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 175 of 253
Found at i:56816014 original size:103 final size:104
Alignment explanation
Indices: 56815830--56816052 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
56815820 AATGGATATC
56815830 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
56815895 GGATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
56815934 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
56815998 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
66 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
56816037 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
56816053 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 94 0.84
104 18 0.16
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (104 bp):
GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
GGATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:56823334 original size:27 final size:27
Alignment explanation
Indices: 56823299--56823350 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
56823289 CCACTGAATC
* *
56823299 GGGGAATCATCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
56823326 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
56823351 TTTCATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:56823424 original size:69 final size:71
Alignment explanation
Indices: 56823309--56823458 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
56823299 GGGGAATCAT
* *
56823309 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
56823373 ATATCG
66 ATATCG
***
56823379 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
56823443 GATATCG
65 GATATCG
56823450 CACTTAGCA
1 CACTTAGCA
56823459 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 20 0.27
70 23 0.32
71 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:56823500 original size:103 final size:103
Alignment explanation
Indices: 56823378--56823599 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
56823368 AATGGATATC
56823378 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
56823443 GAT-ATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATCA-CGCACATAGCACCACCAATAAACCGGGGAATCA
56823481 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
56823546 GATCACGCACATAGCACCACCCATAAATCGGGGAATCA
66 GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
**
56823584 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
56823600 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATCACGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:56823501 original size:26 final size:26
Alignment explanation
Indices: 56823471--56823521 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
56823461 ACCAATGAAC
*
56823471 CGGGGAATCAGCACTTAGCAACCCCT
1 CGGGGAATCAGCACATAGCAACCCCT
56823497 CGGGGAATCAGCACATAGCAACCCC
1 CGGGGAATCAGCACATAGCAACCCC
56823522 CTTTCACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.35, G:0.24, T:0.12
Consensus pattern (26 bp):
CGGGGAATCAGCACATAGCAACCCCT
Found at i:56823762 original size:20 final size:21
Alignment explanation
Indices: 56823724--56823763 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
56823714 ATTTTAATTC
* *
56823724 CAAATAAATCTCAACATATAT
1 CAAATAAATATCAAAATATAT
56823745 CAAAT-AATATCAAAATATA
1 CAAATAAATATCAAAATATA
56823764 CATTAAGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
CAAATAAATATCAAAATATAT
Found at i:56823960 original size:29 final size:29
Alignment explanation
Indices: 56823927--56823990 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
56823917 TAATCCACCA
56823927 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
56823956 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
56823986 CCCAA
1 CCCAA
56823991 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:56823964 original size:30 final size:30
Alignment explanation
Indices: 56823934--56823990 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56823924 CCACCCAACT
56823934 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
56823963 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
56823991 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:56831198 original size:21 final size:21
Alignment explanation
Indices: 56831174--56831224 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
56831164 GATGGTGACT
*
56831174 TCGGCTTCTGAGATGGATCAA
1 TCGGCTTCCGAGATGGATCAA
56831195 TCGGCTTCCGAGATGGATCAA
1 TCGGCTTCCGAGATGGATCAA
*
56831216 TCAGCTTCC
1 TCGGCTTCC
56831225 CTTGAGCAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
TCGGCTTCCGAGATGGATCAA
Found at i:56848554 original size:27 final size:27
Alignment explanation
Indices: 56848508--56848559 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56848498 CAGTAACAGT
*
56848508 TGGGCCTAGCCCATTAATAGAATCAAG
1 TGGGCCTAGCCCAGTAATAGAATCAAG
56848535 TGGGCCTAAGCCCAGT-ATAGAATCA
1 TGGGCCT-AGCCCAGTAATAGAATCA
56848560 GTATCATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
TGGGCCTAGCCCAGTAATAGAATCAAG
Found at i:56848735 original size:22 final size:22
Alignment explanation
Indices: 56848707--56848749 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56848697 ACTAAGTCAA
*
56848707 CAGGACAGCTCAACGTAGTAGG
1 CAGGACAACTCAACGTAGTAGG
* *
56848729 CAGGACAACTTAACGTCGTAG
1 CAGGACAACTCAACGTAGTAG
56848750 ATAGGACCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.16
Consensus pattern (22 bp):
CAGGACAACTCAACGTAGTAGG
Found at i:56861443 original size:43 final size:43
Alignment explanation
Indices: 56861353--56861449 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
56861343 TGTGATTACA
** **
56861353 TGTAAGACCATGTCTGGGACATTGGCATCGTTATATGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCAATATATGATAACG
* * *
56861396 TGTAAGACCTTGTCTGGGACATTGGCATCAATATTTGATAACT
1 TGTAAGACCATGTCTGGGACATTGGCATCAATATATGATAACG
56861439 TGTAAGACCAT
1 TGTAAGACCAT
56861450 ATTTGAGATA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCAATATATGATAACG
Found at i:56868871 original size:43 final size:43
Alignment explanation
Indices: 56868765--56868880 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
56868755 GATTGCCGAG
* * *
56868765 ATGTGATTACAAGTAAGACCATGTCTAGGACATTAGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGCT
* * * * *
56868808 ATATGATTTCGTGTAAGACCATGTCTGGGACATTGGGATCGCT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGCT
* * *
56868851 ATGTGATAACATGTATGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATGTCTGGGA
56868881 TATGGTATTG
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGCT
Found at i:56886969 original size:36 final size:36
Alignment explanation
Indices: 56886917--56886989 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
56886907 ATCAAAATTT
*
56886917 ATCCTAAATACAATATGAGAGCTTTCCAAGAGAACA
1 ATCCTAAATACAATATGAAAGCTTTCCAAGAGAACA
** *
56886953 ATCCTAAATATGATATGAAAGCTTTTCAAGAGAACA
1 ATCCTAAATACAATATGAAAGCTTTCCAAGAGAACA
56886989 A
1 A
56886990 GGTGATTATT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (36 bp):
ATCCTAAATACAATATGAAAGCTTTCCAAGAGAACA
Found at i:56892820 original size:14 final size:14
Alignment explanation
Indices: 56892784--56892820 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
56892774 AGGATATCAA
56892784 AACAAG-AATTAAG
1 AACAAGTAATTAAG
56892797 AACACA-TAATTAAG
1 AACA-AGTAATTAAG
56892811 AACAAGTAAT
1 AACAAGTAAT
56892821 ATATTTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.19
Consensus pattern (14 bp):
AACAAGTAATTAAG
Found at i:56905925 original size:43 final size:43
Alignment explanation
Indices: 56905877--56906043 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 43
56905867 ATTACCAAGA
56905877 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
*
56905920 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TA-
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCAT--TGTAT
** * * * * *
56905963 CATGATTTCGTGTAAGACCATGTTTGGGACCTTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * *
56906005 ATGTGATAACATGTAAGACCATATTTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
56906044 ATACGAGCAA
Statistics
Matches: 103, Mismatches: 16, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.06
43 93 0.90
44 2 0.02
45 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:56921304 original size:57 final size:56
Alignment explanation
Indices: 56921226--56921362 Score: 143
Period size: 57 Copynumber: 2.4 Consensus size: 56
56921216 GTTATGGATT
** *
56921226 GGATTTAGCCTGGACAAGTAATCTAGAGC-AAGCTCT-TTAGAGCATATGTCATAAAAA
1 GGATTTAGCCTGGACTGGTAATCT-GA-CTAAGCTCTATT-GAGCATATATCATAAAAA
* ** * *
56921283 GGATTTAGCCTGGACTGGTAATCCTGACTAAGCTCTATTGAGTATATATTGTAGACA
1 GGATTTAGCCTGGACTGGTAAT-CTGACTAAGCTCTATTGAGCATATATCATAAAAA
*
56921340 GGATTTAGCCTAGACTGGTAATC
1 GGATTTAGCCTGGACTGGTAATC
56921363 CTGTTGTCTA
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
56 2 0.03
57 62 0.91
58 4 0.06
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (56 bp):
GGATTTAGCCTGGACTGGTAATCTGACTAAGCTCTATTGAGCATATATCATAAAAA
Found at i:56921681 original size:18 final size:18
Alignment explanation
Indices: 56921658--56921694 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
56921648 ATGAATATGT
56921658 GTTCATCCTTGATTATAG
1 GTTCATCCTTGATTATAG
56921676 GTTCATCCTTGATTATAG
1 GTTCATCCTTGATTATAG
56921694 G
1 G
56921695 CTTGTAAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.19, T:0.43
Consensus pattern (18 bp):
GTTCATCCTTGATTATAG
Found at i:56928251 original size:27 final size:27
Alignment explanation
Indices: 56928221--56928292 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
56928211 TCAAGGGGTT
* *
56928221 ATTTCACAAATTAGGGGTATCTCGGTA
1 ATTTCACAAATTGGGGGTATCTCAGTA
* * * * *
56928248 ATTTTACAACTCGGGGGTATTTTAGTA
1 ATTTCACAAATTGGGGGTATCTCAGTA
56928275 ATTTCACAAATTGGGGGT
1 ATTTCACAAATTGGGGGT
56928293 CTTAACGACC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.36
Consensus pattern (27 bp):
ATTTCACAAATTGGGGGTATCTCAGTA
Found at i:56936113 original size:13 final size:13
Alignment explanation
Indices: 56936091--56936123 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56936081 AAGGGTTTGT
56936091 TTAT-TAAACTAA
1 TTATCTAAACTAA
56936103 TTATCTAAACTAA
1 TTATCTAAACTAA
*
56936116 TTAACTAA
1 TTATCTAA
56936124 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:56942632 original size:81 final size:81
Alignment explanation
Indices: 56942514--56942749 Score: 319
Period size: 81 Copynumber: 2.9 Consensus size: 81
56942504 TACTGAAATG
* * * *
56942514 CCCTCGATTTGTAGAATTACCATTTAACCCTCGATTTATAGAATTACCATTTAACCCTCGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
* *
56942579 CAGAATTACCGTTTTA
66 CAAAATTACCATTTTA
* * * * * *
56942595 CCTTCGATTTACAGAATTACCGTTTTACCCTTAATTTATAGAATTACCGTTTTACCCTAGATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
*
56942660 CAAAATTACTATTTTA
66 CAAAATTACCATTTTA
** * *
56942676 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTGCAGAATTACTATTTTACCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
56942741 CAAAATTAC
66 CAAAATTAC
56942750 TAAAATACCA
Statistics
Matches: 132, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 132 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTA
CAAAATTACCATTTTA
Found at i:56942751 original size:27 final size:27
Alignment explanation
Indices: 56942514--56942749 Score: 283
Period size: 27 Copynumber: 8.7 Consensus size: 27
56942504 TACTGAAATG
** *
56942514 CCCTCGATTTGTAGAATTACCATTTAA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
56942541 CCCTCGATTTATAGAATTACCATTTAA
1 CCCTCGATTTACAGAATTACCATTTTA
*
56942568 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
56942595 CCTTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
** * *
56942622 CCCTTAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
56942649 CCCTAGATTTACAAAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
*
56942676 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* * *
56942703 CCCTTGATTTGCAGAATTACTATTTTA
1 CCCTCGATTTACAGAATTACCATTTTA
* *
56942730 CCCTCAATTTACAAAATTAC
1 CCCTCGATTTACAGAATTAC
56942750 TAAAATACCA
Statistics
Matches: 182, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 182 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCATTTTA
Found at i:56942758 original size:27 final size:27
Alignment explanation
Indices: 56942647--56943031 Score: 133
Period size: 27 Copynumber: 14.2 Consensus size: 27
56942637 ATTACCGTTT
* * ***
56942647 TACCCTAGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
56942674 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * * * ***
56942701 TACCCTTGATTTGCAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCAAAA
* *
56942728 TACCCTCAATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * * *
56942755 TACCATTGGTTTCCAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* *
56942782 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTCGATTTA-CAAAATTACCAAAA
* * ** * *
56942809 TACCCT-GGTCTGTAAAATTGCTAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* ** *
56942835 TACCC-CTGGTTTGTAAAATTATCAAAA
1 TACCCTC-GATTTACAAAATTACCAAAA
* ** *
56942862 TACCC-CTAGTTTGTAAAGTTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
* *** *
56942889 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTACAAAATTACCAAAA
* **
56942916 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
56942943 TACCC-CTGATTTACAAAATTA-CAGAAA
1 TACCCTC-GATTTACAAAATTACCA-AAA
* *
56942970 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACCA-AAA
* * *
56942999 TACCAT-TAGTTTACAAAATTACTAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
56943026 TACCCT
1 TACCCT
56943032 TAGTTTGTAG
Statistics
Matches: 283, Mismatches: 59, Indels: 32
0.76 0.16 0.09
Matches are distributed among these distances:
26 24 0.08
27 231 0.82
28 10 0.04
29 18 0.06
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:56942853 original size:80 final size:81
Alignment explanation
Indices: 56942742--56942948 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
56942732 CTCAATTTAC
** **
56942742 AAAATTACTAAAATACCATTGGTTTCCAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
56942806 AAATACC-CTGGTCTGT
65 AAATACCACTGGTCTGT
* * * ** *
56942822 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAGTTACCAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
56942887 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* ** **
56942903 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCC
56942949 TGATTTACAA
Statistics
Matches: 106, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 2 0.02
80 62 0.58
81 42 0.40
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:56943034 original size:27 final size:27
Alignment explanation
Indices: 56942742--56943059 Score: 216
Period size: 27 Copynumber: 11.7 Consensus size: 27
56942732 CTCAATTTAC
* * * **
56942742 AAAATTACTAAAATACCATTGGTTTCC
1 AAAATTACCAAAATACCCTTAGTTTGT
* **
56942769 AAAATTACCAAAATACCC-TCGATCAGT
1 AAAATTACCAAAATACCCTTAG-TTTGT
* *
56942796 AAAATTACCAAAATACCC-TGGTCTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * * *
56942822 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
56942849 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
56942876 AAAGTTACCAAAATACCAC-TGGTTTGT
1 AAAATTACCAAAATACC-CTTAGTTTGT
* * * *
56942903 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* **
56942930 AAAATTACCAAAATACCCCT-GATTTAC
1 AAAATTACCAAAATACCCTTAG-TTTGT
* *
56942957 AAAATTA-CAGAAATACCCTTGACTTTCT
1 AAAATTACCA-AAATACCCTT-AGTTTGT
* * **
56942985 AAAAATTA-TAGAAATACCATTAGTTTAC
1 -AAAATTACCA-AAATACCCTTAGTTTGT
*
56943013 AAAATTACTAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
56943040 AGATTTACCAAAACACCCTT
1 AAAATTACCAAAATACCCTT
56943060 GTAGGATGAA
Statistics
Matches: 233, Mismatches: 48, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
26 25 0.11
27 180 0.77
28 10 0.04
29 18 0.08
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:56943155 original size:27 final size:27
Alignment explanation
Indices: 56943078--56943155 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
56943068 AAATGACTAC
* *
56943078 AATACCCTT-AATAGGTAAAAAGACCGT
1 AATACCCTTGTAT-GGTAAAATGACCGT
* * *
56943105 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCTTGTATGGTAAAATGACCGT
56943132 AATACCCTTGTATGGTAAAATGAC
1 AATACCCTTGTATGGTAAAATGAC
56943156 AAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCTTGTATGGTAAAATGACCGT
Found at i:56943808 original size:25 final size:25
Alignment explanation
Indices: 56943779--56943826 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56943769 TTATAATGTG
* * *
56943779 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
56943804 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
56943827 GTTTAATTAT
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:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:56943887 original size:20 final size:20
Alignment explanation
Indices: 56943853--56943908 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
56943843 GATACGTGGG
56943853 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
56943870 GATATGATATGCACATGATAT
1 G-TATGATATGCACATGATAT
*
56943891 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
56943909 GAATTCATAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
20 23 0.68
21 2 0.06
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.34
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:56944020 original size:26 final size:26
Alignment explanation
Indices: 56943958--56944131 Score: 273
Period size: 26 Copynumber: 6.8 Consensus size: 26
56943948 GAGGAAGTGC
*
56943958 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
56943984 -AAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
56944009 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
56944035 AAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
56944061 AAAAGGGCTTATGCCCCAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
56944087 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
56944112 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56944132 ATTAAAGAGG
Statistics
Matches: 137, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
25 55 0.40
26 82 0.60
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:56944064 original size:52 final size:52
Alignment explanation
Indices: 56943958--56944131 Score: 309
Period size: 52 Copynumber: 3.4 Consensus size: 52
56943948 GAGGAAGTGC
56943958 AAAAGGGCTTATGCCCCAGTTTATTG-AAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
56944009 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
56944061 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
56944112 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
56944132 ATTAAAGAGG
Statistics
Matches: 119, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
50 10 0.08
51 50 0.42
52 59 0.50
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:56944335 original size:42 final size:42
Alignment explanation
Indices: 56944276--56944367 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
56944266 TAGTCTCCCC
*
56944276 AAATGGGCTAGCATACATTCATTGGTATTTCATGTGATT-TTG
1 AAATGGGCTAGCATACATTCATTGATATTTCATGTG-TTATTG
*
56944318 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTAGCATACATTCATTGATATTTCATGTGTTATTG
56944360 AAATGGGC
1 AAATGGGC
56944368 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
41 2 0.04
42 45 0.96
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (42 bp):
AAATGGGCTAGCATACATTCATTGATATTTCATGTGTTATTG
Found at i:56952858 original size:58 final size:58
Alignment explanation
Indices: 56952777--56952924 Score: 151
Period size: 57 Copynumber: 2.6 Consensus size: 58
56952767 GGGTTGTTAC
* *
56952777 AAGGATTTAGCCCGGA-TGGGTAATCCTGATATAATCCC-TCTCGAGCATATGTTACA-A
1 AAGGATTTAGCCTGGACT-GGTAATCCTGATATAAGCCCTTCT-GAGCATATGTTACAGA
* ** * * * *
56952834 TTAGGATTTAGCCTGGACTGGTAATTGTAAT-TGAGCTCTTCTGAGCATATGTTATAGA
1 -AAGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTTCTGAGCATATGTTACAGA
*
56952892 AAGGATTTAGCCTGGACTGGTAATCCTGTTATA
1 AAGGATTTAGCCTGGACTGGTAATCCTGATATA
56952925 TGATATATGG
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
57 42 0.59
58 28 0.39
59 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (58 bp):
AAGGATTTAGCCTGGACTGGTAATCCTGATATAAGCCCTTCTGAGCATATGTTACAGA
Found at i:56953163 original size:23 final size:22
Alignment explanation
Indices: 56953130--56953176 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
56953120 AAATGATGTT
56953130 TTATGAAATATGGAAGCAT-GAAA
1 TTATGAAATAT-GAA-CATGGAAA
*
56953153 TTATGATATATGAACATGGAAA
1 TTATGAAATATGAACATGGAAA
56953175 TT
1 TT
56953177 TGTTTGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 3 0.14
22 9 0.41
23 10 0.45
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (22 bp):
TTATGAAATATGAACATGGAAA
Found at i:56956249 original size:40 final size:40
Alignment explanation
Indices: 56956199--56956422 Score: 317
Period size: 40 Copynumber: 5.6 Consensus size: 40
56956189 GCTACTCACT
* *
56956199 CAAATGCCTTCGGGACATAGCCCGG-TTAAAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
56956239 CAATTGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
56956279 CAAATGCCTTCGAGACTTAGCCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
56956319 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
** * * *
56956359 CAAATGCCTTCGGGACTT-GCCCGGAACTAGTCACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
56956398 CAGATGCCTTCGGGACTTTGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
56956423 TTATCATCCA
Statistics
Matches: 168, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 33 0.20
40 133 0.79
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56958452 original size:20 final size:20
Alignment explanation
Indices: 56958427--56958467 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
56958417 GTTAAATTGT
56958427 GAAATAAATGAAAAATATGG
1 GAAATAAATGAAAAATATGG
56958447 GAAATAAATGAAAAATATGG
1 GAAATAAATGAAAAATATGG
56958467 G
1 G
56958468 CTACTAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.20
Consensus pattern (20 bp):
GAAATAAATGAAAAATATGG
Found at i:56959032 original size:43 final size:43
Alignment explanation
Indices: 56958936--56959043 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
56958926 ATCGATATGT
* * * *
56958936 GATTACATGTAAGACCATGTCTGAGACATTAGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGAGACATTAGCATCGTAATCA
* *
56958979 GATTACGTGTAAGACCATGTTTGGGACATTAGCATCGTTAATCA
1 GATTACGTGTAAGACCATGTCTGAGACATTAGCATCG-TAATCA
** *
56959023 -ATTTTGTGTAAGACCCTGTCT
1 GATTACGTGTAAGACCATGTCT
56959044 AGGACAGTGG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 50 0.93
44 4 0.07
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGAGACATTAGCATCGTAATCA
Found at i:56962622 original size:15 final size:15
Alignment explanation
Indices: 56962585--56962630 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
56962575 TTCTTGTATA
*
56962585 AAATGTTTAAATA--
1 AAATATTTAAATATT
*
56962598 AAATAATTAAATATT
1 AAATATTTAAATATT
*
56962613 AAATATTTAAAGATT
1 AAATATTTAAATATT
56962628 AAA
1 AAA
56962631 CATGAAATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.41
15 16 0.59
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (15 bp):
AAATATTTAAATATT
Found at i:56966011 original size:23 final size:23
Alignment explanation
Indices: 56965985--56966034 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
56965975 GTTTAATGGA
* *
56965985 CATTATGGAACCT-CATCCATTGT
1 CATTATGCAACCTCCA-CCATTCT
*
56966008 CATTGTGCAACCTCCACCATTCT
1 CATTATGCAACCTCCACCATTCT
56966031 CATT
1 CATT
56966035 CACAACTATG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.34
Consensus pattern (23 bp):
CATTATGCAACCTCCACCATTCT
Found at i:56974938 original size:37 final size:37
Alignment explanation
Indices: 56974879--56974987 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
56974869 AGCTCAGACG
* *
56974879 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
56974916 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
56974953 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
56974988 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:56975191 original size:48 final size:48
Alignment explanation
Indices: 56975133--56975315 Score: 296
Period size: 48 Copynumber: 3.8 Consensus size: 48
56975123 GCACATCGCC
*
56975133 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* * *
56975181 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
56975229 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATTTCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
56975277 TACATTTTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
56975316 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
47 1 0.01
48 122 0.98
49 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:56975364 original size:47 final size:47
Alignment explanation
Indices: 56975237--56975478 Score: 290
Period size: 47 Copynumber: 5.1 Consensus size: 47
56975227 CATACATATT
* * * * **
56975237 TCACATTAGCCATTCGGCTTTACCACATATA--CATTTCTCATACATTTT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGT-TC--ACATTCA
* * * *
56975285 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
56975332 CCACATTGGCCATTCGGCCTTATCACACATATGCGTGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56975379 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* **
56975426 TCACATTGGCCATTCGGCCTTATCTCATATATGCACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
56975473 TCACAT
1 TCACAT
56975479 AAAATCCTAA
Statistics
Matches: 173, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
47 136 0.79
48 31 0.18
49 2 0.01
50 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:56975405 original size:22 final size:22
Alignment explanation
Indices: 56975378--56975449 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
56975368 GCTCACATTC
56975378 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
56975400 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
56975424 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
56975447 ATC
1 ATC
56975450 TCATATATGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:56975479 original size:25 final size:25
Alignment explanation
Indices: 56975400--56975479 Score: 69
Period size: 25 Copynumber: 3.3 Consensus size: 25
56975390 ATTCGGCCTT
**
56975400 ATCACATATATGCATGTTCACATTC
1 ATCACATATATGCACATTCACATTC
* * *
56975425 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACATTC-ACATTC
*
56975447 ATCTCATATATGCACATTCACATTC
1 ATCACATATATGCACATTCACATTC
56975472 ATCACATA
1 ATCACATA
56975480 AAATCCTAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
22 9 0.22
23 6 0.15
24 6 0.15
25 19 0.47
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACATTCACATTC
Found at i:56979816 original size:30 final size:30
Alignment explanation
Indices: 56979759--56979816 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56979749 TTTTCGAGCA
* *
56979759 TAGGGGTAAAATGATCATTTTGCCAAAGTC
1 TAGGGGCAAAATGATCATTTTACCAAAGTC
* *
56979789 TAGGGGCAAAATGGTCATTTTATCAAAG
1 TAGGGGCAAAATGATCATTTTACCAAAG
56979817 ATGTGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGATCATTTTACCAAAGTC
Found at i:56980417 original size:48 final size:46
Alignment explanation
Indices: 56980208--56980424 Score: 190
Period size: 48 Copynumber: 4.6 Consensus size: 46
56980198 AATGAGCGTT
*
56980208 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGATGATGATAGCC
* * * *
56980255 AGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGA-GTTG-T-GCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGATGATGATAGCC
* * * ** * *
56980299 AGTGTAAGACATGTCTAGGACATGCATCAGCACGCATAGGCGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTCG-AT-GATGATAGCC
*
56980347 AGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGATGATGATAGCC
**
56980396 AGT-TAAGACCATGTCCAGGACATGACATC
1 AGTGTAAGA-CATGTCTGGGACATG-CATC
56980425 TGCAACTTAT
Statistics
Matches: 138, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
43 1 0.01
44 31 0.22
45 1 0.01
46 7 0.05
47 32 0.23
48 33 0.24
49 22 0.16
50 8 0.06
51 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGATGATGATAGCC
Found at i:56981277 original size:55 final size:55
Alignment explanation
Indices: 56981203--56981322 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 55
56981193 AATCAATTTA
* ** * *
56981203 GTACAGGGGCAGGCCACACGGGTGTGTGTCGTGGCCGTGTTTTAAAGTCAGTGTT
1 GTACAGGGGCAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
* *
56981258 GTACATGGGTAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
1 GTACAGGGGCAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
* *
56981313 GCACACGGGC
1 GTACAGGGGC
56981323 TAACGGTACA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.19, C:0.20, G:0.36, T:0.25
Consensus pattern (55 bp):
GTACAGGGGCAGGACACACGGGCATGTGTCATGGCCGTGTTTCAAAGTCAGTGTT
Found at i:56983992 original size:65 final size:65
Alignment explanation
Indices: 56983805--56984072 Score: 324
Period size: 65 Copynumber: 4.1 Consensus size: 65
56983795 CTTAAGAAGA
* ** *
56983805 TAAAGCCACTTTAAAGAAGTGTGTTATCTAAGTTCACTTTAAAGAAGCATGTTACCTTAAAGAGG
1 TAAAGCCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGG
* * *
56983870 TAAATCCACTTTAAA-AAGTGTGTCGTCTAAGTTTGCTTTAAAGAAGTGTGTTACCTTAAAGAGG
1 TAAAGCCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGG
* *** * * *
56983934 TAAAGCCACTTTAAAGAACTACATCATCTAATTTTGCTTTAAAGAAGTGTGTTTCCTTAAAGAGG
1 TAAAGCCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGG
* * * * * *
56983999 TAAAG-CATCTTTAACGAAATGTGTCTTTTAAGTTTTCTTTAAAGAAGCGTGTTACCTTAAAGAA
1 TAAAGCCA-CTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAG
*
56984063 C
65 G
56984064 TAAAGCCAC
1 TAAAGCCAC
56984073 AAGTAAAGTT
Statistics
Matches: 172, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
64 59 0.34
65 111 0.65
66 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (65 bp):
TAAAGCCACTTTAAAGAAGTGTGTCATCTAAGTTTGCTTTAAAGAAGCGTGTTACCTTAAAGAGG
Found at i:56987358 original size:31 final size:32
Alignment explanation
Indices: 56987297--56987361 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 32
56987287 GATTTTTTGA
*
56987297 AGAAACAAATAAACTAAACTATGAAAACCTAAG
1 AGAAACAAATAAAATAAACTA-GAAAACCTAAG
56987330 AGAAACAAA-AAAATAAATCTA-AAAACCTAAG
1 AGAAACAAATAAAATAAA-CTAGAAAACCTAAG
56987361 A
1 A
56987362 AAGAATCTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 11 0.37
32 7 0.23
33 12 0.40
ACGTcount: A:0.65, C:0.14, G:0.08, T:0.14
Consensus pattern (32 bp):
AGAAACAAATAAAATAAACTAGAAAACCTAAG
Found at i:56987464 original size:35 final size:35
Alignment explanation
Indices: 56987417--56987490 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
56987407 ATCCTATTTA
* *
56987417 TAGCCTTTAGGTAGCCG-CTGTCCTTAACCCTAGGT
1 TAGCCTTCAGGTAGCCGTC-ATCCTTAACCCTAGGT
*
56987452 TAGCCTTCAGGTAGTCGTCATCCTTAACCCTAGGT
1 TAGCCTTCAGGTAGCCGTCATCCTTAACCCTAGGT
56987487 TAGC
1 TAGC
56987491 TAATGTTCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (35 bp):
TAGCCTTCAGGTAGCCGTCATCCTTAACCCTAGGT
Found at i:56992822 original size:21 final size:20
Alignment explanation
Indices: 56992788--56992827 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
56992778 CACTTGAAAC
*
56992788 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
56992808 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
56992828 TCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:56994110 original size:49 final size:50
Alignment explanation
Indices: 56993999--56994181 Score: 184
Period size: 49 Copynumber: 3.7 Consensus size: 50
56993989 TAGGGTATGA
* * * *
56993999 TGCCGATGCCATGTCCCGGACATGGTCTTACCCTGGCTCATC-C--ATCAAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACAAATC-AG
*
56994048 T--CAATGCCATGTCCCAGACATGGTCTTACACTGACTTTCA-AAATCTAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACAAATC-AG
* *
56994096 -GCCAATGCCATGTCCCAGACATGGTCTTACACT-AGCTCTCACATATCCG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGA-CTCTCACAAATCAG
* * *
56994145 TGCCGATGACATGTCCCAAACATGGTCTTACACTGAC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGAC
56994182 ACATCTCGTA
Statistics
Matches: 113, Mismatches: 12, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
46 2 0.02
47 31 0.27
48 6 0.05
49 38 0.34
50 35 0.31
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACAAATCAG
Found at i:56994233 original size:46 final size:47
Alignment explanation
Indices: 56994055--56994360 Score: 231
Period size: 46 Copynumber: 6.5 Consensus size: 47
56994045 AAGTCAATGC
* * * * *
56994055 CATGTCCCAGACATGGTCTTACACTGACTTTCAAAATC-TAGGCCAATG
1 CATGTCCCAAACAT-GTCTTACACTGGCTTAC-ATATCGTAGGCCGATG
* *
56994103 CCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT--GCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTGGCT-T-ACATAT-CGTAGGCCGATG
* *
56994153 ACATGTCCCAAACATGGTCTTACACTGAC--ACATCTCGTA-GCCGATG
1 -CATGTCCCAAACAT-GTCTTACACTGGCTTACATATCGTAGGCCGATG
*
56994199 CATGTCCCAAACATGTCTTACACTGGCTTACATCTC-TAGGCCGATG
1 CATGTCCCAAACATGTCTTACACTGGCTTACATATCGTAGGCCGATG
* * * * * * * **
56994245 CTTGTCCTAGACATGTCTTACACTAGC-T-CTTGTCTTAACACCGATG
1 CATGTCCCAAACATGTCTTACACTGGCTTACATATCGT-AGGCCGATG
*
56994291 CATGTCTCAAACATGTCTTACACTGGCTCT-CATAAT-GT-GGCCGATG
1 CATGTCCCAAACATGTCTTACACTGGCT-TACAT-ATCGTAGGCCGATG
*
56994337 CATGTCCCATACATGTCTTACACT
1 CATGTCCCAAACATGTCTTACACT
56994361 AGCACACAAA
Statistics
Matches: 213, Mismatches: 31, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
44 16 0.08
45 21 0.10
46 106 0.50
48 4 0.02
49 28 0.13
50 35 0.16
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (47 bp):
CATGTCCCAAACATGTCTTACACTGGCTTACATATCGTAGGCCGATG
Found at i:56994291 original size:92 final size:92
Alignment explanation
Indices: 56994104--56994363 Score: 269
Period size: 92 Copynumber: 2.8 Consensus size: 92
56994094 AGGCCAATGC
* * * * *
56994104 CATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGACATGTCCCAAACATG
1 CATGTCCCAAACAT-GTCTTACACTGGCTCTCATA-ATCTG-GCCGATG-CATGTCCCAGACAT-
* * * * *
56994169 GTCTTACACT-GACACATCTCGT-A-GCCGATG
61 GTCTTACACTAG-CTCTTGTCTTAACACCGATG
* * *
56994199 CATGTCCCAAACATGTCTTACACTGGCT-TACAT-CTCTAGGCCGATGCTTGTCCTAGACATGTC
1 CATGTCCCAAACATGTCTTACACTGGCTCT-CATAATCT-GGCCGATGCATGTCCCAGACATGTC
56994262 TTACACTAGCTCTTGTCTTAACACCGATG
64 TTACACTAGCTCTTGTCTTAACACCGATG
* * *
56994291 CATGTCTCAAACATGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCATACATGTCTT
1 CATGTCCCAAACATGTCTTACACTGGCTCTCATAATCTGGCCGATGCATGTCCCAGACATGTCTT
56994356 ACACTAGC
66 ACACTAGC
56994364 ACACAAATAA
Statistics
Matches: 139, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
90 16 0.12
91 13 0.09
92 77 0.55
93 5 0.04
94 15 0.11
95 13 0.09
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (92 bp):
CATGTCCCAAACATGTCTTACACTGGCTCTCATAATCTGGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCTCTTGTCTTAACACCGATG
Found at i:56995233 original size:39 final size:39
Alignment explanation
Indices: 56995177--56995313 Score: 213
Period size: 39 Copynumber: 3.5 Consensus size: 39
56995167 TAAGCCTTCG
*
56995177 GGACTTTAAG-CCTGGATATATTTCCAGCATGTAGCCTGC
1 GGACTTTAAGTCC-GGATATATTTCCAGCATATAGCCTGC
* * *
56995216 GGACCTGAAGTCCGGATATATTTCCCGCATATAGCCTGC
1 GGACTTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
56995255 GGACTTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
1 GGACTTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
*
56995294 AGACTTTAAGTCCGGATATA
1 GGACTTTAAGTCCGGATATA
56995314 ATTTTCAAAT
Statistics
Matches: 89, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
39 87 0.98
40 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (39 bp):
GGACTTTAAGTCCGGATATATTTCCAGCATATAGCCTGC
Found at i:57005042 original size:46 final size:45
Alignment explanation
Indices: 57004909--57005170 Score: 230
Period size: 46 Copynumber: 5.6 Consensus size: 45
57004899 AATCGAGGCT
* * *
57004909 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCACATATCTGTGCC
1 GATG-CATGTCCCAGACA-TGTCTTACACT-G-TCTTACATCTCT-AGCC
**
57004959 GATGCCATGTCCCAGACATGGTCTTACACTAAC--ACATCTCATAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGTCTTACATCTC-TAGCC
* *
57005005 GATGCATGTCCCAGACATCTCTTACACTGTCTTACATCTCGAGCCC
1 GATGCATGTCCCAGACATGTCTTACACTGTCTTACATCTCTAG-CC
*
57005051 GATGCATGTCCCAGACATGTCTTACACTAG-CTCT-CATCT-TAATACC
1 GATGCATGTCCCAGACATGTCTTACACT-GTCT-TACATCTCT-A-GCC
* * * *
57005097 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAATGTGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGTCT-TACAT-CTCTAGCC
*
57005143 GATGCATGTCTCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
57005171 AGCACACAAA
Statistics
Matches: 185, Mismatches: 15, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
44 10 0.05
45 17 0.09
46 123 0.66
47 4 0.02
48 2 0.01
49 1 0.01
50 28 0.15
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTGTCTTACATCTCTAGCC
Found at i:57005099 original size:92 final size:91
Alignment explanation
Indices: 57004909--57005178 Score: 316
Period size: 92 Copynumber: 2.9 Consensus size: 91
57004899 AATCGAGGCT
*
57004909 GATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCACATATCTGTGCCGATGCCATGTCCCAG
1 GATG-CATGTCCCAGACA-TGTCTTACACT-G-TCTTACATATC-GTGCCGATG-CATGTCCCAG
*
57004974 ACATGGTCTTACACTA--ACACATCTCATAGCC
60 ACAT-GTCTTACACTAGCACACATCTAATAGCC
* * *
57005005 GATGCATGTCCCAGACATCTCTTACACTGTCTTACATCTCGAGCCCGATGCATGTCCCAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGTCTTACATATCGTG-CCGATGCATGTCCCAGACATG
* *
57005070 TCTTACACTAGCTCTCATCTTAATA-CC
65 TCTTACACTAGCACACATC-TAATAGCC
* *
57005097 GATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCTCAGACA
1 GATGCATGTCCCAGACATGTCTTACACTGTCT-TACAT-ATCGT-GCCGATGCATGTCCCAGACA
57005160 TGTCTTACACTAGCACACA
63 TGTCTTACACTAGCACACA
57005179 AATGACCCAA
Statistics
Matches: 153, Mismatches: 14, Indels: 18
0.83 0.08 0.10
Matches are distributed among these distances:
90 11 0.07
91 16 0.10
92 91 0.59
93 8 0.05
94 10 0.07
95 13 0.08
96 4 0.03
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (91 bp):
GATGCATGTCCCAGACATGTCTTACACTGTCTTACATATCGTGCCGATGCATGTCCCAGACATGT
CTTACACTAGCACACATCTAATAGCC
Found at i:57005151 original size:138 final size:142
Alignment explanation
Indices: 57004814--57005170 Score: 345
Period size: 138 Copynumber: 2.5 Consensus size: 142
57004804 TATAATGCCA
* * * * * * *
57004814 ATGCCATGTCCCAGATATGGTCTTACACTAGCTCATC-CATCAAGTCTATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTAAT--AGCCGATG-CATGTCCCAGACA
* * * * ** * *
57004878 TGGTCTTATACTGACTTTCGAAATCGAGGCTGATGCCATGTCCCAGACATTGTCTTACACTAGCT
63 T-CTCTTACACTGTCTTAC-ATCTCGAGCCCGATGCCATGTCCCAGACATTGTCTTACACTAGCT
** *
57004943 CTCACATATCTGTGCCG
126 CTCACATATCAATACCG
*
57004960 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCATAGCCGATGCATGTCCCAGACATCT
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTAATAGCCGATGCATGTCCCAGACATCT
57005025 CTTACACTGTCTTACATCTCGAGCCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCTCAT
66 CTTACACTGTCTTACATCTCGAGCCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCA-
57005088 C-T-T-AATACCG
130 CATATCAATACCG
** * * *
57005098 ATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCATAATGTGGCCGATGCATGTCTCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTAACACATC-TAA--TAGCCGATGCATGTCCCAGACA
*
57005160 TGTCTTACACT
63 TCTCTTACACT
57005171 AGCACACAAA
Statistics
Matches: 182, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
135 2 0.01
136 14 0.08
137 14 0.08
138 37 0.20
139 1 0.01
140 20 0.11
141 14 0.08
142 11 0.06
143 13 0.07
144 13 0.07
145 6 0.03
146 34 0.19
147 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (142 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAACACATCTAATAGCCGATGCATGTCCCAGACATCT
CTTACACTGTCTTACATCTCGAGCCCGATGCCATGTCCCAGACATTGTCTTACACTAGCTCTCAC
ATATCAATACCG
Found at i:57005259 original size:15 final size:15
Alignment explanation
Indices: 57005239--57005270 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
57005229 CCGGGAGTCC
57005239 TACTATCTCAATATT
1 TACTATCTCAATATT
57005254 TACTATCTCAATATT
1 TACTATCTCAATATT
57005269 TA
1 TA
57005271 TCATACATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (15 bp):
TACTATCTCAATATT
Found at i:57006316 original size:20 final size:21
Alignment explanation
Indices: 57006288--57006326 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
57006278 TTCATGCACT
*
57006288 CATATAATAAT-ACAAAAACA
1 CATAAAATAATAACAAAAACA
*
57006308 CATAAAATATTAACAAAAA
1 CATAAAATAATAACAAAAA
57006327 AAATTATCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.67, C:0.13, G:0.00, T:0.21
Consensus pattern (21 bp):
CATAAAATAATAACAAAAACA
Found at i:57008283 original size:20 final size:20
Alignment explanation
Indices: 57008258--57008297 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
57008248 AATACCAAAC
57008258 TTGTAATTATTTTATTTTTA
1 TTGTAATTATTTTATTTTTA
57008278 TTGTAATTATTTTATTTTTA
1 TTGTAATTATTTTATTTTTA
57008298 GTATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTGTAATTATTTTATTTTTA
Found at i:57009224 original size:37 final size:38
Alignment explanation
Indices: 57009183--57009256 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
57009173 GAGGGTTAAG
*
57009183 TCTTAA-AGTTTGGGTAGAAACCTTAAGGGAG-TTGTAC
1 TCTTAAGA-TTTGGGTAAAAACCTTAAGGGAGATTGTAC
* *
57009220 TCTTAAGATTTTGGTAAAAATCTTAAGGGAGATTGTA
1 TCTTAAGATTTGGGTAAAAACCTTAAGGGAGATTGTA
57009257 AGGTTAAACA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 26 0.81
38 6 0.19
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (38 bp):
TCTTAAGATTTGGGTAAAAACCTTAAGGGAGATTGTAC
Found at i:57011763 original size:48 final size:48
Alignment explanation
Indices: 57011703--57011971 Score: 247
Period size: 48 Copynumber: 5.6 Consensus size: 48
57011693 TATGTGTGCT
* * *
57011703 AGTGTAACACCATGTCTAGGACATGGCGTCGACCATGATATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
* * * * * * *
57011751 AATGTAAGACCATGTTTGGAACATGGCATCGGCAATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
* * ** * * * *
57011799 AGTGTAAGACCATGTTTGGGACATGGCATCGGCGTTGACATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
* * * *
57011847 AGTGTAAGACCATGTTTGGGACATGTCATC-AGCCA-CATCAGGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CCATGAT-ATGAGAGCC
* * *
57011895 AATGTAAGACCATGTCTGGGACATGGCATCGACC-TCGACATGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCAT-GATATGAGAGCC
* *
57011943 AGTGTAAGACCATGTTTGGAACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
57011972 TGGCAATTCT
Statistics
Matches: 176, Mismatches: 40, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
47 1 0.01
48 173 0.98
49 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCATGATATGAGAGCC
Found at i:57011871 original size:96 final size:94
Alignment explanation
Indices: 57011705--57011978 Score: 325
Period size: 96 Copynumber: 2.9 Consensus size: 94
57011695 TGTGTGCTAG
* * * * * *
57011705 TGTAACACCATGTCTAGGACATGGCGTCGACCAT-GATATGAGAGCCAATGTAAGACCATGTTTG
1 TGTAAGACCATGTCTGGGACATGGCATCGACC-TCGACATGTGAGCCAGTGTAAGACCATGTTTG
** *
57011769 GAACATGGCATCGGCAATGTTGTGAGAGCCAG
65 GAACATGGCATCGGCAAT-CAG-GAGAGCCAA
* * * * * *
57011801 TGTAAGACCATGTTTGGGACATGGCATCGGCGTTGACATGTGCGCTAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
* * *
57011866 GACATGTCATCAGCCACATCAGGAGAGCCAA
66 AACATGGCATC-GGCA-ATCAGGAGAGCCAA
57011897 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
*
57011962 AACATGGCATTGGCAAT
66 AACATGGCATCGGCAAT
57011979 TCTCCCTCTT
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
94 2 0.01
95 4 0.03
96 136 0.92
97 4 0.03
98 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.24
Consensus pattern (94 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACCTCGACATGTGAGCCAGTGTAAGACCATGTTTGG
AACATGGCATCGGCAATCAGGAGAGCCAA
Found at i:57013773 original size:37 final size:37
Alignment explanation
Indices: 57013723--57013801 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
57013713 TTATTATGAA
* *
57013723 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
57013760 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
57013797 GTCTT
1 GTCTT
57013802 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:57013998 original size:47 final size:47
Alignment explanation
Indices: 57013920--57014316 Score: 614
Period size: 47 Copynumber: 8.4 Consensus size: 47
57013910 CCCTTCCGGA
* * * * * * * *
57013920 CTTATCACATTTATGCACTTTCACGTCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57013967 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57014014 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTATGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57014061 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57014108 CTTGTCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57014155 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
57014204 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
57014251 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
57014298 CTTATCACATATATACACT
1 CTTATCACATATATACACT
57014317 GTCTTGGCTG
Statistics
Matches: 322, Mismatches: 26, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 276 0.86
49 46 0.14
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:57014230 original size:143 final size:143
Alignment explanation
Indices: 57013920--57014312 Score: 637
Period size: 143 Copynumber: 2.8 Consensus size: 143
57013910 CCCTTCCGGA
* * * * * * * * * * *
57013920 CTTATCACATTTATGCACTTTCACGTCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTGTCACACATATACAC
57013985 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
* *
57014048 TCGGCTATTATGC
131 TCGGCCATTAGGC
57014061 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTGTCACACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTGTCACACATATACAC
57014126 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
57014191 TCGGCCATTAGGC
131 TCGGCCATTAGGC
* *
57014204 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTGTCACACATATACAC
57014269 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
57014313 CACTGTCTTG
Statistics
Matches: 235, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 91 0.39
143 144 0.61
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTGTCACACATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:57025444 original size:32 final size:32
Alignment explanation
Indices: 57025403--57025467 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
57025393 TTTTCGGAGT
57025403 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
1 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
57025435 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
1 TCAAAAATATTTAAAAATTCAATAGAAAGAGG
57025467 T
1 T
57025468 TTTCCAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.26
Consensus pattern (32 bp):
TCAAAAATATTTAAAAATTCAATAGAAAGAGG
Found at i:57027268 original size:26 final size:26
Alignment explanation
Indices: 57027239--57027346 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
57027229 TGGTACAAAT
57027239 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
57027265 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
57027291 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
57027317 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
57027343 TGAT
1 TGAT
57027347 GGGCATTTCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:57042690 original size:40 final size:39
Alignment explanation
Indices: 57042599--57042821 Score: 198
Period size: 40 Copynumber: 5.6 Consensus size: 39
57042589 TCCTCGTTCA
* * * *
57042599 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACCCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
*
57042638 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* *
57042677 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
* * * * *
57042717 AAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCACAC
** * * * *
57042757 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCA-CAC
* *
57042798 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
57042822 CAGCATTCAA
Statistics
Matches: 153, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 9 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCACAC
Found at i:57042781 original size:80 final size:79
Alignment explanation
Indices: 57042597--57042821 Score: 222
Period size: 80 Copynumber: 2.8 Consensus size: 79
57042587 GCTCCTCGTT
* * * * *
57042597 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACCCACACAATGCCTTCGGGACTTAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
*
57042661 ATTTAATAACTCACA
65 ACTTAATAACTCACA
* * *
57042676 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* * *
57042741 AACTT-GTATCTCGCA
64 AACTTAATAACTCACA
* * * * *
57042756 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
57042820 GA
63 GA
57042822 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 20, Indels: 11
0.79 0.13 0.07
Matches are distributed among these distances:
78 1 0.01
79 38 0.32
80 69 0.57
81 12 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
CTTAATAACTCACA
Found at i:57042830 original size:41 final size:41
Alignment explanation
Indices: 57042753--57042830 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
57042743 CTTGTATCTC
* * *
57042753 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
57042794 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
57042831 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:57045402 original size:93 final size:93
Alignment explanation
Indices: 57045243--57045413 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
57045233 GGATGGTTGA
* **
57045243 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCGTTGAGT
57045308 TGAGTCCGAGTTCGTGAGATGTACCTAG
66 TGAGTCCGAGTTCGTGAGATGTACCTAG
* *
57045336 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAA-CTCGTTGAG
57045400 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
57045414 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTACCTAG
Found at i:57045416 original size:46 final size:45
Alignment explanation
Indices: 57045247--57045418 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
57045237 GGTTGAGCAT
* *
57045247 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * ** *
57045292 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTACCTAGG
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--CGAACG
57045337 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 C--C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
57045385 CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
57045419 GGGGCGGGTT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
43 4 0.04
44 1 0.01
45 6 0.06
46 56 0.54
47 26 0.25
48 6 0.06
50 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:57048710 original size:19 final size:19
Alignment explanation
Indices: 57048650--57048726 Score: 86
Period size: 19 Copynumber: 4.1 Consensus size: 19
57048640 AGTTTAATTA
*
57048650 TTAAATAATCTTAATTAAT
1 TTAATTAATCTTAATTAAT
* *
57048669 TTAATTAGA-CTTTATT-TT
1 TTAATTA-ATCTTAATTAAT
57048687 TTAATTAATCTTAATTAAT
1 TTAATTAATCTTAATTAAT
*
57048706 TTAATTAAACTTTAATTAAT
1 TTAATTAATC-TTAATTAAT
57048726 T
1 T
57048727 AACCATAAGC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
17 1 0.02
18 14 0.29
19 22 0.46
20 11 0.23
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.53
Consensus pattern (19 bp):
TTAATTAATCTTAATTAAT
Found at i:57048728 original size:19 final size:19
Alignment explanation
Indices: 57048642--57048728 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 19
57048632 TTATACTTAG
* *
57048642 TTTAATT-ATTAAATAATC
1 TTTAATTAATTAATTAAAC
*
57048660 -TTAATTAATTTAATTAGAC
1 TTTAATTAA-TTAATTAAAC
** *
57048679 TTT-ATTTTTTAATTAATC
1 TTTAATTAATTAATTAAAC
57048697 -TTAATTAATTTAATTAAAC
1 TTTAATTAA-TTAATTAAAC
57048716 TTTAATTAATTAA
1 TTTAATTAATTAA
57048729 CCATAAGCAC
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
17 8 0.15
18 12 0.23
19 23 0.43
20 10 0.19
ACGTcount: A:0.41, C:0.05, G:0.01, T:0.53
Consensus pattern (19 bp):
TTTAATTAATTAATTAAAC
Found at i:57058220 original size:18 final size:18
Alignment explanation
Indices: 57058197--57058242 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
57058187 GAGTTAAACG
*
57058197 AATCGAATTATTCGAGTT
1 AATCGAATTATTCGAGTC
*
57058215 AATCGAGTTATTCGAGTC
1 AATCGAATTATTCGAGTC
57058233 AACTCGAATT
1 AA-TCGAATT
57058243 TTTTTTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (18 bp):
AATCGAATTATTCGAGTC
Found at i:57067335 original size:25 final size:25
Alignment explanation
Indices: 57067293--57067350 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
57067283 TCATGTACAA
* *
57067293 GTATGCTGATATGGGCTGT-GAAACG
1 GTATGCTCATATGAGCTGTAG-AACG
* *
57067318 GTATGCTCATTTGAGCTGTAGATCG
1 GTATGCTCATATGAGCTGTAGAACG
57067343 GTATGCTC
1 GTATGCTC
57067351 TCACGAGTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 27 0.96
26 1 0.04
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.33
Consensus pattern (25 bp):
GTATGCTCATATGAGCTGTAGAACG
Found at i:57070609 original size:42 final size:42
Alignment explanation
Indices: 57070548--57070657 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 42
57070538 GTTAGGATTA
**
57070548 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
* * * *
57070590 TGTGTAAGACCATAGCTGGGCTATTGGCATCGGTATGAGATCC
1 CGTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCC
* *
57070633 CATGTAAGACCATATCTGAGATATG
1 CGTGTAAGACCATATCTGGGATATG
57070658 ACATTGGTAT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 22 0.39
43 34 0.61
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATATGAGATCC
Found at i:57078127 original size:42 final size:42
Alignment explanation
Indices: 57078076--57078183 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 42
57078066 TAAGATTACG
* **
57078076 TGTAAGACCATATTTGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATTTAGGATATGGCATCGATATGAGATCCCA
* * *
57078118 TGTAAGACCATATCTAGGCTATTGGCATTGATATGAGATCCCA
1 TGTAAGACCATATTTAGGATA-TGGCATCGATATGAGATCCCA
*
57078161 TGTAAGACCATATTTTGGATATG
1 TGTAAGACCATATTTAGGATATG
57078184 TCATTGGTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 20 0.36
43 36 0.64
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATATTTAGGATATGGCATCGATATGAGATCCCA
Found at i:57099353 original size:13 final size:13
Alignment explanation
Indices: 57099335--57099359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57099325 ACAGACGATA
57099335 AAATTTTCACACG
1 AAATTTTCACACG
57099348 AAATTTTCACAC
1 AAATTTTCACAC
57099360 ATATCTTATC
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:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:57103844 original size:27 final size:27
Alignment explanation
Indices: 57103813--57103963 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
57103803 TAAATTGTAC
57103813 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
57103840 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
57103865 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
57103894 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
57103922 AGCACTAAGTGTGCGATTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
57103949 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
57103964 GACTCAATAT
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.04
27 75 0.71
28 23 0.22
29 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:57103954 original size:82 final size:81
Alignment explanation
Indices: 57103814--57103963 Score: 221
Period size: 82 Copynumber: 1.8 Consensus size: 81
57103804 AAATTGTACA
* *
57103814 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
57103879 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** * *
57103895 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTAT-ATAGCACTGAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
57103959 GTGCG
64 GTGCG
57103964 GACTCAATAT
Statistics
Matches: 61, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 17 0.28
82 44 0.72
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:57111288 original size:14 final size:13
Alignment explanation
Indices: 57111269--57111306 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
57111259 ATTTAATGTT
57111269 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
57111283 TAATTATTAAGGA
1 TAATTATTTAGGA
57111296 TAATTATTTAG
1 TAATTATTTAG
57111307 ATTTAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:57111335 original size:10 final size:10
Alignment explanation
Indices: 57111320--57111371 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
57111310 TAAATTTAGG
57111320 ATTTATTTTT
1 ATTTATTTTT
*
57111330 ATTTATCTTT
1 ATTTATTTTT
*
57111340 AATTATCTTTT
1 ATTTAT-TTTT
*
57111351 -TTTATTTGT
1 ATTTATTTTT
57111360 ATTTATCTTTT
1 ATTTAT-TTTT
57111371 A
1 A
57111372 GAATTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
9 3 0.09
10 23 0.70
11 7 0.21
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:57111354 original size:20 final size:21
Alignment explanation
Indices: 57111322--57111371 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
57111312 AATTTAGGAT
57111322 TTAT-TTTTATTTATCTT-TAA
1 TTATCTTTTATTTAT-TTGTAA
*
57111342 TTATCTTTT-TTTATTTGTAT
1 TTATCTTTTATTTATTTGTAA
57111362 TTATCTTTTA
1 TTATCTTTTA
57111372 GAATTTAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 20 0.77
21 4 0.15
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATCTTTTATTTATTTGTAA
Found at i:57113237 original size:21 final size:20
Alignment explanation
Indices: 57113209--57113247 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57113199 TCCTTAAAAT
*
57113209 AGGGAACACGCCTGTGTGGA
1 AGGGAACACGCCCGTGTGGA
57113229 AGGGCAACACGCCCGTGTG
1 AGGG-AACACGCCCGTGTG
57113248 ACCAACTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.26, G:0.38, T:0.13
Consensus pattern (20 bp):
AGGGAACACGCCCGTGTGGA
Found at i:57114468 original size:48 final size:49
Alignment explanation
Indices: 57114357--57114628 Score: 194
Period size: 46 Copynumber: 5.8 Consensus size: 49
57114347 AGGTAAGCTG
* * * ** *
57114357 CCGATGCCATGTCCC-GAACATGGTCTTACACTGGCTATCATTATTGAG-G
1 CCGATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCTC-GTATCAAGTA
* * *
57114406 CTGATGCCATATCCCAGACATGGTCTTACACTAGCTCTCGTATC-CGTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAAGTA
* * * * **
57114454 CTGATGCCATATCCCAGACATGGTCTTACACT-G-ACAC--ATCTCGTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAAGTA
* * * *
57114499 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TACGTCTCAAG-G
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CGTATCAAGTA
* * * *
57114546 CCGATG-CATGTCCCAGACAT-GCCTTACACTAGCACTCGTCTCAA-TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAAGTA
*
57114592 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
57114629 ACACCAATGA
Statistics
Matches: 184, Mismatches: 26, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
44 13 0.07
45 17 0.09
46 53 0.29
47 17 0.09
48 50 0.27
49 33 0.18
50 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTATCAAGTA
Found at i:57114616 original size:138 final size:143
Alignment explanation
Indices: 57114356--57114624 Score: 352
Period size: 138 Copynumber: 1.9 Consensus size: 143
57114346 AAGGTAAGCT
* * ** *
57114356 GCCGATGCCATGTCCCGAACATGGTCTTACACTGGCTATCATTATTGAGGCTGATGCCATATCCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCAGTATCAAGGCCGATGCCATATCCC
* * ** *
57114421 AGACATGGTCTTACACTAGCTCTCGTATCCGTACTGATGCCATATCCCAGACATGGTCTTACACT
66 AGACATGGCCTTACACTAGCACTCGTATCAATACCGATGCCATATCCCAGACATGGTCTTACACT
57114486 GACACATCTCGTA
131 GACACATCTCGTA
* *
57114499 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-T-ACGTCTCAAGGCCGATG-CATGTCC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCA-GTATCAAGGCCGATGCCATATCC
* * *
57114559 CAGACAT-GCCTTACACTAGCACTCGTCTCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
65 CAGACATGGCCTTACACTAGCACTCGTATCAATACCGATGCCATATCCCAGACATGGTCTTACAC
57114623 TG
130 TG
57114625 GCTCACACCA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
138 51 0.46
139 14 0.13
140 11 0.10
141 14 0.13
142 13 0.12
143 7 0.06
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (143 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTATCAGTATCAAGGCCGATGCCATATCCC
AGACATGGCCTTACACTAGCACTCGTATCAATACCGATGCCATATCCCAGACATGGTCTTACACT
GACACATCTCGTA
Found at i:57120808 original size:13 final size:13
Alignment explanation
Indices: 57120789--57120819 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
57120779 CGAGTAAGTA
57120789 AAAAAAATAGAAAT
1 AAAAAAATA-AAAT
57120803 AAAAAAATAAAAT
1 AAAAAAATAAAAT
57120816 AAAA
1 AAAA
57120820 TTAAAAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:57120816 original size:19 final size:18
Alignment explanation
Indices: 57120788--57120825 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
57120778 TCGAGTAAGT
57120788 AAAAAAAATAGAAA-TAAA
1 AAAAAAAATA-AAATTAAA
57120806 AAAATAAAATAAAATTAAA
1 AAAA-AAAATAAAATTAAA
57120825 A
1 A
57120826 GTGAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (18 bp):
AAAAAAAATAAAATTAAA
Found at i:57127663 original size:18 final size:19
Alignment explanation
Indices: 57127631--57127668 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57127621 TCGAGTAAGT
57127631 AAAAAAAATTGAAA-TAAA
1 AAAAAAAATTGAAATTAAA
57127649 AAAATAAAATT-AAATTAAA
1 AAAA-AAAATTGAAATTAAA
57127668 A
1 A
57127669 GTGAAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAAAAATTGAAATTAAA
Found at i:57129358 original size:12 final size:12
Alignment explanation
Indices: 57129341--57129366 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57129331 ACTCGATGCC
57129341 AAGTCGGAGGCA
1 AAGTCGGAGGCA
57129353 AAGTCGGAGGCA
1 AAGTCGGAGGCA
57129365 AA
1 AA
57129367 ATTTTGAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.15, G:0.38, T:0.08
Consensus pattern (12 bp):
AAGTCGGAGGCA
Found at i:57134514 original size:46 final size:46
Alignment explanation
Indices: 57134464--57134634 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
57134454 ACATCTCATA
57134464 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TATGTCACGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTA-GTCACGAG
** * * * * *
57134510 GCCGATGCATGTCTTAGACATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTAGTCACGAG
* * *
57134556 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-TAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCT-AGTCACGAG
*
57134604 CCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
57134635 AGCGCACAAA
Statistics
Matches: 103, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
46 54 0.52
47 27 0.26
48 22 0.21
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTAGTCACGAG
Found at i:57134609 original size:94 final size:95
Alignment explanation
Indices: 57134269--57134637 Score: 295
Period size: 94 Copynumber: 3.9 Consensus size: 95
57134259 CATAGGGTAT
57134269 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--CGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGCCGATGCCATG
* * *
57134331 TCCCAAACATGGTCTTACA-TTGACTATCGAAAT-TG
63 TCCCAAACATGGTCTTACACTAG-CTCTCG---TCTC
* * * * * *
57134366 AA-GCCGACGCCACGTCTCAAACATGGTCTTACACTAGCTCTCACATATCCGTGCCGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTGCCGATGCCATG
* * * * *
57134430 TCCTAAACATGGTTTTACACT-G-ACACATCTC
63 TCCCAAACATGGTCTTACACTAGCTCTCGTCTC
* * *
57134461 -ATAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-ATGTCACGAGGCCGATG-CAT
1 AAT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--TAATG-TGCCGATGCCAT
** *
57134520 GTCTTAGACAT-GTCTTACACTAGCTCTCGTCTC
62 GTCCCAAACATGGTCTTACACTAGCTCTCGTCTC
57134553 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCCGATG-CATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG-CCGATGCCATGTC
*
57134617 CCAGACAT-GTCTTACACTAGC
65 CCAAACATGGTCTTACACTAGC
57134638 GCACAAATGA
Statistics
Matches: 218, Mismatches: 33, Indels: 45
0.74 0.11 0.15
Matches are distributed among these distances:
90 9 0.04
91 14 0.06
92 21 0.10
93 20 0.09
94 66 0.30
95 14 0.06
96 40 0.18
97 5 0.02
99 28 0.13
100 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (95 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCTCGTCTC
Found at i:57134618 original size:140 final size:144
Alignment explanation
Indices: 57134269--57134634 Score: 394
Period size: 140 Copynumber: 2.6 Consensus size: 144
57134259 CATAGGGTAT
57134269 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT--CGATGCCATG
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CAT-AATGTGCCGATG-CATG
* * *
57134331 TCCCAAACATGGTCTTACATTGACTATCGAAATTGAAGCCGACGCCACGTCTCAAACATGGTCTT
63 TCCCAGACAT-GTCTTACACTGACTATCGAAATCGAAGCCGACGCCACGTCTCAAACATGGTCTT
57134396 ACACTAGCTCTCACATATC
127 ACACTAGCTCT-ACATATC
** * * * * * * *
57134415 CGTGCCGATGCCATGTCCTAAACATGGTTTTACACTGACACATC-TCAT-AGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAATGTGCCGATGCATGTCC
* ** * * * * *
57134478 CAGACATGTCTTACACTGGCTTAT-GTCA-CGAGGCCGATG-CATGTCTTAGACAT-GTCTTACA
66 CAGACATGTCTTACACTGAC-TATCGAAATCGAAGCCGACGCCACGTCTCAAACATGGTCTTACA
* *
57134539 CTAGCTCT-CGTCTC
130 CTAGCTCTACATATC
57134553 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGCCCGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAATGTG-CCGATGCATGTC
57134617 CCAGACATGTCTTACACT
65 CCAGACATGTCTTACACT
57134635 AGCGCACAAA
Statistics
Matches: 182, Mismatches: 31, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
137 2 0.01
138 41 0.23
139 1 0.01
140 46 0.25
141 11 0.06
142 8 0.04
143 14 0.08
144 17 0.09
145 6 0.03
146 36 0.20
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (144 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAATGTGCCGATGCATGTCC
CAGACATGTCTTACACTGACTATCGAAATCGAAGCCGACGCCACGTCTCAAACATGGTCTTACAC
TAGCTCTACATATC
Found at i:57143520 original size:48 final size:47
Alignment explanation
Indices: 57143432--57143685 Score: 204
Period size: 48 Copynumber: 5.3 Consensus size: 47
57143422 AAATAAAGTA
* * *
57143432 CCAATGCCATGTCCCCGACATGGTCTTACAT-GAATCCACATATCATTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGCA--CACATATCATCG
** ** * *
57143480 TTAATGCCATGTATCAGACATGGTCTTACACTGGCACACATATTATCA
1 CCAATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATCATCG
* * * *
57143528 CCGAGGCCATGTCCCAGACATGGTCTTACACAGGCACAAATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATCATCG
* * *
57143576 CCAATGCCATGTCCTAAACATGGTCTTACATAGGCACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAT-GGCACACATATCATCG
* * * * * * * * *
57143624 ACGACGCAATGTCCCAAACTTGATCTTACACAGGCACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACA-TGGCACACATATCATCG
* *
57143672 TCGATGCCATGTCC
1 CCAATGCCATGTCC
57143686 AAGCAATGCT
Statistics
Matches: 166, Mismatches: 36, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
48 163 0.98
49 1 0.01
50 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.26
Consensus pattern (47 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGCACACATATCATCG
Found at i:57143601 original size:96 final size:96
Alignment explanation
Indices: 57143497--57143709 Score: 261
Period size: 96 Copynumber: 2.2 Consensus size: 96
57143487 CATGTATCAG
* * * * *
57143497 ACATGGTCTTACACT-GGCACACATATTATC-ACCGAGGCCATGTCCCAGACATGGTCTTACACA
1 ACATGGTCTTACA-TAGGCACACATATCATCGA-CGACGCAATGTCCCAAACATGATCTTACACA
57143560 GGCACAAATATCATCGCCAATGCCATGTCCTAA
64 GGCACAAATATCATCGCCAATGCCATGTCCTAA
* *
57143593 ACATGGTCTTACATAGGCACATATATCATCGACGACGCAATGTCCCAAACTTGATCTTACACAGG
1 ACATGGTCTTACATAGGCACACATATCATCGACGACGCAATGTCCCAAACATGATCTTACACAGG
* * *
57143658 CACATATATCATCGTCGATGCCATGTCC-AA
66 CACAAATATCATCGCCAATGCCATGTCCTAA
* * *
57143688 GCAATGCTCGTACATAGGCACA
1 AC-ATGGTCTTACATAGGCACA
57143710 TTTATCACGG
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
95 4 0.04
96 96 0.95
97 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (96 bp):
ACATGGTCTTACATAGGCACACATATCATCGACGACGCAATGTCCCAAACATGATCTTACACAGG
CACAAATATCATCGCCAATGCCATGTCCTAA
Found at i:57143707 original size:48 final size:47
Alignment explanation
Indices: 57143483--57143716 Score: 200
Period size: 48 Copynumber: 4.9 Consensus size: 47
57143473 ATCATTGTTA
* * * * * *
57143483 ATGCCATGTATCAGACATGGTCTTACACTGGCACACATATTATC-ACCG
1 ATGCCATGT-CCAAACATGATCTTACACAGGCACATATATCATCGA-CG
* * * * * *
57143531 AGGCCATGTCCCAGACATGGTCTTACACAGGCACAAATATCATCGCCA
1 ATGCCATGT-CCAAACATGATCTTACACAGGCACATATATCATCGACG
* *
57143579 ATGCCATGTCCTAAACATGGTCTTACATAGGCACATATATCATCGACG
1 ATGCCATGTCC-AAACATGATCTTACACAGGCACATATATCATCGACG
* * * *
57143627 ACGCAATGTCCCAAACTTGATCTTACACAGGCACATATATCATCGTCG
1 ATGCCATGT-CCAAACATGATCTTACACAGGCACATATATCATCGACG
* * * * *
57143675 ATGCCATGTCCAAGCAATGCTCGTACATAGGCACATTTATCA
1 ATGCCATGTCCAAAC-ATGATCTTACACAGGCACATATATCA
57143717 CGGTGTCACG
Statistics
Matches: 154, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
47 7 0.05
48 145 0.94
49 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
ATGCCATGTCCAAACATGATCTTACACAGGCACATATATCATCGACG
Found at i:57148247 original size:54 final size:54
Alignment explanation
Indices: 57148173--57148366 Score: 223
Period size: 54 Copynumber: 3.6 Consensus size: 54
57148163 TTGGTAATAT
* * *
57148173 AAGGATATCATGTAAGACCATGTCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATGAGTTCTATAAGGC
* * * *
57148227 ATGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATGAGTT-CTATAAGGC
* * * * *
57148282 AAAGG-TCCCATGTAAGACCATGCCAAGGCAT-AGCATTGGTGAGTTC-ATAGGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGA-CATTGATGAGTTCTATAAGGC
*
57148335 AAGGATACCACGTAAGACCATGTCAAGACATG
1 AAGGATACCATGTAAGACCATGTCAAGACATG
57148367 GCAATGGTAA
Statistics
Matches: 117, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
52 4 0.03
53 28 0.24
54 41 0.35
55 41 0.35
56 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATGAGTTCTATAAGGC
Found at i:57148302 original size:55 final size:54
Alignment explanation
Indices: 57148173--57148369 Score: 236
Period size: 55 Copynumber: 3.6 Consensus size: 54
57148163 TTGGTAATAT
* * * *
57148173 AAGGATATCATGTAAGACCATGTCAAGGCATGACATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
* * *
57148227 ATGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-CTATAAGGC
* * * * * *
57148282 AAAGG-TCCCATGTAAGACCATGCCAAGGCATAGCATTGGTGAGTTC-ATAGGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
*
57148335 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
57148370 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 31 0.26
54 41 0.34
55 42 0.35
56 3 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:57148504 original size:16 final size:17
Alignment explanation
Indices: 57148483--57148515 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
57148473 CTTATTTAAT
57148483 ATTGAGATTGT-AAGTA
1 ATTGAGATTGTCAAGTA
57148499 ATTGAGATTGTCAAGTA
1 ATTGAGATTGTCAAGTA
57148516 TTAAGTAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.36
Consensus pattern (17 bp):
ATTGAGATTGTCAAGTA
Found at i:57155994 original size:40 final size:40
Alignment explanation
Indices: 57155933--57156139 Score: 256
Period size: 40 Copynumber: 5.2 Consensus size: 40
57155923 CGGAATTTAG
* * * *
57155933 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
57155973 CCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* *
57156013 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
*
57156053 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
57156093 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
57156133 CCGGATA
1 CCGGATA
57156140 TCATTCAAAT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 142 0.96
41 4 0.03
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:57158370 original size:95 final size:92
Alignment explanation
Indices: 57158179--57158409 Score: 218
Period size: 95 Copynumber: 2.5 Consensus size: 92
57158169 CACTGATGGC
** * *
57158179 TAAGGATA-CGATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCATGTAAAAC
1 TAAGGATATC-ATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAAAC
*
57158243 CATGTCAGGACATGGCATCGGCATTGAT
65 CATGTCAGGACATGGCATCGGCATAGAT
**
57158271 TAAGGACT-TCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTAA
1 TAAGGA-TATCATGTAAGACCACATCAAGACATGGCATTGG---TAAGACAAGGATACCATGTAA
* ** * *
57158335 GACCATGTTTGGAACATGGCATTTGGTA-AGA-
62 AACCATGTCAGG-ACATGGCA-TCGGCATAGAT
*** * *
57158366 TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TAAGGATATCATGTAAGACCACATCAAGACATGGCATTGGTAAG
57158410 TTCTATAAGG
Statistics
Matches: 112, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
92 36 0.32
93 2 0.02
94 1 0.01
95 59 0.53
96 10 0.09
97 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (92 bp):
TAAGGATATCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAAACC
ATGTCAGGACATGGCATCGGCATAGAT
Found at i:57158431 original size:54 final size:54
Alignment explanation
Indices: 57158367--57158574 Score: 226
Period size: 54 Copynumber: 3.9 Consensus size: 54
57158357 TTGGTAAGAT
*
57158367 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
57158421 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTT-CTATAAGGC
* * * * * *
57158476 AAACG-TCCTACA--TAAGACCATGCCAAGGCATAGCATTGGTGAGTTC-ATAAGGC
1 -AAGGAT-AT-CATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * * *
57158529 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
57158575 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
51 2 0.02
52 3 0.02
53 37 0.29
54 42 0.33
55 38 0.30
56 4 0.03
57 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:57158496 original size:55 final size:53
Alignment explanation
Indices: 57158375--57158563 Score: 195
Period size: 55 Copynumber: 3.5 Consensus size: 53
57158365 ATAAGGATAT
* * *
57158375 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAAT-
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAA--AAGTC
* *
57158429 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAACGTC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGCAAAAGTC
** * * * *
57158483 CTACATAAGACCATGCCAAGGCATAGCATTGGTGAGTTC-ATAAGGC-AAGGATAC
1 C-ATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAAG-T-C
*
57158537 CATGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
57158564 ATGGTAAGTT
Statistics
Matches: 113, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.03
53 31 0.27
54 38 0.34
55 41 0.36
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (53 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAAAGTC
Found at i:57174701 original size:48 final size:48
Alignment explanation
Indices: 57174630--57174856 Score: 287
Period size: 48 Copynumber: 4.7 Consensus size: 48
57174620 TAAAGTACCA
* * * *
57174630 ATGCCCTGTCCTCA-ACATGGTCTTACATGAATC-CACATATCATCACTG
1 ATGCCATGTCC-CAGACATGGTCTTACA-CAAGCACACATATCATCACCG
* *
57174678 ATGCCATGTCCCAGACATGGTCTTACACAGGCACACATATCATCATCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
* *
57174726 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
* * * *
57174774 ACGCCATGTCCCAGACATGGTCTTACACAGGCACATATTTCATCACCG
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
* * *
57174822 ATTCCATGTCCCAAACATGGTCTTACACAGGCACA
1 ATGCCATGTCCCAGACATGGTCTTACACAAGCACA
57174857 TTTAGCACGG
Statistics
Matches: 164, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
47 4 0.02
48 160 0.98
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCACCG
Found at i:57174857 original size:48 final size:48
Alignment explanation
Indices: 57174666--57174857 Score: 321
Period size: 48 Copynumber: 4.0 Consensus size: 48
57174656 ATGAATCCAC
* *
57174666 ATATCATCACTGATGCCATGTCCCAGACATGGTCTTACACAGGCACAC
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
*
57174714 ATATCATCATCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
*
57174762 ATATCATCACCGACGCCATGTCCCAGACATGGTCTTACACAGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
* * *
57174810 ATTTCATCACCGATTCCATGTCCCAAACATGGTCTTACACAGGCACAT
1 ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
57174858 TTAGCACGGT
Statistics
Matches: 135, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 135 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (48 bp):
ATATCATCACCGATGCCATGTCCCAGACATGGTCTTACACAGGCACAT
Found at i:57182277 original size:20 final size:20
Alignment explanation
Indices: 57182248--57182289 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
57182238 CCTATGTACC
*
57182248 AGGCTTTAGGCACTTGCTTT
1 AGGCTCTAGGCACTTGCTTT
57182268 AGGCTCTAGGCACTTGCTTT
1 AGGCTCTAGGCACTTGCTTT
57182288 AG
1 AG
57182290 TCCATACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
AGGCTCTAGGCACTTGCTTT
Found at i:57186491 original size:21 final size:19
Alignment explanation
Indices: 57186463--57186505 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
57186453 ATAGTTTTAC
57186463 TTTATTTCAACTTGATTTTT
1 TTTATTTC-ACTTGATTTTT
*
57186483 TTTACTTTCATTTGATTTTT
1 TTTA-TTTCACTTGATTTTT
57186503 TTT
1 TTT
57186506 TGTTTAATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.16, C:0.09, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTATTTCACTTGATTTTT
Found at i:57186704 original size:32 final size:31
Alignment explanation
Indices: 57186668--57186728 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
57186658 TTTAAGCCTA
* * *
57186668 TATTTTCTTTTAAATTTATTCATATATATACG
1 TATTTCCTTTCAAACTTATT-ATATATATACG
*
57186700 TATTTCCTTTCAAACTTATTATGTATATA
1 TATTTCCTTTCAAACTTATTATATATATA
57186729 GTTTATTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (31 bp):
TATTTCCTTTCAAACTTATTATATATATACG
Found at i:57192948 original size:18 final size:18
Alignment explanation
Indices: 57192925--57192962 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
57192915 CCTATGGCCA
*
57192925 GCTCAATTCAACTTTCTG
1 GCTCAATTCAACCTTCTG
57192943 GCTCAATTCAACCTTCTG
1 GCTCAATTCAACCTTCTG
57192961 GC
1 GC
57192963 CTTCAGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (18 bp):
GCTCAATTCAACCTTCTG
Found at i:57195816 original size:14 final size:14
Alignment explanation
Indices: 57195785--57195818 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57195775 CCAAATTTTA
* *
57195785 AAACCCAATCAGCT
1 AAACCCAATCAACC
57195799 AAACCCAATCAACC
1 AAACCCAATCAACC
57195813 AAACCC
1 AAACCC
57195819 TAGCCCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.47, C:0.41, G:0.03, T:0.09
Consensus pattern (14 bp):
AAACCCAATCAACC
Found at i:57196879 original size:3 final size:3
Alignment explanation
Indices: 57196873--57197309 Score: 89
Period size: 3 Copynumber: 144.7 Consensus size: 3
57196863 TTTTGTTGTT
* * * *
57196873 TTA TTA TCTA TTTA ATA T-A TTA TTA TTA TTA TTA TTA TCA TCA TCA
1 TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * *
57196919 -TC TTA TT- TTT TTA CTA TTA TTA TTT TTA TAA TTA CTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* * * *
57196963 TT- TATA TTA -TA TATA TT- TTA CTA TTA TTA TT- TAA CATA TTA TTG
1 TTA T-TA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * * *
57197007 TTA CTA TT- TTCG TTG TTA TTA TTA TTA CTA TTA -TA TTA TTA CTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
57197051 CTA TTA -TA TT- TTCA TCGA -TA TTTA TT- TTC TTA TTA TTTA TCTAA
1 TTA TTA TTA TTA TT-A T-TA TTA -TTA TTA TTA TTA TTA -TTA T-T-A
* * *
57197095 TTT TTA TTTA TTTA TCTA TT- TATA TTTC TTA TCTA TT- TATA TT- TCA
1 TTA TTA -TTA -TTA T-TA TTA T-TA -TTA TTA T-TA TTA T-TA TTA TTA
57197141 GTTA TTA TTA -TA TT- TTA TATA TTA -TA TCTCCA TGTA -TA TTTA TGTA
1 -TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-T--A T-TA TTA -TTA T-TA
* * * * *
57197187 TTA ATA TCA TTA TT- TTA CTA TTG CTA -TA TT- TT- TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * ** *
57197230 TTA TCA TTA CTA TTA -TA TTT TTA TTA CTA CTA CGA TTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
57197277 TTA TTA TTA TTA TTA TTA TTA TTA TTA CTTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TT
57197310 TGTTTGCTTA
Statistics
Matches: 321, Mismatches: 61, Indels: 104
0.66 0.13 0.21
Matches are distributed among these distances:
2 44 0.14
3 217 0.68
4 53 0.17
5 4 0.01
6 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:57196972 original size:13 final size:14
Alignment explanation
Indices: 57196950--57197005 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 14
57196940 ATTTTTATAA
57196950 TTACTATTATTTAT
1 TTACTATTATTTAT
57196964 TTA-TATTATATATATT
1 TTACTATTAT-T-TA-T
57196980 TTACTATTA-TTAT
1 TTACTATTATTTAT
57196993 TTAACATATTATT
1 TT-AC-TATTATT
57197006 GTTACTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.26
14 8 0.23
15 8 0.23
16 5 0.14
17 5 0.14
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (14 bp):
TTACTATTATTTAT
Found at i:57197045 original size:17 final size:17
Alignment explanation
Indices: 57197023--57197060 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
57197013 TTTTCGTTGT
*
57197023 TATTATTATTACTATTA
1 TATTATTACTACTATTA
57197040 TATTATTACTACTATTA
1 TATTATTACTACTATTA
57197057 TATT
1 TATT
57197061 TTCATCGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTACTACTATTA
Found at i:57197060 original size:14 final size:15
Alignment explanation
Indices: 57197023--57197057 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
57197013 TTTTCGTTGT
*
57197023 TATTATTATTACTAT
1 TATTATTATTACTAC
57197038 TA-TATTATTACTAC
1 TATTATTATTACTAC
57197052 TATTAT
1 TATTAT
57197058 ATTTTCATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTATTATTACTAC
Found at i:57197107 original size:19 final size:18
Alignment explanation
Indices: 57197083--57197155 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 18
57197073 TATTTTCTTA
*
57197083 TTATTTATCTAATTTTTAT
1 TTATTTATCT-ATTTATAT
57197102 TTATTTATCTATTTATAT
1 TTATTTATCTATTTATAT
*
57197120 TT-CTTATCTATTTATAT
1 TTATTTATCTATTTATAT
*
57197137 TTCAGTTAT-TA-TTATAT
1 TT-ATTTATCTATTTATAT
57197154 TT
1 TT
57197156 TATATATTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
17 24 0.49
18 11 0.22
19 14 0.29
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (18 bp):
TTATTTATCTATTTATAT
Found at i:57197127 original size:36 final size:34
Alignment explanation
Indices: 57197087--57197155 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
57197077 TTCTTATTAT
* *
57197087 TTATCTAATTTTTATTT-ATTTATCTATTTATATTTC
1 TTATCT-ATTTATATTTCAGTTAT-TA-TTATATTTC
57197123 TTATCTATTTATATTTCAGTTATTATTATATTT
1 TTATCTATTTATATTTCAGTTATTATTATATTT
57197156 TATATATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 8 0.27
35 11 0.37
36 11 0.37
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.65
Consensus pattern (34 bp):
TTATCTATTTATATTTCAGTTATTATTATATTTC
Found at i:57197131 original size:25 final size:24
Alignment explanation
Indices: 57197069--57197134 Score: 65
Period size: 19 Copynumber: 3.0 Consensus size: 24
57197059 TTTTCATCGA
57197069 TATTTAT-TTTCTTATTATTTATC
1 TATTTATATTTCTTATTATTTATC
57197092 ----TA-ATTT-TTATTTATTTATC
1 TATTTATATTTCTTA-TTATTTATC
57197111 TATTTATATTTCTTATCTATTTAT
1 TATTTATATTTCTTAT-TATTTAT
57197135 ATTTCAGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
18 3 0.09
19 14 0.41
23 2 0.06
24 5 0.15
25 10 0.29
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (24 bp):
TATTTATATTTCTTATTATTTATC
Found at i:57202624 original size:7 final size:6
Alignment explanation
Indices: 57202583--57202640 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
57202573 CCCTTTCTCA
57202583 TTTTT- TTTTTC TTTTTC -TTTTC TTTTTC ATTTTTC TTGTTTC TCTTTT-
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC -TTTTTC TT-TTTC T-TTTTC
*
57202631 ATTTTC TTTT
1 TTTTTC TTTT
57202641 ATCGGTCACA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
5 14 0.31
6 16 0.36
7 14 0.31
8 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTC
Done.