACTCC
1 TTAG-TTTATAAAATTACCAAAATAC-CC
* *
56169308 TGA-TTTACAAAATTACCAAAATACCTC
1 TTAGTTTATAAAATTACCAAAATACC-C
* * **
56169335 TGA-TTTGTAAAATTACTGAAATACCC
1 TTAGTTTATAAAATTACCAAAATACCC
* * *
56169361 TGA-TTTGTAAAATTACTAAAATA-CC
1 TTAGTTTATAAAATTACCAAAATACCC
* * * *
56169386 TTCGACTTATACAATTACCAAAGTACCC
1 TTAG-TTTATAAAATTACCAAAATACCC
**
56169414 -CCGATTTATAAAATTAC
1 TTAG-TTTATAAAATTAC
56169431 TGTTTTACCC
Statistics
Matches: 219, Mismatches: 33, Indels: 14
0.82 0.12 0.05
Matches are distributed among these distances:
25 3 0.01
26 25 0.11
27 187 0.85
28 4 0.02
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (27 bp):
TTAGTTTATAAAATTACCAAAATACCC
Found at i:56169220 original size:54 final size:53
Alignment explanation
Indices: 56169155--56169385 Score: 279
Period size: 54 Copynumber: 4.3 Consensus size: 53
56169145 TTAGTTTACC
* *
56169155 AAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC-TGATTTATA
* *
56169209 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATA-CCCTGA-TTTATA
** * *
56169263 AAATTACTGAAATACCCCT-GATTTGTAAAATTACTGAAATACTCCTGATTTACA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATAC-CCTGATTTATA
* * *
56169317 AAATTACCAAAATACCTCT-GATTTGTAAAATTACTGAAATACCCTGATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTGATTTATA
*
56169370 AAATTACTAAAATACC
1 AAATTACCAAAATACC
56169386 TTCGACTTAT
Statistics
Matches: 156, Mismatches: 16, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
53 26 0.17
54 126 0.81
55 4 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (53 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTGATTTATA
Found at i:56169292 original size:81 final size:81
Alignment explanation
Indices: 56169149--56169385 Score: 327
Period size: 81 Copynumber: 2.9 Consensus size: 81
56169139 AATACTTTAG
* * * * * *
56169149 TTTACCAAATTACCAAAATACCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
*
56169214 ACCAAAATACCCCT-A
66 ACTAAAATACCCCTGA
**
56169229 GTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
1 -TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
* *
56169294 TACTGAAATACTCCTGA
65 TACTAAAATACCCCTGA
*
56169311 TTTACAAAATTACCAAAATACCTCT-GATTTGTAAAATTACTGAAATA-CCCTGATTTGTAAAAT
1 TTTACAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTGAAATACCCCTGATTTGTAAAAT
56169374 TACTAAAATACC
65 TACTAAAATACC
56169386 TTCGACTTAT
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
80 27 0.20
81 110 0.80
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
ACTAAAATACCCCTGA
Found at i:56169441 original size:80 final size:80
Alignment explanation
Indices: 56169150--56169432 Score: 295
Period size: 81 Copynumber: 3.5 Consensus size: 80
56169140 ATACTTTAGT
* ** * * *
56169150 TTACCAAATTACCAAAATA-CCCTTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 TTACAAAATTACCAAAATACCCCCGA-TTTGTAAAATTACTGAAATACCC-TGATTTGTAAAATT
* * *
56169214 ACCAAAATACCCCT-AGT
64 ACTAAAATACTCCTGA-C
** *
56169231 TTGTAAAATTACCAAAATA-CCCCTAGTTTGTAAAATTACTGAAATACCCCTGATTTGTAAAATT
1 TTACAAAATTACCAAAATACCCCCGA-TTTGTAAAATTACTGAAATA-CCCTGATTTGTAAAATT
* *
56169295 ACTGAAATACTCCTGAT
64 ACTAAAATACTCCTGAC
* *
56169312 TTACAAAATTACCAAAATACCTCTGATTTGTAAAATTACTGAAATACCCTGATTTGTAAAATTAC
1 TTACAAAATTACCAAAATACCCCCGATTTGTAAAATTACTGAAATACCCTGATTTGTAAAATTAC
*
56169377 TAAAATAC-CTTCGAC
66 TAAAATACTCCT-GAC
* * * *
56169392 TTATACAATTACCAAAGTACCCCCGATTTATAAAATTACTG
1 TTACAAAATTACCAAAATACCCCCGATTTGTAAAATTACTG
56169433 TTTTACCCTC
Statistics
Matches: 174, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
79 2 0.01
80 63 0.36
81 102 0.59
82 7 0.04
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (80 bp):
TTACAAAATTACCAAAATACCCCCGATTTGTAAAATTACTGAAATACCCTGATTTGTAAAATTAC
TAAAATACTCCTGAC
Found at i:56169467 original size:27 final size:27
Alignment explanation
Indices: 56169180--56169468 Score: 214
Period size: 27 Copynumber: 10.7 Consensus size: 27
56169170 CCTTAGTTTG
* * *
56169180 TAAAATTACTAAAATACCCTTGGTTTA
1 TAAAATTACTGAAATACCCTCGATTTA
** * *
56169207 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTA
** * *
56169234 TAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACTGAAATACCCTCGA-TTTA
*
56169261 TAAAATTACTGAAATACCC-CTGATTTG
1 TAAAATTACTGAAATACCCTC-GATTTA
56169288 TAAAATTACTGAAATACTCCT-GATTTA
1 TAAAATTACTGAAATAC-CCTCGATTTA
* ** *
56169315 CAAAATTACCAAAATA-CCTCTGATTTG
1 TAAAATTACTGAAATACCCTC-GATTTA
*
56169342 TAAAATTACTGAAATACCCT-GATTTG
1 TAAAATTACTGAAATACCCTCGATTTA
* * *
56169368 TAAAATTACTAAAATACCTTCGACTTA
1 TAAAATTACTGAAATACCCTCGATTTA
* * *
56169395 TACAATTAC-CAAAGTACCCCCGATTTA
1 TAAAATTACTGAAA-TACCCTCGATTTA
***
56169422 TAAAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTGAAATACCCTCGATTTA
* * *
56169449 CAAAATTACCGAAACACCCT
1 TAAAATTACTGAAATACCCT
56169469 TATAGGGTAG
Statistics
Matches: 215, Mismatches: 37, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
25 3 0.01
26 27 0.13
27 179 0.83
28 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCGATTTA
Found at i:56169482 original size:27 final size:27
Alignment explanation
Indices: 56169452--56169593 Score: 151
Period size: 27 Copynumber: 5.3 Consensus size: 27
56169442 CGATTTACAA
* *
56169452 AATTACCGAAACACCCTTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
56169479 AATTACTGAAATATCCC-TGTAGGATAG
1 AATTACCGAAATA-CCCTTGTAGGGTAG
*
56169506 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
56169533 AAATACCAAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
56169560 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
56169587 AATTACC
1 AATTACC
56169594 ATTTTGCCCC
Statistics
Matches: 93, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
26 3 0.03
27 87 0.94
28 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:56169604 original size:54 final size:54
Alignment explanation
Indices: 56169452--56169594 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
56169442 CGATTTACAA
* * * ** *
56169452 AATTACCGAAACACCCTTATAGGGTAGAATTACTGAAATATCCCTGTAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
* *
56169506 AATTATCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGCTAG
1 AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
* * *
56169560 AATTACCGAGATACCTTTGTGGGGTA-AAATTACCA
1 AATTACCGAAATACCCTTGTAGGGTAGAAA-TACCA
56169595 TTTTGCCCCT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
53 3 0.04
54 73 0.96
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AATTACCGAAATACCCTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGATAG
Found at i:56170316 original size:67 final size:67
Alignment explanation
Indices: 56170206--56170380 Score: 332
Period size: 67 Copynumber: 2.6 Consensus size: 67
56170196 GAGGAAGCAT
56170206 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAA
56170271 TA
66 TA
*
56170273 TTTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAA
56170338 TA
66 TA
*
56170340 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATA
56170381 CATATATCTG
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 105 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.31
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCATAA
TA
Found at i:56170601 original size:6 final size:6
Alignment explanation
Indices: 56170562--56170661 Score: 62
Period size: 6 Copynumber: 16.3 Consensus size: 6
56170552 TTGCATTCAC
* * * * *
56170562 ATTCTA ATTCTA ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TCACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
56170612 ATTCTG ATTCTG ATTTTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG
56170660 AT
1 AT
56170662 AATGTTTCTT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 5 0.07
6 61 0.82
7 5 0.07
8 3 0.04
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:56170602 original size:25 final size:25
Alignment explanation
Indices: 56170568--56170626 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 25
56170558 TCACATTCTA
* * *
56170568 ATTCTAATTCTATTACCTGATACTG
1 ATTCTGATTCTATCACCTAATACTG
* *
56170593 ATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTATCACCTAATACTG
56170618 ATTCTGATT
1 ATTCTGATT
56170627 TTGATTCTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (25 bp):
ATTCTGATTCTATCACCTAATACTG
Found at i:56170635 original size:18 final size:18
Alignment explanation
Indices: 56170612--56170661 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
56170602 CTGTCACCTA
56170612 ATTCTGATTCTGATTTTG
1 ATTCTGATTCTGATTTTG
*
56170630 ATTCTGATTCTCATTTTG
1 ATTCTGATTCTGATTTTG
56170648 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
56170662 AATGTTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.54
Consensus pattern (18 bp):
ATTCTGATTCTGATTTTG
Done.