Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 82 of 328
Found at i:22751485 original size:91 final size:90
Alignment explanation
Indices: 22751380--22751568 Score: 281
Period size: 91 Copynumber: 2.1 Consensus size: 90
22751370 TTGATGCATT
*
22751380 AAAAAAAATCAGGGGTTTAATTGCTATT-TTTGAAAAAGTTTGAAGACCTTTTTAATATATTTTG
1 AAAAAAAATCAGGGGTTTAATTGCT-TTCTTTGAAAAAGTTTGAAGACCTTTTTAATACATTTTG
* *
22751444 AAAGTTCAAGTACTCAATTGAGTGCA
65 AAAGGTCAAGTACCCAATTGAGTGCA
* * * * *
22751470 AAAAAAAATAGAGGGGTTTAATTGCTTTCTTTGAAAAAGTTTGAAGGCCTTTTTGATGCATTTTT
1 AAAAAAAAT-CAGGGGTTTAATTGCTTTCTTTGAAAAAGTTTGAAGACCTTTTTAATACATTTTG
22751535 AAAGGTCAAGTACCCAATTGAGTGCA
65 AAAGGTCAAGTACCCAATTGAGTGCA
22751561 AAAAAAAA
1 AAAAAAAA
22751569 AAAGAGCTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
90 11 0.12
91 78 0.88
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.34
Consensus pattern (90 bp):
AAAAAAAATCAGGGGTTTAATTGCTTTCTTTGAAAAAGTTTGAAGACCTTTTTAATACATTTTGA
AAGGTCAAGTACCCAATTGAGTGCA
Found at i:22751594 original size:91 final size:91
Alignment explanation
Indices: 22751396--22751614 Score: 273
Period size: 91 Copynumber: 2.4 Consensus size: 91
22751386 AATCAGGGGT
* * * * *
22751396 TTAATTGCTATTTTTGAAAAAGTTTGAAGACCTTTTTAATATATTTTGAAAGTTCAAGTACTCAA
1 TTAATTGCTTTTTTTGAAAAAGTTTGAAGGCCTTTTTAATACATTTTGAAAGGTCAAGTACCCAA
* * *
22751461 TTGAGTGCAAAAAAAAATAGAGGGGT
66 TTGAGTGCAAAAAAAAATAGAAGAGC
* * * *
22751487 TTAATTGCTTTCTTTGAAAAAGTTTGAAGGCCTTTTTGATGCATTTTTAAAGGTCAAGTACCCAA
1 TTAATTGCTTTTTTTGAAAAAGTTTGAAGGCCTTTTTAATACATTTTGAAAGGTCAAGTACCCAA
22751552 TTGAGTGCAAAAAAAAA-A-AAGAGC
66 TTGAGTGCAAAAAAAAATAGAAGAGC
* *
22751576 TTAATTGTTTTTTTTTTGAAAAATTTTGAAGG-CTTTTTA
1 TTAATTG--CTTTTTTTGAAAAAGTTTGAAGGCCTTTTTA
22751615 CACCCTTTAG
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
89 10 0.09
90 7 0.06
91 93 0.85
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.39
Consensus pattern (91 bp):
TTAATTGCTTTTTTTGAAAAAGTTTGAAGGCCTTTTTAATACATTTTGAAAGGTCAAGTACCCAA
TTGAGTGCAAAAAAAAATAGAAGAGC
Found at i:22753735 original size:15 final size:15
Alignment explanation
Indices: 22753715--22753748 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
22753705 AAACCCAAAC
22753715 CAAAAAAAAAAAAAA
1 CAAAAAAAAAAAAAA
* *
22753730 CAAAAACAAAATAAA
1 CAAAAAAAAAAAAAA
22753745 CAAA
1 CAAA
22753749 GTCCATTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (15 bp):
CAAAAAAAAAAAAAA
Found at i:22755200 original size:3 final size:3
Alignment explanation
Indices: 22755192--22755235 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
22755182 TTTTATGCAT
* * *
22755192 TTA TTA TTA TTA TTA TTG TTG TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22755236 CATGTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22758366 original size:16 final size:15
Alignment explanation
Indices: 22758326--22758358 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22758316 TTACATCATA
22758326 TTTTACTATTAAATT
1 TTTTACTATTAAATT
22758341 TTTTACTATTAAATT
1 TTTTACTATTAAATT
22758356 TTT
1 TTT
22758359 ACCCTATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTACTATTAAATT
Found at i:22758858 original size:19 final size:19
Alignment explanation
Indices: 22758834--22758871 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
22758824 CCCGTAATAG
*
22758834 TGCCAACTATATCTTCCGA
1 TGCCAACTATATCCTCCGA
22758853 TGCCAACTATATCCTCCGA
1 TGCCAACTATATCCTCCGA
22758872 CGTATTATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (19 bp):
TGCCAACTATATCCTCCGA
Found at i:22760555 original size:18 final size:18
Alignment explanation
Indices: 22760528--22760638 Score: 118
Period size: 18 Copynumber: 6.2 Consensus size: 18
22760518 TACGATCGTT
*
22760528 TACGGTACTATTCACGTA
1 TACGGAACTATTCACGTA
*
22760546 TACGGAACTATTCATGTA
1 TACGGAACTATTCACGTA
*
22760564 TAC-GATACTATTCATGTA
1 TACGGA-ACTATTCACGTA
* *
22760582 TA-TGATAATATTCACGTA
1 TACGGA-ACTATTCACGTA
*
22760600 TACGGCACTATTCACGTA
1 TACGGAACTATTCACGTA
* *
22760618 TACGGTACTGTTCACGTA
1 TACGGAACTATTCACGTA
22760636 TAC
1 TAC
22760639 AGTAGTTGGA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
17 2 0.02
18 78 0.96
19 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (18 bp):
TACGGAACTATTCACGTA
Found at i:22760583 original size:36 final size:36
Alignment explanation
Indices: 22760528--22760638 Score: 134
Period size: 36 Copynumber: 3.1 Consensus size: 36
22760518 TACGATCGTT
*
22760528 TACGGTACTATTCACGTATACGGAACTATTCATGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
* * * *
22760564 TACGATACTATTCATGTATA-TGATAATATTCACGTA
1 TACGGTACTATTCACGTATACGGA-ACTATTCACGTA
* * *
22760600 TACGGCACTATTCACGTATACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTATACGGAACTATTCACGTA
22760636 TAC
1 TAC
22760639 AGTAGTTGGA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
35 2 0.03
36 58 0.95
37 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (36 bp):
TACGGTACTATTCACGTATACGGAACTATTCACGTA
Found at i:22772394 original size:23 final size:23
Alignment explanation
Indices: 22772349--22772395 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
22772339 ATAATTTTAA
*
22772349 TAAATAAAAAAATTATTAAATTT
1 TAAATAAAAAAATTATAAAATTT
*
22772372 TAAATAAAAGAA-TATAAATATTT
1 TAAATAAAAAAATTATAAA-ATTT
22772395 T
1 T
22772396 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
TAAATAAAAAAATTATAAAATTT
Found at i:22772482 original size:22 final size:22
Alignment explanation
Indices: 22772457--22772501 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22772447 TTTATAAATA
22772457 TGAGTAAGATTGAACAAAATTT
1 TGAGTAAGATTGAACAAAATTT
22772479 TGAGTAAGATTGAACAAAATTT
1 TGAGTAAGATTGAACAAAATTT
22772501 T
1 T
22772502 ACTCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.04, G:0.18, T:0.33
Consensus pattern (22 bp):
TGAGTAAGATTGAACAAAATTT
Found at i:22772690 original size:4 final size:4
Alignment explanation
Indices: 22772681--22772709 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
22772671 TAATTTATCC
22772681 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
22772710 GTGGGGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:22789023 original size:19 final size:20
Alignment explanation
Indices: 22788999--22789069 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
22788989 TTTAAAAAAA
22788999 TATAA-ATTTTGAATTTTTT
1 TATAATATTTTGAATTTTTT
22789018 TATAAATATTTTGAA-TTTTT
1 TAT-AATATTTTGAATTTTTT
* * *
22789038 AAAAATTATTTTGAATTATTT
1 TATAA-TATTTTGAATTTTTT
22789059 TATAAT-TTTTG
1 TATAATATTTTG
22789070 TTGAGAGGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 10 0.23
20 18 0.42
21 15 0.35
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TATAATATTTTGAATTTTTT
Found at i:22789030 original size:21 final size:22
Alignment explanation
Indices: 22789004--22789063 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 22
22788994 AAAAATATAA
22789004 ATTTTGAATTTTTTTATAAA-T
1 ATTTTGAATTTTTTTATAAATT
*
22789025 ATTTTGAA--TTTTTAAAAATT
1 ATTTTGAATTTTTTTATAAATT
*
22789045 ATTTTGAATTATTTTATAA
1 ATTTTGAATTTTTTTATAA
22789064 TTTTTGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 9 0.27
20 9 0.27
21 8 0.24
22 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTTTGAATTTTTTTATAAATT
Found at i:22792169 original size:44 final size:45
Alignment explanation
Indices: 22792079--22792188 Score: 141
Period size: 44 Copynumber: 2.4 Consensus size: 45
22792069 GACAGAACGA
* *
22792079 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTCGAGACAGG
* *
22792125 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTCGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTCGAGACAGG
* **
22792169 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
22792189 GTCAAAGACA
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 34 0.61
46 22 0.39
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTCGAGACAGG
Found at i:22796225 original size:29 final size:29
Alignment explanation
Indices: 22796189--22796250 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
22796179 TAAAATTCCG
22796189 CTAA-CTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
22796217 CTAAGCTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
22796246 CTAAG
1 CTAAG
22796251 TCCTCCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (29 bp):
CTAAGCTATTGGAATGGTCTAATTACCAT
Found at i:22798996 original size:2 final size:2
Alignment explanation
Indices: 22798989--22799015 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
22798979 GATCAATTGC
22798989 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
22799016 TTCAATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22804152 original size:14 final size:14
Alignment explanation
Indices: 22804112--22804152 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
22804102 TAAAATGTGA
*
22804112 TAGAAGAAAGAGTG
1 TAGAAGAGAGAGTG
22804126 TA-AAGAGA-A-TG
1 TAGAAGAGAGAGTG
22804137 TAGAAGAGAGAGTG
1 TAGAAGAGAGAGTG
22804151 TA
1 TA
22804153 TCTTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 4 0.17
12 7 0.30
13 6 0.26
14 6 0.26
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (14 bp):
TAGAAGAGAGAGTG
Found at i:22804303 original size:28 final size:28
Alignment explanation
Indices: 22804272--22804334 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
22804262 TCCCATATTA
22804272 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
22804300 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
22804328 ATGGGGT
1 ATGGGGT
22804335 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:22809721 original size:28 final size:28
Alignment explanation
Indices: 22809681--22809743 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
22809671 ACCTTTATTA
22809681 ATGGGGTATAGG-AGAAGTCTCATAACTT
1 ATGGGGTATAGGAAG-AGTCTCATAACTT
* *
22809709 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAGAGTCTCATAACTT
22809737 ATGGGGT
1 ATGGGGT
22809744 CGATAATGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.30, C:0.06, G:0.32, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAGAGTCTCATAACTT
Found at i:22823217 original size:24 final size:24
Alignment explanation
Indices: 22823190--22823235 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
22823180 TTGAATAAAG
22823190 TCACAATAAAGAATAAATATATGT
1 TCACAATAAAGAATAAATATATGT
*
22823214 TCACAATAAAGAGTAAATATAT
1 TCACAATAAAGAATAAATATAT
22823236 ATTGCCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (24 bp):
TCACAATAAAGAATAAATATATGT
Found at i:22831465 original size:16 final size:16
Alignment explanation
Indices: 22831436--22831477 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
22831426 ACGAAACTGC
22831436 TTAAAAAAACGTTAAA
1 TTAAAAAAACGTTAAA
22831452 TTAAACAAAA-GTTAAA
1 TTAAA-AAAACGTTAAA
* *
22831468 ATAATAAAAC
1 TTAAAAAAAC
22831478 AAAAGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.24
Consensus pattern (16 bp):
TTAAAAAAACGTTAAA
Found at i:22834751 original size:46 final size:43
Alignment explanation
Indices: 22834649--22835045 Score: 237
Period size: 46 Copynumber: 8.7 Consensus size: 43
22834639 TTTATACATA
*
22834649 CCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* * * *
22834695 CCAATTCATGTCCCAGACATGACTTACACTGATTTACATCTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGA--CACATCTCGA-G
* * *
22834741 CCGATGCATGTCCCAGACATGTCTTACACTAGCTCTTACATATCCGTG
1 CCGATGCATGTCCCAGACATGTCTTACACT-G-AC--ACATCT-CGAG
* * * *
22834789 CCAATGCCATGTCTCACACATGGTCTTACACTGACACAT-T-TA-
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGAG
* * *
22834831 -TGATGCCATATCCCAAACATGGTCTTACACTGACACATCTCGTAG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCG-AG
* *
22834876 CCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCAAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGA-G
* * * * * * *
22834922 TCGATGCATGTCCTAGACATGTCTTACACTAGCTCTCGTCTCAATA
1 CCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGA-G
* * * * * *
22834968 CCGATGCCATGTCCCAGGCATGGTCTTATACTGGCTC-TCATAGTGTGG
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATC-T--CG-AG
22835016 CCGATGCATGTCCCAGACATGTCTTACACT
1 CCGATGCATGTCCCAGACATGTCTTACACT
22835046 AGCACACAAA
Statistics
Matches: 278, Mismatches: 47, Indels: 52
0.74 0.12 0.14
Matches are distributed among these distances:
41 33 0.12
42 1 0.00
44 23 0.08
45 31 0.11
46 109 0.39
47 28 0.10
48 28 0.10
49 15 0.05
50 10 0.04
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (43 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGAG
Found at i:22834904 original size:181 final size:184
Alignment explanation
Indices: 22834514--22834958 Score: 567
Period size: 181 Copynumber: 2.4 Consensus size: 184
22834504 GATGCCAAGA
* ** * *
22834514 CCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCTGATGCCATGTCCCAGATATGTTCTTA
1 CCCAGACAT-GTCTTACACTGATTA-C-ATCTCGAGGCCGATG-CATGTCCCAGACATG-TCTTA
* ** *
22834579 CATTAGCTCTCACATATCCGTGCTGATGCCATGTCCAAAACATGGTCTTACACTGACACCTTTAT
61 CACTAGCTCTCACATATCCGTGCCAATGCCATGTCCAAAACATGGTCTTACACTGACACCATTAT
* * * *
22834644 ACATACCGATGCCATGTCCCAGACATGGTCTTACATTGACACATCTCGTAGCCAATTCATGT
126 A-AT--CGATGCCATATCCCAAACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGT
*
22834706 CCCAGACATGACTTACACTGATTTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
1 CCCAGACATGTCTTACACTGA-TTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
* *
22834771 AGCTCTTACATATCCGTGCCAATGCCATGTCTC-ACACATGGTCTTACACTGACA-CATT-T-AT
65 AGCTCTCACATATCCGTGCCAATGCCATGTC-CAAAACATGGTCTTACACTGACACCATTATAAT
*
22834832 -GATGCCATATCCCAAACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGT
129 CGATGCCATATCCCAAACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGT
* * * *
22834887 CCCAGACATGTCTTACACTGGCTTACATCTCAAGGTCGATGCATGTCCTAGACATGTCTTACACT
1 CCCAGACATGTCTTACACT-GATTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACT
22834952 AGCTCTC
65 AGCTCTC
22834959 GTCTCAATAC
Statistics
Matches: 227, Mismatches: 23, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
181 114 0.50
182 1 0.00
184 2 0.01
186 1 0.00
187 3 0.01
188 56 0.25
189 15 0.07
190 12 0.05
191 12 0.05
192 11 0.05
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (184 bp):
CCCAGACATGTCTTACACTGATTACATCTCGAGGCCGATGCATGTCCCAGACATGTCTTACACTA
GCTCTCACATATCCGTGCCAATGCCATGTCCAAAACATGGTCTTACACTGACACCATTATAATCG
ATGCCATATCCCAAACATGGTCTTACACTGACACATCTCGTAGCCAATGCATGT
Found at i:22835002 original size:94 final size:92
Alignment explanation
Indices: 22834876--22835048 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 92
22834866 CATCTCGTAG
* *
22834876 CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TACAT-CTCAAGGTCGATGCATGTCCTAGA
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATACT-AAGGCCGATGCATGTCCCAGA
22834939 CATGTCTTACACTAGCTCTCGTCTCAATA
64 CATGTCTTACACTAGCTCTCGTCTCAATA
* * * **
22834968 CCGATGCCATGTCCCAGGCATGGTCTTATACTGGCTCTCATAGTGTGGCCGATGCATGTCCCAGA
1 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATACTAAGGCCGATGCATGTCCCAGA
22835033 CATGTCTTACACTAGC
64 CATGTCTTACACTAGC
22835049 ACACAAATAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
92 6 0.09
93 13 0.19
94 49 0.70
95 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTAAGGCCGATGCATGTCCCAGACA
TGTCTTACACTAGCTCTCGTCTCAATA
Found at i:22837774 original size:27 final size:27
Alignment explanation
Indices: 22837727--22837790 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
22837717 AAATATTCTC
*
22837727 TAAATTAAT-AAATATTAATTTATCGA
1 TAAATTAATAAAATATTAATTTATCAA
* *
22837753 TAAATTAATAAAATATTCATTTATTAA
1 TAAATTAATAAAATATTAATTTATCAA
*
22837780 TAAACTAATAA
1 TAAATTAATAA
22837791 TATCGATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 9 0.27
27 24 0.73
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATCAA
Found at i:22838240 original size:23 final size:26
Alignment explanation
Indices: 22838187--22838241 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
22838177 ATACAAAACA
*
22838187 TAATTAAAAAAATATAAAAAAATTAAT
1 TAATTAAAAAAATATAAAAAAATT-AC
22838214 TAATT-AAAAAATAT-AAAAAATT-C
1 TAATTAAAAAAATATAAAAAAATTAC
22838237 TAATT
1 TAATT
22838242 GAATTGCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
25 8 0.30
26 9 0.33
27 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TAATTAAAAAAATATAAAAAAATTAC
Found at i:22843878 original size:28 final size:28
Alignment explanation
Indices: 22843838--22843896 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
22843828 TCTAGTTGCA
22843838 ACTATGTTAGTGTTATTTAAGTATAAAG
1 ACTATGTTAGTGTTATTTAAGTATAAAG
22843866 ACTATGTTAGTGTTATTTAAGTATAAAG
1 ACTATGTTAGTGTTATTTAAGTATAAAG
22843894 ACT
1 ACT
22843897 TTTCTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (28 bp):
ACTATGTTAGTGTTATTTAAGTATAAAG
Found at i:22856906 original size:3 final size:3
Alignment explanation
Indices: 22856898--22856953 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
22856888 AGATAACGTG
22856898 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22856946 TAA TAA TA
1 TAA TAA TA
22856954 CAATGACATG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22865136 original size:39 final size:39
Alignment explanation
Indices: 22865082--22865159 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
22865072 AACGAAAGAC
22865082 TTAGGTAAATTGAAATACTTTCTGGGGTAGAAGTAACAA
1 TTAGGTAAATTGAAATACTTTCTGGGGTAGAAGTAACAA
*
22865121 TTAGGTAAATTGAAATACTTTGTGGGGTAGAAGTAACAA
1 TTAGGTAAATTGAAATACTTTCTGGGGTAGAAGTAACAA
22865160 AAAGCAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.31
Consensus pattern (39 bp):
TTAGGTAAATTGAAATACTTTCTGGGGTAGAAGTAACAA
Found at i:22865672 original size:207 final size:207
Alignment explanation
Indices: 22865317--22865706 Score: 699
Period size: 207 Copynumber: 1.9 Consensus size: 207
22865307 AGATAAATGA
22865317 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
* * *
22865382 TTATTCATGTCTGCACCTATAGTTAGACATTGGGTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
* * *
22865447 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGGAATAGTCGTTCCAATCTCAAGAGAT
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
22865512 ATAAGATGATAG
196 ATAAGATGATAG
* *
22865524 TTGGGAAATTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCTGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
*
22865589 TTATTCACGTTTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
22865654 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
22865707 CCTACAGTTA
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 174 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (207 bp):
TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
ATAAGATGATAG
Found at i:22865744 original size:103 final size:103
Alignment explanation
Indices: 22865602--22865794 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 103
22865592 TTCACGTTTG
* * **
22865602 CACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAAAGGAGCTTTAGGA
1 CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGA
*
22865667 TTGGGAATATCATACAACAATCATAGAAATACTCATTC
66 CTGGGAATATCATACAACAATCATAGAAATACTCATTC
* *
22865705 CACCTACAGTTAAACATTGGGC-AATTGTTGAATAGATTCTATGTTACCCAAAAGGAGCTTTAGG
1 CACCTACAGTTAAACATT-GGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGG
*
22865769 GCTGGGAATATCATACAACAATCATA
65 ACTGGGAATATCATACAACAATCATA
22865795 TGACTAATCG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 78 0.96
104 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (103 bp):
CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGA
CTGGGAATATCATACAACAATCATAGAAATACTCATTC
Found at i:22870200 original size:30 final size:31
Alignment explanation
Indices: 22870164--22870223 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
22870154 TTTATTTTTT
*
22870164 TAAAAAAA-TTTAACAAATCAGTGATTTAAA
1 TAAAAAAATTTTAACAAATCAGTAATTTAAA
* *
22870194 TAAAAAAATTTTAATAATTCAGTAATTTAA
1 TAAAAAAATTTTAACAAATCAGTAATTTAA
22870224 GTGAACTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 8 0.31
31 18 0.69
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (31 bp):
TAAAAAAATTTTAACAAATCAGTAATTTAAA
Found at i:22870975 original size:29 final size:31
Alignment explanation
Indices: 22870933--22871001 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 31
22870923 TTAACCAGTT
* *
22870933 TTTTTTTTTTAATCATCCAAG-T-TTAAAAA
1 TTTTTATTTCAATCATCCAAGTTATTAAAAA
* *
22870962 TTTTTATTTCAATCATTCACGTTATTAAAAA
1 TTTTTATTTCAATCATCCAAGTTATTAAAAA
*
22870993 TTATTATTT
1 TTTTTATTT
22871002 TAATTACTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
29 17 0.52
30 1 0.03
31 15 0.45
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (31 bp):
TTTTTATTTCAATCATCCAAGTTATTAAAAA
Found at i:22871416 original size:46 final size:47
Alignment explanation
Indices: 22871349--22871443 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
22871339 TTTATAAATA
*
22871349 AAACAATTAAAGGAG-AAAAAAACATGAAGAAAACTTAACCAAATTC
1 AAACAATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTC
*
22871395 AAACAATTAAAGGAGAAAAAAAACACGGAGAAAACTTAACCAAATTC
1 AAACAATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTC
22871442 AA
1 AA
22871444 CTTCTTCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 15 0.33
47 31 0.67
ACGTcount: A:0.61, C:0.14, G:0.12, T:0.14
Consensus pattern (47 bp):
AAACAATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTC
Found at i:22873428 original size:49 final size:49
Alignment explanation
Indices: 22873371--22873471 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
22873361 ATTGTACAGG
22873371 ATTCGGATGATGTTCTTGTTCATTTCTATTGAAAATAGGCTCATTCATA
1 ATTCGGATGATGTTCTTGTTCATTTCTATTGAAAATAGGCTCATTCATA
22873420 ATTCGGATGATGTTCTTGTTCATTTCTATTGAAAATAGGCTCATTCATA
1 ATTCGGATGATGTTCTTGTTCATTTCTATTGAAAATAGGCTCATTCATA
22873469 ATT
1 ATT
22873472 TTAAATATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (49 bp):
ATTCGGATGATGTTCTTGTTCATTTCTATTGAAAATAGGCTCATTCATA
Found at i:22874200 original size:2 final size:2
Alignment explanation
Indices: 22874193--22874218 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22874183 ATAATGGATG
22874193 GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT
22874219 TTTCCATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:22874895 original size:21 final size:22
Alignment explanation
Indices: 22874836--22874896 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
22874826 ATTATTACCT
*
22874836 TTAAATTAAATAATAATATTTTTA
1 TTAAATT-AAT-ATAATATTTATA
* *
22874860 TTATATTATTA-AATATTTATA
1 TTAAATTAATATAATATTTATA
22874881 -TAAATTAATATAATAT
1 TTAAATTAATATAATAT
22874897 AATTCATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.26
21 14 0.45
22 1 0.03
23 2 0.06
24 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAATTAATATAATATTTATA
Found at i:22880421 original size:16 final size:15
Alignment explanation
Indices: 22880395--22880435 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
22880385 ACCTAAAATG
22880395 TAAATTGAATTGAAT
1 TAAATTGAATTGAAT
*
22880410 TAAATATGAATTGTAT
1 TAAAT-TGAATTGAAT
22880426 TAAATT-AATT
1 TAAATTGAATT
22880436 TAAATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (15 bp):
TAAATTGAATTGAAT
Found at i:22892993 original size:11 final size:10
Alignment explanation
Indices: 22892967--22892992 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
22892957 TAGAATCCAT
22892967 AAAAAATAGA
1 AAAAAATAGA
22892977 AAAAAATAGA
1 AAAAAATAGA
22892987 AAAAAA
1 AAAAAA
22892993 AAACCTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:22895524 original size:10 final size:10
Alignment explanation
Indices: 22895492--22895525 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22895482 TGAATTTGGT
22895492 TATGTGCATA
1 TATGTGCATA
*
22895502 TACGTGCATA
1 TATGTGCATA
22895512 TATGTGCATA
1 TATGTGCATA
22895522 TATG
1 TATG
22895526 GTTGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (10 bp):
TATGTGCATA
Found at i:22900239 original size:33 final size:33
Alignment explanation
Indices: 22900179--22900244 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
22900169 GCATGTAGTA
* * *
22900179 ACAGTCCGGGCCTGAGCCTTATTCAGTAACAGT
1 ACAGTCCGAGCCTGAGCCCTATACAGTAACAGT
* *
22900212 ACAGTCTGAGCCTTAGCCCTATACAGTAACAGT
1 ACAGTCCGAGCCTGAGCCCTATACAGTAACAGT
22900245 GTGGGCCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (33 bp):
ACAGTCCGAGCCTGAGCCCTATACAGTAACAGT
Found at i:22900252 original size:28 final size:28
Alignment explanation
Indices: 22900207--22900272 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
22900197 TTATTCAGTA
* * *
22900207 ACAGT-ACAGTCTGAGCCTTAGCCCTAT
1 ACAGTAACAGTCTGAGCCTAAGCCCAAC
* *
22900234 ACAGTAACAGTGTGGGCCTAAGCCCAAC
1 ACAGTAACAGTCTGAGCCTAAGCCCAAC
*
22900262 ACAGCAACAGT
1 ACAGTAACAGT
22900273 ACAGTGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.32, C:0.29, G:0.21, T:0.18
Consensus pattern (28 bp):
ACAGTAACAGTCTGAGCCTAAGCCCAAC
Found at i:22900467 original size:27 final size:27
Alignment explanation
Indices: 22900427--22900486 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
22900417 AACTATCAGA
*
22900427 AATAGTAAATGTGGTAAAGCCACCAGT
1 AATAGTAAATGTGGCAAAGCCACCAGT
* * *
22900454 ATTAGTAATTGTGGCACAGCCACCAGT
1 AATAGTAAATGTGGCAAAGCCACCAGT
22900481 AATAGT
1 AATAGT
22900487 GAATATGACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AATAGTAAATGTGGCAAAGCCACCAGT
Found at i:22900710 original size:27 final size:27
Alignment explanation
Indices: 22900680--22900741 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
22900670 CATCACAATA
* * *
22900680 ATTTTACCCTATAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGATC
*
22900707 ATTTTACCCTACAAGGGTATTACGATC
1 ATTTTACCCTACAAGGGCATTACGATC
22900734 ATTTTACC
1 ATTTTACC
22900742 TATTTTGGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGCATTACGATC
Found at i:22909568 original size:18 final size:18
Alignment explanation
Indices: 22909523--22909586 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
22909513 ATGAAATAAG
22909523 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
22909540 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
22909559 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
22909577 TTATAAGTTG
1 TTATATGTTG
22909587 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:22911598 original size:14 final size:14
Alignment explanation
Indices: 22911579--22911634 Score: 85
Period size: 14 Copynumber: 4.0 Consensus size: 14
22911569 GAAAAGTAAG
*
22911579 TCATTTTTCAGAAA
1 TCATTTTCCAGAAA
22911593 TCATTTTCCAGAAA
1 TCATTTTCCAGAAA
*
22911607 TCATTTTCCAAAAA
1 TCATTTTCCAGAAA
*
22911621 TCATTTTCCGGAAA
1 TCATTTTCCAGAAA
22911635 ATATTTTACC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 38 1.00
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (14 bp):
TCATTTTCCAGAAA
Found at i:22911640 original size:14 final size:14
Alignment explanation
Indices: 22911590--22911641 Score: 63
Period size: 14 Copynumber: 3.7 Consensus size: 14
22911580 CATTTTTCAG
22911590 AAATCATTTTCC-A
1 AAATCATTTTCCGA
*
22911603 GAAATCATTTTCCAA
1 -AAATCATTTTCCGA
22911618 AAATCATTTTCCGGA
1 AAATCATTTTCC-GA
22911633 AAAT-ATTTT
1 AAATCATTTT
22911642 ACCTGCAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 29 0.83
15 6 0.17
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (14 bp):
AAATCATTTTCCGA
Found at i:22915191 original size:25 final size:25
Alignment explanation
Indices: 22915155--22915204 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22915145 AGCAGACTGC
22915155 AACTCCCCATATTAGCTTTTTCATT
1 AACTCCCCATATTAGCTTTTTCATT
*
22915180 AACTCCCTATATTAGCTTTTTCATT
1 AACTCCCCATATTAGCTTTTTCATT
22915205 TTGGCAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (25 bp):
AACTCCCCATATTAGCTTTTTCATT
Found at i:22918656 original size:4 final size:4
Alignment explanation
Indices: 22918649--22918729 Score: 67
Period size: 4 Copynumber: 19.8 Consensus size: 4
22918639 AAGTTAAAAA
* * *
22918649 AAAG AAAG AAAG AAAG AAAG ATAG -AA- AAAG TTACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG --AAAG AAAG -AAA-G
**
22918695 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
22918730 TAGAAAAGAG
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
3 3 0.05
4 52 0.84
5 3 0.05
6 4 0.06
ACGTcount: A:0.67, C:0.04, G:0.25, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:22919556 original size:47 final size:47
Alignment explanation
Indices: 22919492--22919602 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
22919482 GGCATTGAGT
*
22919492 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
22919539 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
22919586 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
22919603 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:22924495 original size:26 final size:26
Alignment explanation
Indices: 22924460--22924520 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
22924450 GATTGAATAC
*
22924460 TAGTCCTTGC-AGACTCATACATGGAA
1 TAGTCCTTGCGA-ACCCATACATGGAA
*
22924486 TAGTCCTTGCGAACCCATACATGGAT
1 TAGTCCTTGCGAACCCATACATGGAA
*
22924512 TAATCCTTG
1 TAGTCCTTG
22924521 AGGACTATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
26 30 0.97
27 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (26 bp):
TAGTCCTTGCGAACCCATACATGGAA
Found at i:22929359 original size:22 final size:22
Alignment explanation
Indices: 22929331--22929373 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
22929321 ACATTCCTGC
22929331 GAATCCTACTGTTAACGTTAAG
1 GAATCCTACTGTTAACGTTAAG
22929353 GAATCCTACTGTTAACGTTAA
1 GAATCCTACTGTTAACGTTAA
22929374 AGATGATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (22 bp):
GAATCCTACTGTTAACGTTAAG
Found at i:22933676 original size:43 final size:43
Alignment explanation
Indices: 22933603--22933795 Score: 224
Period size: 43 Copynumber: 4.5 Consensus size: 43
22933593 TTTTTGAATT
* * ** *
22933603 TCATGATTTTTAGCGGCGTTTTTAAAAAAAGCGCCGTTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
* * **
22933646 TCTTGATCTTTAGTGGCGTTTGTAGGAAAAGCATCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
* * *
22933689 TCATGATCTTTAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
* ** * * *
22933732 TCATGATTTTTAGCAACGTTTGTGGGAAAAGTGCCGCTAATGG
1 TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
22933775 TCATGATCTTTAGCGGCGTTT
1 TCATGATCTTTAGCGGCGTTT
22933796 TTTTAAATAA
Statistics
Matches: 128, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 128 1.00
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGG
Found at i:22933872 original size:21 final size:21
Alignment explanation
Indices: 22933847--22933909 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
22933837 AGGTATTTTT
22933847 TAGTTTTAGCGGCGCTTTTAA
1 TAGTTTTAGCGGCGCTTTTAA
*
22933868 TAGTTTTAGCGGCGCTTCTAA
1 TAGTTTTAGCGGCGCTTTTAA
22933889 TAGTTTTAGCGGCGCTTTTAA
1 TAGTTTTAGCGGCGCTTTTAA
22933910 GCGCCGCTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (21 bp):
TAGTTTTAGCGGCGCTTTTAA
Found at i:22943568 original size:3 final size:3
Alignment explanation
Indices: 22943562--22943782 Score: 82
Period size: 3 Copynumber: 73.3 Consensus size: 3
22943552 AGAATACAAC
* * *
22943562 AAT AAT AAT AGT AA- AAG ATAT AAT AACCT AAT AAT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AA--T AAT AAT AAT AAT AAT AAT
* * * * * * * *
22943608 AGT AAC AAT -AT GAC GAT AAT AGT AAA AAT AAT -AT ATT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* ** *
22943652 AAT AAT AA- AAGT AGT GCT AAT AAT AAT AAT AAT AAT AAT AAT -CT
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * *
22943696 ATT AAGT TAT AAT GAA- AAT AAT AAT AAT GAT GAT -AT ATT AGAT AAT
1 AAT AA-T AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
* * *
22943742 AAT AGT AA- AAT AAT AAGT AAT AAT GAT AAAT TAT AAT AAT A
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT AAT AAT A
22943783 GTGATGAGAA
Statistics
Matches: 162, Mismatches: 37, Indels: 38
0.68 0.16 0.16
Matches are distributed among these distances:
2 17 0.10
3 126 0.78
4 16 0.10
5 3 0.02
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22943783 original size:37 final size:37
Alignment explanation
Indices: 22943676--22943784 Score: 116
Period size: 36 Copynumber: 2.9 Consensus size: 37
22943666 TGCTAATAAT
* ** *
22943676 AATAATAATAATAATAATCTATTAAGTTATAAT-G-AA
1 AATAATAATAATAATGATAAATTAA-TAATAATAGTAA
* *
22943712 AATAATAATAATGATGATATATTAGATAATAATAGTAA
1 AATAATAATAATAATGATAAATTA-ATAATAATAGTAA
22943750 AATAATAAGTAATAATGATAAATT-ATAATAATAGT
1 AATAATAA-TAATAATGATAAATTAATAATAATAGT
22943785 GATGAGAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
36 27 0.43
37 13 0.21
38 10 0.16
39 13 0.21
ACGTcount: A:0.56, C:0.01, G:0.08, T:0.35
Consensus pattern (37 bp):
AATAATAATAATAATGATAAATTAATAATAATAGTAA
Found at i:22943803 original size:16 final size:16
Alignment explanation
Indices: 22943782--22943813 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22943772 TTATAATAAT
22943782 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
22943798 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
22943814 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:22943946 original size:16 final size:15
Alignment explanation
Indices: 22943917--22943959 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
22943907 TATACGTATG
*
22943917 AAAAATAATGATAGT
1 AAAAATAATAATAGT
22943932 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
22943948 AATAATAATAAT
1 AAAAATAATAAT
22943960 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:22944060 original size:3 final size:3
Alignment explanation
Indices: 22944052--22944105 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
22944042 ACACACTACC
22944052 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22944100 ATA ATA
1 ATA ATA
22944106 TAGAAATACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22944215 original size:3 final size:3
Alignment explanation
Indices: 22944201--22944236 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
22944191 AAATATACAC
22944201 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
22944237 TATTATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:22944764 original size:28 final size:28
Alignment explanation
Indices: 22944712--22944789 Score: 120
Period size: 28 Copynumber: 2.7 Consensus size: 28
22944702 GATTTTTTGT
22944712 TCTTGAATCTCAAAAAAAAGAAAAATCCCC
1 TCTTGAATCT-AAAAAAAA-AAAAATCCCC
* *
22944742 TCTTGAATCTAAAAAAAAAAAAATCTCT
1 TCTTGAATCTAAAAAAAAAAAAATCCCC
22944770 TCTTGAATCTAAAAAAAAAA
1 TCTTGAATCTAAAAAAAAAA
22944790 TCTCTTCTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
28 28 0.61
29 8 0.17
30 10 0.22
ACGTcount: A:0.54, C:0.17, G:0.05, T:0.24
Consensus pattern (28 bp):
TCTTGAATCTAAAAAAAAAAAAATCCCC
Found at i:22944790 original size:25 final size:26
Alignment explanation
Indices: 22944711--22944797 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 26
22944701 TGATTTTTTG
*
22944711 TTCTTGAATCTCAAAAAAAAGAAAAATCCC
1 TTCTTGAATCT---AAAAAA-AAAAATCTC
*
22944741 CTCTTGAATCTAAAAAAAAAAAAATCTC
1 TTCTTGAATCT--AAAAAAAAAAATCTC
22944769 TTCTTGAATCT-AAAAAAAAAATCTC
1 TTCTTGAATCTAAAAAAAAAAATCTC
22944794 TTCT
1 TTCT
22944798 CTCCAAAATA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
25 18 0.33
28 18 0.33
29 8 0.15
30 10 0.19
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.29
Consensus pattern (26 bp):
TTCTTGAATCTAAAAAAAAAAATCTC
Found at i:22945299 original size:44 final size:44
Alignment explanation
Indices: 22945235--22945457 Score: 213
Period size: 44 Copynumber: 5.1 Consensus size: 44
22945225 TGAGTTCTTG
* * *
22945235 ATCTGCT-TCTTCGATCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
* * * *
22945278 ATCTGCTGTCTTCAATTTGTTCCTTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
*
22945322 ATCTGCTATCTTCAA-CTTGTTCCCTATAAGCACAGGGATTCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAGCACAGGGATGCCAA
** * * * * * *
22945364 ATGCTGAAATCTTCGATCTGCTTTACC-ATGAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG--TTCCCTATAAGCACAGGGATGCCAA
* *
22945410 TTCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
22945454 ATCT
1 ATCT
22945458 ACTGTTTTCA
Statistics
Matches: 145, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
42 2 0.01
43 23 0.16
44 100 0.69
45 19 0.13
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAGCACAGGGATGCCAA
Found at i:22946232 original size:205 final size:205
Alignment explanation
Indices: 22945618--22946926 Score: 2129
Period size: 205 Copynumber: 6.4 Consensus size: 205
22945608 GGGAACATCC
* * * * *
22945618 GAAAGTCAAATCTGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * * ** *
22945683 ATCTTGCTTCAGT-ATAAACATCTGAAGGTTAGATCTGCTACGTATCTGCTCTCCATTGAAGTGG
66 ATC-TGCTTCAGTGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
* *
22945747 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAGAGACCACAAATCATCTTAGATTTGCTTCA
129 AGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
22945812 TCGTAATCACGT
194 TCGTAATCACGT
* * *
22945824 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* * * ** *
22945889 ATCTTGCTTCAGT-ATAAACATCTGAAGGTCAGATCTGCTATGTATCTGCTCTCCATTGAAGTGG
66 ATC-TGCTTCAGTGA-AATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGA
* * * *
22945953 AGATGCCAGACTTCGATTTGTTCTCTGACAATACAAAGATGACAAATCATCTTAGATTTGGTTCA
129 AGATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCA
22946018 TCGTAATCACGT
194 TCGTAATCACGT
22946030 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
22946095 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
* * * *
22946160 ATGCCAAACTTCGATTAGTTATCTGACAATATAAAGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
*
22946225 ATAATCACGT
196 GTAATCACGT
*
22946235 GAAAGCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
22946300 ATCTGCTTCAGTGAAATCATTTGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
* *
22946365 ATGCCAAACTTCGATTCGTTCTCTGACAATATAGAGACGACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
22946430 GTAATCACGT
196 GTAATCACGT
* *
22946440 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAACACAAGAATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
* *
22946505 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATATGTCTGCTCTCCATCAATGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
* *
22946570 ATGCCAAACTTCGATTCGTTCTCTGACAATACAGAGACGACAAATTATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
22946635 GTAATCACGT
196 GTAATCACGT
* *
22946645 GAAAGCCAAATCAGCTATGTATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
*
22946710 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTTTGCTCTCCATCAAAGTGAAG
66 ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
*
22946775 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACAACAAATCATCTTAGATTTGCTTCATC
131 ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
22946840 GTAATCACGT
196 GTAATCACGT
22946850 GAAAGCCAAATCAGCTATGTCTTCGATTTGCTT-CTTGTAAACACAAGGATGCCAAACCATCTTG
1 GAAAGCCAAATCAGCTATGTCTTCGATTTG-TTCCTTGTAAACACAAGGATGCCAAACCATCTTG
22946914 GATCTGCTTCAGT
65 GATCTGCTTCAGT
22946927 ATAACATCTG
Statistics
Matches: 1047, Mismatches: 54, Indels: 5
0.95 0.05 0.00
Matches are distributed among these distances:
205 784 0.75
206 263 0.25
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTTGG
ATCTGCTTCAGTGAAATCATCTGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAAG
ATGCCAAACTTCGATTTGTTCTCTGACAATACAGAGACGACAAATCATCTTAGATTTGCTTCATC
GTAATCACGT
Found at i:22958803 original size:22 final size:22
Alignment explanation
Indices: 22958752--22958812 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
22958742 ATAAGTAAAT
* *
22958752 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
22958773 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
22958795 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
22958813 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:22958912 original size:3 final size:3
Alignment explanation
Indices: 22958904--22959017 Score: 65
Period size: 3 Copynumber: 37.7 Consensus size: 3
22958894 AAAGTAGTGC
* * *
22958904 TAA TAA TAA TAA TAA TAA TAA TAA T-C TAT TAA GTTA TAA TGAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA
* * * *
22958949 TAA TAA TAA TGA TGA T-A TAT TAGA TAA TAA TAG TAA -AA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * *
22958993 GTAA CAA TGA TAAA TTA TAA TAA TA
1 -TAA TAA TAA T-AA TAA TAA TAA TA
22959018 GTGATGAGAA
Statistics
Matches: 86, Mismatches: 16, Indels: 18
0.72 0.13 0.15
Matches are distributed among these distances:
2 7 0.08
3 68 0.79
4 11 0.13
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22958970 original size:36 final size:38
Alignment explanation
Indices: 22958911--22959019 Score: 102
Period size: 36 Copynumber: 2.9 Consensus size: 38
22958901 TGCTAATAAT
* *
22958911 AATAATAATAATAATAATCTATTA-AGTTATAAT-G-AA
1 AATAATAATAATAATAATATATTAGA-TAATAATAGTAA
* *
22958947 AATAATAATAATGATGATATATTAGATAATAATAGTAA
1 AATAATAATAATAATAATATATTAGATAATAATAGTAA
* * *
22958985 AATAATAAGTAACAATGATAAATT--ATAATAATAGT
1 AATAATAA-TAATAATAATATATTAGATAATAATAGT
22959020 GATGAGAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
36 27 0.44
37 13 0.21
38 10 0.16
39 12 0.19
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (38 bp):
AATAATAATAATAATAATATATTAGATAATAATAGTAA
Found at i:22959038 original size:16 final size:16
Alignment explanation
Indices: 22959017--22959048 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22959007 TTATAATAAT
22959017 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
22959033 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
22959049 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:22959181 original size:16 final size:15
Alignment explanation
Indices: 22959152--22959194 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
22959142 TATACGTATG
*
22959152 AAAAATAATGATAGT
1 AAAAATAATAATAGT
22959167 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
22959183 AATAATAATAAT
1 AAAAATAATAAT
22959195 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:22959300 original size:3 final size:3
Alignment explanation
Indices: 22959292--22959352 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
22959282 CTACCATATT
22959292 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22959340 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
22959353 AATGTAGAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:22959875 original size:25 final size:26
Alignment explanation
Indices: 22959819--22959888 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
22959809 ATCTCAAAAA
* *
22959819 AAAAAGAAAAATCCCCTCTTGAATCTC
1 AAAAA-AAAAATCTCTTCTTGAATCTC
22959846 AAAAAAAAAATCTCTTCTTGAATCTC
1 AAAAAAAAAATCTCTTCTTGAATCTC
22959872 -AAAAAAAAATCTCTTCT
1 AAAAAAAAAATCTCTTCT
22959889 CTCCAAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 17 0.41
26 19 0.46
27 5 0.12
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.27
Consensus pattern (26 bp):
AAAAAAAAAATCTCTTCTTGAATCTC
Found at i:22960971 original size:13 final size:13
Alignment explanation
Indices: 22960914--22960977 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
22960904 AGTTTGACAA
22960914 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
22960927 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
22960940 TGCTTTTGAGAAA-
1 TGCTTTTGA-AAAG
* *
22960953 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
22960966 TGCTTTGGAAAA
1 TGCTTTTGAAAA
22960978 ATTTAAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 2 0.05
13 35 0.88
14 3 0.08
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:22962607 original size:23 final size:23
Alignment explanation
Indices: 22962563--22962608 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
22962553 TTGATAAATT
* * *
22962563 AAATAAATAAATAATTTTTTGGG
1 AAATAAAAAAATAAGTTATTGGG
*
22962586 AAATAAAAAAATTAGTTATTGGG
1 AAATAAAAAAATAAGTTATTGGG
22962609 TTTGTTAACT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.15, T:0.35
Consensus pattern (23 bp):
AAATAAAAAAATAAGTTATTGGG
Found at i:22966244 original size:50 final size:48
Alignment explanation
Indices: 22966164--22966435 Score: 195
Period size: 50 Copynumber: 5.7 Consensus size: 48
22966154 ATGGAGTAAG
* *
22966164 GTGCCGATGCCATGTCCCAGACTTGGTCTTACACAAGTTCTAGCATATTT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTA-CAT-TTT
* * * * *
22966214 GTGCTGATGCCATGTCCCAGACATGGTCTTACAC-TG-AC-ACATCTC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTACATTTT
** * *
22966259 GTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACGTCTT
1 GT-GCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTACATTTT
* * * *
22966305 GAGGCCGATG-CATGTCCCAGACAT-GTCTTACACTAA-CACT-CGTTTCA
1 G-TGCCGATGCCATGTCCCAGACATGGTCTTACAC-AAGCTCTACATTT-T
* * * * * *
22966352 ATGCTGATGCCATGTCCCAGACCTGGTCTTACATAAGTTCTAGCATATAT
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTA-CAT-TTT
* *
22966402 GTACCGATGCCATGTCCCAGACATGGTTTTACAC
1 GTGCCGATGCCATGTCCCAGACATGGTCTTACAC
22966436 TGGCACATCT
Statistics
Matches: 175, Mismatches: 33, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
44 9 0.05
45 18 0.10
46 56 0.32
47 17 0.10
48 11 0.06
49 1 0.01
50 62 0.35
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (48 bp):
GTGCCGATGCCATGTCCCAGACATGGTCTTACACAAGCTCTACATTTT
Found at i:22966322 original size:46 final size:46
Alignment explanation
Indices: 22966166--22966581 Score: 214
Period size: 46 Copynumber: 8.8 Consensus size: 46
22966156 GGAGTAAGGT
* * * * *
22966166 GCCGATGCCATGTCCCAGACTTGGTCTTACACAAGTTCTAGCATATTTGT-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TA-CAT-CTCGTA
*
22966216 GCTGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTACATCTCGTA
* * *
22966262 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTTG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA
* * * * *
22966307 GGCCGATGCATGTCCCAGACATGTCTTACACTAACACT-CGTTTC-AA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTCGTA
* * * * *
22966353 TGCTGATGCCATGTCCCAGACCTGGTCTTACA-TAAGTTCTAGCATATATGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCT-TA-CATCT-CGTA
* *
22966405 -CCGATGCCATGTCCCAGACATGGTTTTACACTGGC--ACATCTCGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTACATCTCGTA
** * *
22966450 GCCGATGCATGTTACAGACATGTCTTACATTAGCTTACGTCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA
* * * * *
22966495 GGCTGATGCATAT-CCAGACATGTCTTACACTAGCACT-CATTTCAATA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTAGC-TTACATCTC-GTA
* * *
22966542 -CTGATGCCATGTCCCAGACATGATTTTACACTGGCTTACA
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTTACA
22966582 CAAATGACCC
Statistics
Matches: 289, Mismatches: 49, Indels: 58
0.73 0.12 0.15
Matches are distributed among these distances:
44 21 0.07
45 64 0.22
46 90 0.31
47 28 0.10
48 22 0.08
49 1 0.00
50 61 0.21
51 1 0.00
52 1 0.00
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.29
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA
Found at i:22966475 original size:142 final size:137
Alignment explanation
Indices: 22966215--22966577 Score: 330
Period size: 142 Copynumber: 2.6 Consensus size: 137
22966205 AGCATATTTG
*
22966215 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGA
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGA
* * *
22966280 CATGTCTTACACTGGCTTACGTCTTGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACACT
66 CATGTCTTACACTGGC-TACATCTCGAGGCCGATGCATGTCACAGACATGTCTTACACTAACACT
22966345 CGTTTCAA
130 CGTTTCAA
* * *
22966353 TGCTGATGCCATGTCCCAGACCTGGTCTTACA-TAAGTTCTAGCATATATGTA-CCGATGCCATG
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACT--G-AC-A-CATAT-CGTAGCCGATG-CATG
* *
22966416 TCCCAGACATGGTTTTACACTGGC-ACATCTCGTA-GCCGATGCATGTTACAGACATGTCTTACA
59 TCCCAGACAT-GTCTTACACTGGCTACATCTCG-AGGCCGATGCATGTCACAGACATGTCTTACA
* * * * *
22966479 TTAGC-TTACGTCTCGA
122 CTAACACT-CGTTTCAA
* * * * * *
22966495 GGCTGATG-CATAT-CCAGACAT-GTCTTACACTAGCACTCATTTCAATA-CTGATGCCATGTCC
1 TGCTGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATATC-GTAGCCGATG-CATGTCC
*
22966556 CAGACATGATTTTACACTGGCT
62 CAGACATG-TCTTACACTGGCT
22966578 TACACAAATG
Statistics
Matches: 187, Mismatches: 24, Indels: 28
0.78 0.10 0.12
Matches are distributed among these distances:
136 1 0.01
137 39 0.21
138 31 0.17
139 12 0.06
140 9 0.05
141 6 0.03
142 59 0.32
143 18 0.10
144 12 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (137 bp):
TGCTGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGA
CATGTCTTACACTGGCTACATCTCGAGGCCGATGCATGTCACAGACATGTCTTACACTAACACTC
GTTTCAA
Found at i:22966488 original size:188 final size:187
Alignment explanation
Indices: 22966169--22966560 Score: 622
Period size: 188 Copynumber: 2.1 Consensus size: 187
22966159 GTAAGGTGCC
* * * *
22966169 GATGCCATGTCCCAGACTTGGTCTTACACAAGTTCTAGCATATTTGTGCTGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTCCCAG
* *
22966234 ACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTA
66 ACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCACAGACATGTCTTACACTAGCTTA
* * * *
22966299 CGTCTTGAGGCCGATGCATGTCCCAGACATGTCTTACACTAACACTCGTTTCAATGCT
131 CGTCTCGAGGCCGATGCATAT-CCAGACATGTCTTACACTAACACTCATTTCAATACT
*
22966357 GATGCCATGTCCCAGACCTGGTCTTACATAAGTTCTAGCATATATGTACCGATGCCATGTCCCAG
1 GATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTCCCAG
* * * *
22966422 ACATGGTTTTACACTGGCACATCTCGTAGCCGATGCATGTTACAGACATGTCTTACATTAGCTTA
66 ACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCACAGACATGTCTTACACTAGCTTA
* *
22966487 CGTCTCGAGGCTGATGCATATCCAGACATGTCTTACACTAGCACTCATTTCAATACT
131 CGTCTCGAGGCCGATGCATATCCAGACATGTCTTACACTAACACTCATTTCAATACT
22966544 GATGCCATGTCCCAGAC
1 GATGCCATGTCCCAGAC
22966561 ATGATTTTAC
Statistics
Matches: 187, Mismatches: 17, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
187 50 0.27
188 137 0.73
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (187 bp):
GATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTCCCAG
ACATGGTCTTACACTGACACATCTCGTAGCCGATGCATGTCACAGACATGTCTTACACTAGCTTA
CGTCTCGAGGCCGATGCATATCCAGACATGTCTTACACTAACACTCATTTCAATACT
Found at i:22967130 original size:46 final size:46
Alignment explanation
Indices: 22967049--22967143 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 46
22967039 CCGGCCAAGC
** * *
22967049 TCTTTTAAAAGGGTCTAATTGCCCTGTAAAGACCCCCAAATTTTAT
1 TCTTTTAAAACAGACTAATTGCCCTGTAAAAACCCCCAAATTTTAT
* *
22967095 TCTTTTAAAACAGACTAATTGTCCTTTAAAAACCCCCAAATTTTAT
1 TCTTTTAAAACAGACTAATTGCCCTGTAAAAACCCCCAAATTTTAT
22967141 TCT
1 TCT
22967144 CTAGCTATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.08, T:0.37
Consensus pattern (46 bp):
TCTTTTAAAACAGACTAATTGCCCTGTAAAAACCCCCAAATTTTAT
Found at i:22971576 original size:31 final size:31
Alignment explanation
Indices: 22971541--22971625 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 31
22971531 TTGTAGTCGA
* *
22971541 AGCTACCACTAT-TCACTGATCAGGTAGCCGG
1 AGCTACCACT-TCTCACTAATCAGGTAGCCAG
22971572 AGCTACCACTTCTCACTAATCAGGTAGCCAG
1 AGCTACCACTTCTCACTAATCAGGTAGCCAG
* *
22971603 AGCGACCACTTCTTACTGAATCA
1 AGCTACCACTTCTCACT-AATCA
22971626 AATTACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
30 1 0.02
31 42 0.88
32 5 0.10
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.24
Consensus pattern (31 bp):
AGCTACCACTTCTCACTAATCAGGTAGCCAG
Found at i:22971781 original size:35 final size:36
Alignment explanation
Indices: 22971721--22972056 Score: 370
Period size: 35 Copynumber: 9.6 Consensus size: 36
22971711 TCCTCATTGA
**
22971721 AATACCATACCTATATTTCACAACTCAGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* * * ** *
22971756 AATGCTATGCCTACGTTTCTTAACTCAGTAT-AGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
*
22971791 AATACCATACCTACGTTTCACAACTCAGTAT-GGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
22971826 AATACCATACCTATGTTTCACAACTCAGTAT-GGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
*
22971861 AATACCATACCTACGTTTCACAACGT-GGTAT-GGAT
1 AATACCATACCTACGTTTCACAAC-TCAGTATGGGAT
* * * *
22971896 GATATCATACCTACGTTTCACAACGCGGTAT-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
22971931 GATACCATACCTACGTTTCACAACTCAGTAT-GGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
22971966 AATACCATACCTACATTTTACAACTCAGTAT-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
22972001 -ATACCATACCTACATTTCACAACTCAGTAT-GGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
22972035 AATAGCATACCTACATTTCACA
1 AATACCATACCTACGTTTCACA
22972057 CTTTGCCATG
Statistics
Matches: 264, Mismatches: 33, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
34 34 0.13
35 229 0.87
36 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (36 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAT
Found at i:22971905 original size:105 final size:104
Alignment explanation
Indices: 22971721--22972056 Score: 440
Period size: 105 Copynumber: 3.2 Consensus size: 104
22971711 TCCTCATTGA
* ** * * * **
22971721 AATACCATACCTATATTTCACAACTCAGTATGGGAAATGCTATGCCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
*
22971786 TAGATAATACCATACCTACGTTTCACAACTCAGTATGGTT
66 TGGAT-ATACCATACCTACGTTTCACAACTCAGTATGGTT
** *
22971826 AATACCATACCTATGTTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACGT-GGT
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAAC-TCAGT
* * * *
22971890 ATGGATGATATCATACCTACGTTTCACAACGCGGTATGGAT
65 ATGGAT-ATACCATACCTACGTTTCACAACTCAGTATGGTT
* * * *
22971931 GATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTACATTTTACAACTCAGTA
1 AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
*
22971996 TGGATATACCATACCTACATTTCACAACTCAGTATGGTT
66 TGGATATACCATACCTACGTTTCACAACTCAGTATGGTT
*
22972035 AATAGCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
22972057 CTTTGCCATG
Statistics
Matches: 201, Mismatches: 28, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
104 49 0.24
105 151 0.75
106 1 0.00
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.31
Consensus pattern (104 bp):
AATACCATACCTACATTTCACAACTCAGTATGGTTAATACCATACCTACGTTTCACAACTCAGTA
TGGATATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:22976625 original size:93 final size:93
Alignment explanation
Indices: 22976512--22976684 Score: 310
Period size: 93 Copynumber: 1.9 Consensus size: 93
22976502 CGCCCATAAG
* * *
22976512 CGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
22976577 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
22976605 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
22976670 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
22976685 CAAATATCTC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:22976680 original size:46 final size:46
Alignment explanation
Indices: 22976505--22976680 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
22976495 TGTAACCCGC
* * * *
22976505 CCATAAGCGAACTCGGGCTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* * *
22976551 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
22976601 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
22976644 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
22976681 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:22976699 original size:46 final size:46
Alignment explanation
Indices: 22976556--22976699 Score: 157
Period size: 46 Copynumber: 3.1 Consensus size: 46
22976546 CGCATCCATA
* * *
22976556 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--AATATCTC
* * * ** * *
22976604 A-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT-CCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATC-TC
22976649 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCTC
22976695 AGTGA
1 AGTGA
22976700 CATGTCACTT
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
44 1 0.01
45 3 0.04
46 40 0.52
47 32 0.42
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCTC
Found at i:22979934 original size:187 final size:188
Alignment explanation
Indices: 22979616--22980023 Score: 631
Period size: 187 Copynumber: 2.2 Consensus size: 188
22979606 TGGGGTAAGG
22979616 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
* * * *
22979681 CCAGACATGGTCTTACACTGACACATATCGTATCTGATGCATGTCCCATACATGTCTTACACTGG
66 CCAGACATGATCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
* * * *
22979746 CTTACGTCTCGAGGTCGATGCATGT-CCATACATGTCTTACACTATCACTCGTTTCAA
131 CTTACGTCTCGAGGCCGATGCATATCCCAGACATGTCTTACACTAGCACTCGTTTCAA
* * * * * *
22979803 TGTCGATGCCATATCCTAGACCTAGTCTTACACAAGTTCTAGCATTTATGTGCCGATGCCATGTC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
* * *
22979868 CCAGACATGATCTTACACTTG-CACATCTCGTAGCCGATGCATGTCCTAGACATGTGTTACACTG
66 CCAGACATGATCTTACAC-TGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTG
22979932 GCTTACGTCTCGAGGCCGATGCATATCCCAGACATGTCTTACACTAGCACTCGTTTCAA
130 GCTTACGTCTCGAGGCCGATGCATATCCCAGACATGTCTTACACTAGCACTCGTTTCAA
*
22979991 TGCCGATGCCATGTCCCAGACATGGTCTTACAC
1 TGCCGATGCCATGTCCCAGACCTGGTCTTACAC
22980024 TGGCTTACAC
Statistics
Matches: 197, Mismatches: 22, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
187 137 0.70
188 60 0.30
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (188 bp):
TGCCGATGCCATGTCCCAGACCTGGTCTTACACAAGTTCTAGCATATATGTACCGATGCCATGTC
CCAGACATGATCTTACACTGACACATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
CTTACGTCTCGAGGCCGATGCATATCCCAGACATGTCTTACACTAGCACTCGTTTCAA
Found at i:22979943 original size:46 final size:47
Alignment explanation
Indices: 22979668--22980031 Score: 218
Period size: 46 Copynumber: 7.8 Consensus size: 47
22979658 CATATATGTA
* * * *
22979668 CCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATATCGTA-T
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCG-AGG
* *
22979714 CTGATG-CATGTCCCATACATGTCTTACACTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGG
* * ** * * * *
22979760 TCGATG-CATGT-CCATACATGTCTTACACTATCACT-CGTTTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCGAGG
* * * * ** * **
22979805 TCGATGCCATATCCTAGACCTAGTCTTACACAAGTTCTA-G-CATTTATGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCT-TACGTC-TCGA-G-G
* *
22979855 CCGATGCCATGTCCCAGACATGATCTTACACTTGC--ACATCTCGTA-G
1 CCGATGCCATGTCCCAGACATG-TCTTACACTGGCTTACGTCTCG-AGG
* *
22979901 CCGATG-CATGTCCTAGACATGTGTTACACTGGCTTACGTCTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGG
* * * * * *
22979947 CCGATG-CATATCCCAGACATGTCTTACACTAGCACT-CGTTTCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCGAGG
22979993 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTAC
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTAC
22980032 ACAAATGACC
Statistics
Matches: 244, Mismatches: 51, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
44 22 0.09
45 61 0.25
46 82 0.34
47 21 0.09
48 28 0.11
49 3 0.01
50 27 0.11
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGG
Found at i:22985604 original size:13 final size:13
Alignment explanation
Indices: 22985579--22985616 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
22985569 AGCTATCACA
*
22985579 TGAATTAAATTAT
1 TGAATTAATTTAT
22985592 T-AAGTTAATTTAT
1 TGAA-TTAATTTAT
22985605 TGAATTAATTTA
1 TGAATTAATTTA
22985617 ATTTGACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (13 bp):
TGAATTAATTTAT
Found at i:22988628 original size:83 final size:83
Alignment explanation
Indices: 22988489--22988654 Score: 280
Period size: 83 Copynumber: 2.0 Consensus size: 83
22988479 AAGGACAATG
* *
22988489 GTAAGACCAAACCCAACAAAGGAAAGACTGCATTAAAACCTAAAGGAGGAATTTCTAAGGATGGA
1 GTAAGACCAAACCCAACAAAAGAAAGACTGCATTAAAACCTAAAGGAGGAATTTCTAAGGAAGGA
22988554 AAATGTTTCCATTACGGT
66 AAATGTTTCCATTACGGT
* *
22988572 GTAAGACCAAACCCAACAAAAGAAAGA-TCGCATTGAAACTTAAAGGAGGAATTTCTAAGGAAGG
1 GTAAGACCAAACCCAACAAAAGAAAGACT-GCATTAAAACCTAAAGGAGGAATTTCTAAGGAAGG
22988636 AAAATGTTTCCATTACGGT
65 AAAATGTTTCCATTACGGT
22988655 AAGACTGGAC
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 1 0.01
83 77 0.99
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (83 bp):
GTAAGACCAAACCCAACAAAAGAAAGACTGCATTAAAACCTAAAGGAGGAATTTCTAAGGAAGGA
AAATGTTTCCATTACGGT
Found at i:22989698 original size:19 final size:20
Alignment explanation
Indices: 22989665--22989705 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
22989655 ATTTTAAAAA
*
22989665 TTAAAAACTATTAAAATTAT
1 TTAAAAACTATTAAAAATAT
*
22989685 TTAAAAAGTA-TAAAAATAT
1 TTAAAAACTATTAAAAATAT
22989704 TT
1 TT
22989706 TTTAAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTAAAAACTATTAAAAATAT
Found at i:22993579 original size:2 final size:2
Alignment explanation
Indices: 22993572--22993606 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
22993562 GCAAAATTTA
22993572 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22993607 AACTTTTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23002071 original size:88 final size:85
Alignment explanation
Indices: 23001829--23002076 Score: 225
Period size: 88 Copynumber: 2.8 Consensus size: 85
23001819 AATATATAAT
* * * * *
23001829 ATATTT-AAT-TTGAATATTTATATTAAACTGTT-AAAAATATATAAAATATAATTTATTTAAAT
1 ATATTTGAATGTTCAATTTTTATATTAAATTGTTCAAAAATAAATATAATATAATTTATTTAAAT
23001891 TAATATACACAAAAAAAATG
66 TAATATACACAAAAAAAATG
* * * ***** * *
23001911 ATAATTGAATGTTC-ATTTTCGAAACGTAATTTAATATGTTCTTTTGTTAAACATAATATAATTA
1 ATATTTGAATGTTCAATTTT---TA--T-ATTAAAT-TGTTC-AAAAATAAATATAATATAATTT
*
23001975 ATTTAAATTAATATACACAAGAAAACTATG
58 ATTTAAATTAATATACACAA-AAAA-AATG
23002005 ATATTTGAATGTTCAATTTTTATATTAAATTGTTACAAAAATAAATATAATATAATTTATTTAAA
1 ATATTTGAATGTTCAATTTTTATATTAAATTGTT-CAAAAATAAATATAATATAATTTATTTAAA
23002070 TTAATAT
65 TTAATAT
23002077 GTTCATTAAA
Statistics
Matches: 125, Mismatches: 26, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
82 5 0.04
83 7 0.06
84 2 0.02
86 1 0.01
88 34 0.27
89 12 0.10
90 5 0.04
92 34 0.27
93 4 0.03
94 16 0.13
95 5 0.04
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (85 bp):
ATATTTGAATGTTCAATTTTTATATTAAATTGTTCAAAAATAAATATAATATAATTTATTTAAAT
TAATATACACAAAAAAAATG
Found at i:23002265 original size:18 final size:18
Alignment explanation
Indices: 23002242--23002286 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
23002232 ATTAAAATTT
23002242 TAAAAATAATTCACAACA
1 TAAAAATAATTCACAACA
*
23002260 TAAAAA-ATTTCACAACA
1 TAAAAATAATTCACAACA
*
23002277 T-CAAATAATT
1 TAAAAATAATT
23002287 AGAGGATATG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
16 3 0.13
17 14 0.61
18 6 0.26
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (18 bp):
TAAAAATAATTCACAACA
Found at i:23003678 original size:19 final size:19
Alignment explanation
Indices: 23003656--23003703 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
23003646 TAAAATATTT
23003656 ATTATTAATA-ATATTTATA
1 ATTA-TAATATATATTTATA
*
23003675 ATTATAATATATATTTATT
1 ATTATAATATATATTTATA
*
23003694 ATTAAAATAT
1 ATTATAATAT
23003704 TAATATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTATAATATATATTTATA
Found at i:23004470 original size:23 final size:23
Alignment explanation
Indices: 23004443--23004496 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
23004433 AGATTAAAAA
* *
23004443 TTAAAAA-AATATAAAATTTATTT
1 TTAAAAATAATAAAAAATAT-TTT
*
23004466 TTAAAAATCATAAAAAATATTTT
1 TTAAAAATAATAAAAAATATTTT
23004489 TTAAAAAT
1 TTAAAAAT
23004497 TAAAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
TTAAAAATAATAAAAAATATTTT
Found at i:23004478 original size:22 final size:22
Alignment explanation
Indices: 23004447--23004505 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
23004437 TAAAAATTAA
23004447 AAAAATATAAAATTTA-TTTTT
1 AAAAATATAAAATTTATTTTTT
**
23004468 AAAAATCATAAAAAATATTTTTT
1 AAAAAT-ATAAAATTTATTTTTT
23004491 AAAAAT-TAAAATTTA
1 AAAAATATAAAATTTA
23004506 ATTAATTGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.41
22 8 0.25
23 11 0.34
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAAATATAAAATTTATTTTTT
Found at i:23004941 original size:27 final size:27
Alignment explanation
Indices: 23004910--23004982 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
23004900 GGGTATGGTG
*
23004910 CCTATCTGATAGGCAGCATTGGTGACC
1 CCTATCTGATAGGCAGCACTGGTGACC
* *
23004937 CCTATCTGATAGGCGGTACTGGTGACC
1 CCTATCTGATAGGCAGCACTGGTGACC
* *
23004964 CCTATCTAATAGGCGGCAC
1 CCTATCTGATAGGCAGCAC
23004983 CAATAGCATT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.22, C:0.27, G:0.26, T:0.25
Consensus pattern (27 bp):
CCTATCTGATAGGCAGCACTGGTGACC
Found at i:23005042 original size:2 final size:2
Alignment explanation
Indices: 23005035--23005076 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
23005025 AGTATCAATT
23005035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23005077 GAACAATAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23010653 original size:62 final size:62
Alignment explanation
Indices: 23010517--23010795 Score: 434
Period size: 62 Copynumber: 4.5 Consensus size: 62
23010507 CAGTGTACCT
* *
23010517 AATTTATATTACAAAGTTTATTCCAAGTTTTAATGTTGTAAT-TATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * *
23010578 AATTTATATTACAAAGTTTGTTCCAATTTTTAATATTATAATGTATTTAATTTATATAATAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
*
23010640 AATTTATATTACAAAGTTTGTTCCAAGTTTTAGTATTGTAATGTATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* * * * *
23010702 AATTTATACTATAAAGTTTGTTTCAAGTTTTAATATTGTAATATATTTAATTTATATTACAA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
* *
23010764 AAATTATATTACAAAGTTTGTTTCAAGTTTTA
1 AATTTATATTACAAAGTTTGTTCCAAGTTTTA
23010796 GTGTTGCAAT
Statistics
Matches: 199, Mismatches: 18, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
61 38 0.19
62 161 0.81
ACGTcount: A:0.39, C:0.06, G:0.07, T:0.48
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTCCAAGTTTTAATATTGTAATGTATTTAATTTATATAACAA
Found at i:23011966 original size:14 final size:14
Alignment explanation
Indices: 23011947--23011973 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23011937 CAAATTACAT
23011947 GTTAGAATAGTATC
1 GTTAGAATAGTATC
23011961 GTTAGAATAGTAT
1 GTTAGAATAGTAT
23011974 TATTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:23011979 original size:14 final size:14
Alignment explanation
Indices: 23011948--23011981 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23011938 AAATTACATG
*
23011948 TTAGAATAGTATCG
1 TTAGAATAGTATCA
*
23011962 TTAGAATAGTATTA
1 TTAGAATAGTATCA
23011976 TTAGAA
1 TTAGAA
23011982 AAAAATGTCA
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:0.41, C:0.03, G:0.18, T:0.38
Consensus pattern (14 bp):
TTAGAATAGTATCA
Found at i:23014066 original size:3 final size:3
Alignment explanation
Indices: 23014046--23014111 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
23014036 CCGCTCTCTC
* *
23014046 CTT CTC CTT CTC CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
23014094 CTT CTT CTT CTT -TT CTT C
1 CTT CTT CTT CTT CTT CTT C
23014112 AAAAACTTTC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
2 2 0.03
3 56 0.97
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:23027321 original size:38 final size:38
Alignment explanation
Indices: 23027276--23027397 Score: 174
Period size: 38 Copynumber: 3.2 Consensus size: 38
23027266 GTGTACGTAT
* * *
23027276 AAGACCATAGCTGGGCTATGGCATCGTAATTAAAGTGT-
1 AAGACCATAACTGGGCTATGGCATTGTGA-TAAAGTGTA
* *
23027314 AAGACCATATCTGCGCTATGGCATTGTGATAAAGTGTA
1 AAGACCATAACTGGGCTATGGCATTGTGATAAAGTGTA
*
23027352 AAGACCATAACTAGGCTATGGCATTGTGATAAAGTGTA
1 AAGACCATAACTGGGCTATGGCATTGTGATAAAGTGTA
23027390 AAGACCAT
1 AAGACCAT
23027398 GGCAATATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
37 8 0.11
38 68 0.89
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (38 bp):
AAGACCATAACTGGGCTATGGCATTGTGATAAAGTGTA
Found at i:23031830 original size:6 final size:6
Alignment explanation
Indices: 23031809--23031842 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
23031799 AAATAAAGAC
23031809 AATTAA AATTCCAA AATTAA AATTAA AATTAA AA
1 AATTAA AATT--AA AATTAA AATTAA AATTAA AA
23031843 ACTTTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.77
8 6 0.23
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:23032823 original size:20 final size:20
Alignment explanation
Indices: 23032800--23032837 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23032790 CCAGCTTGAG
23032800 ACATGCCCGTGTAGCCTGGA
1 ACATGCCCGTGTAGCCTGGA
*
23032820 ACATGCCCGTGTGGCCTG
1 ACATGCCCGTGTAGCCTG
23032838 CCCGTGGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.32, G:0.32, T:0.21
Consensus pattern (20 bp):
ACATGCCCGTGTAGCCTGGA
Found at i:23033382 original size:13 final size:13
Alignment explanation
Indices: 23033364--23033399 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
23033354 GATAATTAGT
23033364 AAATCATACATAC
1 AAATCATACATAC
*
23033377 AAATCATACATAT
1 AAATCATACATAC
23033390 AAATTCATAC
1 AAA-TCATAC
23033400 CAAATTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:23034962 original size:3 final size:3
Alignment explanation
Indices: 23034954--23035000 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
23034944 ACCATTTGTA
23034954 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23035001 ATAAGTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:23035011 original size:8 final size:7
Alignment explanation
Indices: 23034957--23035011 Score: 59
Period size: 6 Copynumber: 8.6 Consensus size: 7
23034947 ATTTGTAAAT
23034957 AATAAT-
1 AATAATA
23034963 AATAAT-
1 AATAATA
23034969 AATAAT-
1 AATAATA
23034975 AATAAT-
1 AATAATA
23034981 AATAAT-
1 AATAATA
23034987 AATAAT-
1 AATAATA
23034993 AATAATA
1 AATAATA
23035000 AATAAGTA
1 AATAA-TA
23035008 AATA
1 AATA
23035012 TCTTTTACTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 36 0.77
7 5 0.11
8 6 0.13
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (7 bp):
AATAATA
Found at i:23040786 original size:13 final size:13
Alignment explanation
Indices: 23040768--23040803 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
23040758 GATAATTAGT
23040768 AAATCATACATAC
1 AAATCATACATAC
*
23040781 AAATCATACATAT
1 AAATCATACATAC
23040794 AAATTCATAC
1 AAA-TCATAC
23040804 CAAACTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCATACATAC
Found at i:23042406 original size:3 final size:3
Alignment explanation
Indices: 23042398--23042483 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
23042388 AATATGACAC
23042398 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23042446 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
23042484 GTAAATATCT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23045437 original size:16 final size:18
Alignment explanation
Indices: 23045416--23045453 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
23045406 TAGTTACTGT
23045416 AAACTG-AAACTGTAG-G
1 AAACTGAAAACTGTAGTG
23045432 AAACTGAAAACTGTAGTG
1 AAACTGAAAACTGTAGTG
23045450 AAAC
1 AAAC
23045454 CTCGATCTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 6 0.30
17 9 0.45
18 5 0.25
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (18 bp):
AAACTGAAAACTGTAGTG
Found at i:23063562 original size:23 final size:24
Alignment explanation
Indices: 23063500--23063565 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 24
23063490 GCTATGTGAG
**
23063500 GAAATGAGAGAATGAATGATGATT
1 GAAATGAGAGAATGAGGGATGATT
23063524 GAGAGATGAGAAGAATGAGGGATGATT
1 GA-A-ATGAG-AGAATGAGGGATGATT
23063551 GAAATGAG-GAATGAG
1 GAAATGAGAGAATGAG
23063566 TAAGGGTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
23 7 0.19
24 2 0.05
25 6 0.16
26 6 0.16
27 16 0.43
ACGTcount: A:0.44, C:0.00, G:0.36, T:0.20
Consensus pattern (24 bp):
GAAATGAGAGAATGAGGGATGATT
Found at i:23064649 original size:18 final size:18
Alignment explanation
Indices: 23064626--23064661 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
23064616 TTCATCATAT
23064626 ATATGAA-ATTGATAAGTG
1 ATATGAATA-TGATAAGTG
23064644 ATATGAATATGATAAGTG
1 ATATGAATATGATAAGTG
23064662 TGAGTGTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (18 bp):
ATATGAATATGATAAGTG
Found at i:23073645 original size:27 final size:27
Alignment explanation
Indices: 23073615--23073679 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
23073605 TACACTTTAA
23073615 AAACAATGTTTGTTATGGGAGCTTTTG
1 AAACAATGTTTGTTATGGGAGCTTTTG
23073642 AAACAATGTTTGTTATGGGAGCTTTTG
1 AAACAATGTTTGTTATGGGAGCTTTTG
23073669 AAACAATGTTT
1 AAACAATGTTT
23073680 TGAAAACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.08, G:0.23, T:0.40
Consensus pattern (27 bp):
AAACAATGTTTGTTATGGGAGCTTTTG
Found at i:23074049 original size:34 final size:34
Alignment explanation
Indices: 23074006--23074085 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 34
23073996 AGTGATAGTC
* *
23074006 CAGTATCAGTAAGGGCCGTAGCCCATTACAGTAT
1 CAGTATCAGTAAGGGCCGTAGCCCAATACAGTAA
** * *
23074040 CAGTATCAGTGTGGGCCTTAGCCCAATATAGTAA
1 CAGTATCAGTAAGGGCCGTAGCCCAATACAGTAA
*
23074074 CAGTAACAGTAA
1 CAGTATCAGTAA
23074086 TGCAATAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.24
Consensus pattern (34 bp):
CAGTATCAGTAAGGGCCGTAGCCCAATACAGTAA
Found at i:23083400 original size:15 final size:15
Alignment explanation
Indices: 23083382--23083415 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
23083372 GTGTTGGGGC
*
23083382 AAAAATTTTAAAAAT
1 AAAAATTGTAAAAAT
*
23083397 AAAAATTGTGAAAAT
1 AAAAATTGTAAAAAT
23083412 AAAA
1 AAAA
23083416 TAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAAATTGTAAAAAT
Found at i:23086410 original size:5 final size:5
Alignment explanation
Indices: 23086400--23086432 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
23086390 CCAATTTATG
23086400 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
23086433 GAACACACAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:23089490 original size:36 final size:36
Alignment explanation
Indices: 23089443--23089516 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
23089433 CTATGGCCAT
23089443 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
1 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
23089479 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
1 AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
23089515 AG
1 AG
23089517 GACATTGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.50, C:0.14, G:0.15, T:0.22
Consensus pattern (36 bp):
AGTTTCAACCATGAAATCAAAAGTGCATAAAAGTAA
Found at i:23104804 original size:27 final size:27
Alignment explanation
Indices: 23104221--23104803 Score: 735
Period size: 27 Copynumber: 21.6 Consensus size: 27
23104211 AAAGTACTCC
23104221 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
23104248 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
23104275 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
23104302 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
23104329 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
23104356 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
23104383 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
23104410 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
23104437 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* **
23104464 TGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
23104491 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
23104518 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
23104545 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
23104572 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
23104599 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
23104625 CTAATTTACATAATTACCATTTTACCCC
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
23104653 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
23104680 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
23104707 CGATTTATAGTATTTCCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
23104734 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
23104761 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
23104788 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
23104804 TAAAATACCC
Statistics
Matches: 489, Mismatches: 57, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.01
27 479 0.98
28 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:23104826 original size:27 final size:27
Alignment explanation
Indices: 23104782--23104867 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
23104772 ATTACTGTTT
* ** *
23104782 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*** **
23104809 TACCCTTGGTTTGTAAAATTACCGCAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
23104836 TACCCTCAATTTGTAAAACTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
23104863 TACCC
1 TACCC
23104868 CTGTATGGTA
Statistics
Matches: 46, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.38, C:0.26, G:0.07, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:23106072 original size:25 final size:25
Alignment explanation
Indices: 23106044--23106091 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23106034 TTATACCATG
* * *
23106044 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
23106069 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
23106092 GTTTATGTAT
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:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Done.