Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 65 of 313
Found at i:21993850 original size:53 final size:53
Alignment explanation
Indices: 21993787--21993892 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
21993777 AAATAGAGGT
21993787 TCCAAAACCAATGTTCCGACTAGACCCAAAATCGAGCTGATACATTCTCAGCC
1 TCCAAAACCAATGTTCCGACTAGACCCAAAATCGAGCTGATACATTCTCAGCC
21993840 TCCAAAACCAATGTTCCGACTAGACCCAAAATCGAGCTGATACATTCTCAGCC
1 TCCAAAACCAATGTTCCGACTAGACCCAAAATCGAGCTGATACATTCTCAGCC
21993893 ACAAGAGCGG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.34, C:0.32, G:0.13, T:0.21
Consensus pattern (53 bp):
TCCAAAACCAATGTTCCGACTAGACCCAAAATCGAGCTGATACATTCTCAGCC
Found at i:22001697 original size:20 final size:21
Alignment explanation
Indices: 22001672--22001719 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
22001662 CAATTTGGTA
*
22001672 CGATACCATTGA-AAAACTAT
1 CGATACCATTGATAAAAATAT
* *
22001692 CGATA-CTTTTATAAAAATAT
1 CGATACCATTGATAAAAATAT
22001712 CGATACCA
1 CGATACCA
22001720 CAAGGAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 4 0.18
20 17 0.77
21 1 0.05
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.29
Consensus pattern (21 bp):
CGATACCATTGATAAAAATAT
Found at i:22003132 original size:27 final size:27
Alignment explanation
Indices: 22003084--22003189 Score: 119
Period size: 27 Copynumber: 3.9 Consensus size: 27
22003074 GCGAGGCTAC
* *
22003084 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
* *
22003111 CAGTTATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
22003137 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
22003164 CAGATATTTGTGGCATAGCCACCAGA
1 CAGATA-TTGTGGCAGAGCCACCAGA
22003190 ACGCTTCCTC
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 7 0.10
27 59 0.87
28 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:22004288 original size:26 final size:26
Alignment explanation
Indices: 22004257--22004364 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
22004247 TGAAATGCCC
*
22004257 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
22004283 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
22004309 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
22004335 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22004361 ATCA
1 ATCA
22004365 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22005676 original size:21 final size:21
Alignment explanation
Indices: 22005643--22005683 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22005633 CCTATCCATT
*
22005643 GTTTAAGAAATGATGTTTGAG
1 GTTTAAGAAATGAGGTTTGAG
* *
22005664 GTTTTAGAGATGAGGTTTGA
1 GTTTAAGAAATGAGGTTTGA
22005684 TCTTATAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (21 bp):
GTTTAAGAAATGAGGTTTGAG
Found at i:22006984 original size:19 final size:20
Alignment explanation
Indices: 22006947--22006986 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22006937 TCTTAAAGTA
22006947 AAAATGAATGTCAAATTTTG
1 AAAATGAATGTCAAATTTTG
* *
22006967 AAAATGTATGTCAATTTTTG
1 AAAATGAATGTCAAATTTTG
22006987 TTTTGGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (20 bp):
AAAATGAATGTCAAATTTTG
Found at i:22007153 original size:22 final size:23
Alignment explanation
Indices: 22007102--22007146 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
22007092 AAGCTTTTTT
*
22007102 TGAAAATATATTTTGATATAAAAA
1 TGAAAA-AAATTTTGATATAAAAA
22007126 TGAAAAAAATTTTGA-ATAAAA
1 TGAAAAAAATTTTGATATAAAA
22007147 GTTAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 6 0.30
23 8 0.40
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (23 bp):
TGAAAAAAATTTTGATATAAAAA
Found at i:22009467 original size:95 final size:95
Alignment explanation
Indices: 22009204--22009482 Score: 357
Period size: 95 Copynumber: 2.9 Consensus size: 95
22009194 ACTAGTGGTG
* ** * *
22009204 GATACCTTACGGATGGCTAAGATCCTGCA-ATTATTGTAAATTCCTCATAGCTCGTGTGAGCAGC
1 GATACCTTACGGATGGCTAAGATCCTACATA-TATTGTGGATTCTTCACAGCTCGTGTGAGCAGC
* * * * *
22009268 ATCTTGTAACAATTAATGTCCCGATTTATTG
65 ATCGTGTAATAGTTAATGTCCCGATTTACTA
** * * *
22009299 GATACCTTACTAATGGCTAAGATCCTACATATATTGCGGATTCTTCACAACTCTTGTGAGCAGCA
1 GATACCTTACGGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGCA
**
22009364 TCGTGTAATAGTTAATGTCTTGATTTACTA
66 TCGTGTAATAGTTAATGTCCCGATTTACTA
22009394 GATACCTTATC-GATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGC
1 GATACCTTA-CGGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGC
*
22009458 ATCGTGTAATGGTTAATGT-CCGATT
65 ATCGTGTAATAGTTAATGTCCCGATT
22009483 CACAGCTCAT
Statistics
Matches: 158, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
94 4 0.03
95 152 0.96
96 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (95 bp):
GATACCTTACGGATGGCTAAGATCCTACATATATTGTGGATTCTTCACAGCTCGTGTGAGCAGCA
TCGTGTAATAGTTAATGTCCCGATTTACTA
Found at i:22013464 original size:28 final size:28
Alignment explanation
Indices: 22013432--22013496 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
22013422 ATTTACTAGA
*
22013432 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
22013460 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
22013488 ATACCCCTA
1 ATACCCCTA
22013497 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:22013675 original size:29 final size:28
Alignment explanation
Indices: 22013612--22013675 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
22013602 CTGGTGGTTA
* *
22013612 TGCCACAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
22013640 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
22013669 TGTCACA
1 TGCCACA
22013676 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 16 0.52
29 15 0.48
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:22014152 original size:19 final size:19
Alignment explanation
Indices: 22014128--22014166 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
22014118 TTTTAATTAT
* *
22014128 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
22014147 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
22014166 T
1 T
22014167 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:22018176 original size:30 final size:30
Alignment explanation
Indices: 22018142--22018201 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
22018132 ATTTAATACG
22018142 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
22018172 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
22018202 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:22024059 original size:28 final size:28
Alignment explanation
Indices: 22024028--22024088 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
22024018 ATTAGAATAA
*
22024028 CCCTATGTATGCAAAATTACCATTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
* *
22024056 CCCTATGTATGCTAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCATTATAC
22024084 CCCTA
1 CCCTA
22024089 GGGTTAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCATTATAC
Found at i:22024235 original size:28 final size:28
Alignment explanation
Indices: 22024194--22024284 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
22024184 AGGAAGCGTC
22024194 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
22024222 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
* * *
22024250 CTAGTGGCACTACCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
22024279 CTGGTG
1 CTGGTG
22024285 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 49 0.89
29 6 0.11
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:22024777 original size:18 final size:18
Alignment explanation
Indices: 22024738--22024778 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22024728 TAATAAGGCC
* *
22024738 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
22024756 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
22024774 TTTTA
1 TTTTA
22024779 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:22039375 original size:12 final size:12
Alignment explanation
Indices: 22039360--22039393 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22039350 GCCGCCAAGG
*
22039360 CCACCACCAACT
1 CCACCTCCAACT
*
22039372 CCACCTCCACCT
1 CCACCTCCAACT
22039384 CCACCTCCAA
1 CCACCTCCAA
22039394 GACCGGTTCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.62, G:0.00, T:0.12
Consensus pattern (12 bp):
CCACCTCCAACT
Found at i:22039750 original size:24 final size:24
Alignment explanation
Indices: 22039722--22039773 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
22039712 CATCATGTCC
*
22039722 TTTAGAAACCTTAATCTATGACCT
1 TTTAGAAACCTTAATCTAAGACCT
*
22039746 TTTAGAAACCTTAATTTAAGACCT
1 TTTAGAAACCTTAATCTAAGACCT
22039770 TTTA
1 TTTA
22039774 ATGAACTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (24 bp):
TTTAGAAACCTTAATCTAAGACCT
Found at i:22042639 original size:13 final size:13
Alignment explanation
Indices: 22042621--22042646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22042611 TTTTGTACTG
22042621 AATAAGTGGATGT
1 AATAAGTGGATGT
22042634 AATAAGTGGATGT
1 AATAAGTGGATGT
22042647 GGTTGTGTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
AATAAGTGGATGT
Found at i:22044808 original size:22 final size:22
Alignment explanation
Indices: 22044782--22044826 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
22044772 ATTATATGTA
22044782 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAAGTTAATT
* *
22044804 TTAATTTATATCTAAGTTAATT
1 TTAATTCATATATAAGTTAATT
22044826 T
1 T
22044827 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATTCATATATAAGTTAATT
Found at i:22062221 original size:19 final size:17
Alignment explanation
Indices: 22062187--22062228 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
22062177 GTAAGACCGT
22062187 ATTTTTTCTTAAATTTTA
1 ATTTTTTCTTAAA-TTTA
22062205 ATTTTATTC-TAATATTTA
1 ATTTT-TTCTTAA-ATTTA
22062223 ATTTTT
1 ATTTTT
22062229 CAATTTATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTTTTTCTTAAATTTA
Found at i:22067612 original size:20 final size:18
Alignment explanation
Indices: 22067569--22067603 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22067559 TTCTTGTCAA
**
22067569 AAAATAATTAATTTGCAT
1 AAAATAATTAAAGTGCAT
22067587 AAAATAATTAAAGTGCA
1 AAAATAATTAAAGTGCA
22067604 CTTAAAATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.31
Consensus pattern (18 bp):
AAAATAATTAAAGTGCAT
Found at i:22071071 original size:16 final size:16
Alignment explanation
Indices: 22071050--22071081 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22071040 ATGAAATAGC
*
22071050 ATAAATAAACAATTAA
1 ATAAATAAAAAATTAA
22071066 ATAAATAAAAAATTAA
1 ATAAATAAAAAATTAA
22071082 GTTAAATTGG
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:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAATAAAAAATTAA
Found at i:22073995 original size:39 final size:40
Alignment explanation
Indices: 22073894--22074078 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
22073884 TTGAATGATG
* * * *
22073894 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
22073933 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22073974 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
22074013 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
22074052 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
22074079 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 36 0.29
40 80 0.64
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:22074030 original size:79 final size:81
Alignment explanation
Indices: 22073894--22074078 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
22073884 TTGAATGATG
* *
22073894 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
22073958 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
22073973 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
22074035 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
22074053 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22074079 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.64
80 32 0.35
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:22074100 original size:79 final size:79
Alignment explanation
Indices: 22073947--22074111 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
22073937 GGACTAAGAT
* ** *
22073947 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
22074012 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
22074026 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-C
* *
22074089 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
22074105 CCGAAGG
1 CCGAAGG
22074112 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:22087544 original size:18 final size:16
Alignment explanation
Indices: 22087521--22087568 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
22087511 AAAGTCTAAG
22087521 AAAATAACAATAAACATA
1 AAAATAA-AATAAAC-TA
*
22087539 AAAATAGAAAAAAACTA
1 AAAATA-AAATAAACTA
22087556 AAAATAAAATAAA
1 AAAATAAAATAAA
22087569 ATGAATAGAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 12 0.44
19 1 0.04
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (16 bp):
AAAATAAAATAAACTA
Found at i:22087569 original size:17 final size:18
Alignment explanation
Indices: 22087521--22087569 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
22087511 AAAGTCTAAG
22087521 AAAATAACAAT-AAACATA
1 AAAATAA-AATAAAACATA
22087539 AAAATAGAAA-AAAAC-TA
1 AAAATA-AAATAAAACATA
22087556 AAAATAAAATAAAA
1 AAAATAAAATAAAA
22087570 TGAATAGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
16 3 0.11
17 12 0.43
18 12 0.43
19 1 0.04
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAATAAAATAAAACATA
Found at i:22089025 original size:23 final size:28
Alignment explanation
Indices: 22088970--22089028 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
22088960 ACTAATAATG
*
22088970 AGCAATAATAATCATAAAGAAGTAGACT
1 AGCAAGAATAATCATAAAGAAGTAGACT
22088998 AGCAAGAATAAT-ATAAA-AA-TAG-C-
1 AGCAAGAATAATCATAAAGAAGTAGACT
22089021 AGCAAGAA
1 AGCAAGAA
22089029 ACAAGTAAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 8 0.27
24 1 0.03
25 3 0.10
26 2 0.07
27 5 0.17
28 11 0.37
ACGTcount: A:0.58, C:0.10, G:0.15, T:0.17
Consensus pattern (28 bp):
AGCAAGAATAATCATAAAGAAGTAGACT
Found at i:22089472 original size:12 final size:13
Alignment explanation
Indices: 22089449--22089477 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22089439 GCGCGGGAAA
22089449 GAAAAAGAAAAGG
1 GAAAAAGAAAAGG
22089462 GAAAAAG-AAAGG
1 GAAAAAGAAAAGG
22089474 GAAA
1 GAAA
22089478 GGTCTGGTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAGG
Found at i:22102932 original size:22 final size:22
Alignment explanation
Indices: 22102905--22102949 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22102895 GAGTTAAAGG
22102905 TAAATCATTAGAAAGAAGAAAA
1 TAAATCATTAGAAAGAAGAAAA
22102927 TAAATCATTAGAAAGAAGAAAA
1 TAAATCATTAGAAAGAAGAAAA
22102949 T
1 T
22102950 GACTTCACTT
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:0.62, C:0.04, G:0.13, T:0.20
Consensus pattern (22 bp):
TAAATCATTAGAAAGAAGAAAA
Found at i:22105935 original size:34 final size:34
Alignment explanation
Indices: 22105891--22105972 Score: 114
Period size: 34 Copynumber: 2.4 Consensus size: 34
22105881 TTAGCCCCTT
*
22105891 TTTCAATAACAGTATCAGTCTGGGCCTGAGCCCA
1 TTTCAGTAACAGTATCAGTCTGGGCCTGAGCCCA
* *
22105925 TTTCAGTAACAG-AGGCAGTCTGGGCCTTAGCCCA
1 TTTCAGTAACAGTA-TCAGTCTGGGCCTGAGCCCA
22105959 TTTCAGT-ACAGTAT
1 TTTCAGTAACAGTAT
22105973 GCAAACAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
33 5 0.12
34 37 0.88
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTATCAGTCTGGGCCTGAGCCCA
Found at i:22109150 original size:28 final size:28
Alignment explanation
Indices: 22109106--22109160 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
22109096 CCCAAAAACT
22109106 CATCCTCTAACTATTTACTCTTAATCTA
1 CATCCTCTAACTATTTACTCTTAATCTA
* *
22109134 CATCCTCTAATTGTTTACTCTTAATCT
1 CATCCTCTAACTATTTACTCTTAATCT
22109161 GCTCAATCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.45
Consensus pattern (28 bp):
CATCCTCTAACTATTTACTCTTAATCTA
Found at i:22115746 original size:46 final size:45
Alignment explanation
Indices: 22115643--22115814 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 45
22115633 ACATTATGAG
*
22115643 AGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGA-T
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGAGT
*
22115688 GAGCACTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGTCTTGATACGT
1 -AGC-C-AGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGA-GT
* *
22115736 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACGAGATGT
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGA-GT
*
22115782 -GTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
22115815 AGCACAGATA
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 54 0.50
47 16 0.15
48 13 0.12
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGAGT
Found at i:22115844 original size:50 final size:50
Alignment explanation
Indices: 22115786--22115918 Score: 230
Period size: 50 Copynumber: 2.7 Consensus size: 50
22115776 AGATGTGTCA
*
22115786 GTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATACTAGATATT
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATACTAGAGATT
* * *
22115836 GTGTAAGACCATGTTTGGGACATGGCATCAGCACATATATACTAGAGCTT
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATACTAGAGATT
22115886 GTGTAAGACCATGTCTGGGACATGGCATCAGCA
1 GTGTAAGACCATGTCTGGGACATGGCATCAGCA
22115919 TCTGACCCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 78 1.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (50 bp):
GTGTAAGACCATGTCTGGGACATGGCATCAGCACAGATATACTAGAGATT
Found at i:22120081 original size:21 final size:21
Alignment explanation
Indices: 22120053--22120104 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
22120043 ATTTTCCTAA
22120053 GATG-TAAATTGGATTGAA-TT
1 GATGTTAAATTGGATT-AACTT
* *
22120073 GATTTTAAATTGTATTAACTT
1 GATGTTAAATTGGATTAACTT
22120094 GATGTTAAATT
1 GATGTTAAATT
22120105 TACTCGTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (21 bp):
GATGTTAAATTGGATTAACTT
Found at i:22121172 original size:26 final size:26
Alignment explanation
Indices: 22121133--22121183 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
22121123 ATTATGAAAA
*
22121133 TATACTTGTAATATAAATATATGATT
1 TATACATGTAATATAAATATATGATT
* * *
22121159 TATACATGTTATATGAATATGTGAT
1 TATACATGTAATATAAATATATGAT
22121184 ACGAAATGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (26 bp):
TATACATGTAATATAAATATATGATT
Found at i:22126758 original size:21 final size:21
Alignment explanation
Indices: 22126730--22126781 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
22126720 ATTTTCCTAA
*
22126730 GATG-TAAATTCG-ATTGAATT
1 GATGTTAAATT-GTATTAAATT
22126750 GA-GTTTAAATTGTATTAAATT
1 GATG-TTAAATTGTATTAAATT
22126771 GATGTTAAATT
1 GATGTTAAATT
22126782 TAATCGTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 1 0.04
20 3 0.11
21 22 0.81
22 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (21 bp):
GATGTTAAATTGTATTAAATT
Found at i:22130595 original size:61 final size:59
Alignment explanation
Indices: 22130516--22130683 Score: 189
Period size: 60 Copynumber: 2.8 Consensus size: 59
22130506 CCTTAGAAAA
* * * * * *
22130516 ATTTTAATATGATAATTATTGAATATACTTTAATAAAAAATAATAAAAATAATTTAATCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAATAAT--AAATAATTTAATAAC
**
22130577 ATTTTAATATAATTATTATTAAATATAATTTAAT-AAAAATAATATTTAATTTAATAAC
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAATAATAAATAATTTAATAAC
* *
22130635 ATTCTCAATATAATTATTATTAAAATATAAATTAAT-AAAAATAA-AAATA
1 ATT-TTAATATAATTATTATT-AAATATAATTTAATAAAAAATAATAAATA
22130684 TATAATATAT
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
58 14 0.15
59 19 0.20
60 30 0.32
61 30 0.32
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (59 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAAATAATAAATAATTTAATAAC
Found at i:22130608 original size:26 final size:26
Alignment explanation
Indices: 22130579--22130671 Score: 71
Period size: 29 Copynumber: 3.3 Consensus size: 26
22130569 TTAATCATAT
22130579 TTTAATATAATTATTATTAAATATAA
1 TTTAATATAATTATTATTAAATATAA
* *
22130605 TTTAATAAAAATAATATTTAATTTAATA-ACA
1 TTTAAT-ATAAT--TA-TT-ATTAAATATA-A
22130636 TTCTCAATATAATTATTATTAAAATATAA
1 TT-T-AATATAATTATTATT-AAATATAA
*
22130665 ATTAATA
1 TTTAATA
22130672 AAAATAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 19
0.68 0.07 0.25
Matches are distributed among these distances:
26 6 0.12
27 8 0.15
28 4 0.08
29 10 0.19
30 6 0.12
31 10 0.19
32 5 0.10
33 3 0.06
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAATATAATTATTATTAAATATAA
Found at i:22139541 original size:65 final size:65
Alignment explanation
Indices: 22139437--22139559 Score: 201
Period size: 65 Copynumber: 1.9 Consensus size: 65
22139427 GGCAAAGCAC
*
22139437 GGGAAACAAGTTGAACAAAGCTAAAACACAAATGGAAAGGACTCAAACCTTTCGGTTACTAATAT
1 GGGAAACAAGATGAACAAAGCTAAAACACAAATGGAAAGGACTCAAACCTTTCGGTTACTAATAT
** **
22139502 GGGAAACAAGATGAACAAAGCTAAAACATGAATGGAAAGGACTTGAACCTTTCGGTTA
1 GGGAAACAAGATGAACAAAGCTAAAACACAAATGGAAAGGACTCAAACCTTTCGGTTA
22139560 TTAGCATGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.20
Consensus pattern (65 bp):
GGGAAACAAGATGAACAAAGCTAAAACACAAATGGAAAGGACTCAAACCTTTCGGTTACTAATAT
Found at i:22139844 original size:3 final size:3
Alignment explanation
Indices: 22139838--22139865 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
22139828 AAAAGGGTAA
22139838 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
22139866 TCGTCACTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:22145178 original size:22 final size:23
Alignment explanation
Indices: 22145127--22145179 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
22145117 AGAAAACCAT
22145127 TTTAT-GTGTTAAATGCTGAAAA
1 TTTATGGTGTTAAATGCTGAAAA
*
22145149 TTTA-GGTGTTAAATGCTG-CAA
1 TTTATGGTGTTAAATGCTGAAAA
22145170 TTTATGGTGT
1 TTTATGGTGT
22145180 CTGAAAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.28, C:0.06, G:0.23, T:0.43
Consensus pattern (23 bp):
TTTATGGTGTTAAATGCTGAAAA
Found at i:22146033 original size:10 final size:10
Alignment explanation
Indices: 22146020--22146055 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
22146010 TTTTCATGAC
*
22146020 TTTTACAATA
1 TTTTATAATA
22146030 TTTTATAATA
1 TTTTATAATA
22146040 TTTTATAATA
1 TTTTATAATA
22146050 TTTTAT
1 TTTTAT
22146056 TTTTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (10 bp):
TTTTATAATA
Found at i:22146196 original size:43 final size:43
Alignment explanation
Indices: 22146076--22146259 Score: 248
Period size: 43 Copynumber: 4.3 Consensus size: 43
22146066 TTTTATGACC
* *
22146076 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCAG-CT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CAAGACT
** * *
22146119 TTTAATGGCGTTTGT-GGAGAAGCGCCGCTAAAGGTCACA-ATT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA-AGACT
22146161 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGACT
* *
22146204 TTTAGCGGCGTTTGTGAGAAAAGCGCCGTTAAAGGTCAAGACT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGACT
*
22146247 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
22146260 TTTAAAATAA
Statistics
Matches: 124, Mismatches: 13, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
41 1 0.01
42 34 0.27
43 89 0.72
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCAAGACT
Found at i:22146219 original size:85 final size:86
Alignment explanation
Indices: 22146076--22146259 Score: 257
Period size: 85 Copynumber: 2.2 Consensus size: 86
22146066 TTTTATGACC
* * *
22146076 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCCAGCTTTTAATGGCGTTTGTG-GAGAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCAAGCTTTTAACGGCGTTTGTGAGAAAA
*
22146140 GCGCCGCTAAAGGTCACA-ATT
66 GCGCCGCTAAAGGTCA-AGACT
* *
22146161 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGT-CAAGACTTTTAGCGGCGTTTGTGAGAAA
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCAAG-CTTTTAACGGCGTTTGTGAGAAA
*
22146225 AGCGCCGTTAAAGGTCAAGACT
65 AGCGCCGCTAAAGGTCAAGACT
*
22146247 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
22146260 TTTAAAATAA
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
84 3 0.03
85 52 0.59
86 33 0.38
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.27
Consensus pattern (86 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCCAAGCTTTTAACGGCGTTTGTGAGAAAA
GCGCCGCTAAAGGTCAAGACT
Found at i:22146434 original size:10 final size:10
Alignment explanation
Indices: 22146419--22146448 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22146409 AATTTGATTG
22146419 TTTTTTTAAA
1 TTTTTTTAAA
22146429 TTTTTTTAAA
1 TTTTTTTAAA
*
22146439 TTTATTTAAA
1 TTTTTTTAAA
22146449 AAAATAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTTTTAAA
Found at i:22148594 original size:16 final size:16
Alignment explanation
Indices: 22148573--22148624 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
22148563 TTTAGGCTCA
22148573 ACTCATGAAAACCTCT
1 ACTCATGAAAACCTCT
** ** *
22148589 ACTCATGTTTAGGCTCA
1 ACTCATG-AAAACCTCT
22148606 ACTCATGAAAACCTCT
1 ACTCATGAAAACCTCT
22148622 ACT
1 ACT
22148625 ATTAGCCGGT
Statistics
Matches: 25, Mismatches: 10, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.33, C:0.29, G:0.10, T:0.29
Consensus pattern (16 bp):
ACTCATGAAAACCTCT
Found at i:22148600 original size:33 final size:33
Alignment explanation
Indices: 22148558--22148624 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
22148548 AATATTAATA
22148558 TCATGTTTAGGCTCAACTCATGAAAACCTCTAC
1 TCATGTTTAGGCTCAACTCATGAAAACCTCTAC
22148591 TCATGTTTAGGCTCAACTCATGAAAACCTCTAC
1 TCATGTTTAGGCTCAACTCATGAAAACCTCTAC
22148624 T
1 T
22148625 ATTAGCCGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (33 bp):
TCATGTTTAGGCTCAACTCATGAAAACCTCTAC
Found at i:22148611 original size:17 final size:17
Alignment explanation
Indices: 22148558--22148612 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
22148548 AATATTAATA
22148558 TCATGTTTAGGCTCAAC
1 TCATGTTTAGGCTCAAC
** ** *
22148575 TCATG-AAAACCTCTAC
1 TCATGTTTAGGCTCAAC
22148591 TCATGTTTAGGCTCAAC
1 TCATGTTTAGGCTCAAC
22148608 TCATG
1 TCATG
22148613 AAAACCTCTA
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (17 bp):
TCATGTTTAGGCTCAAC
Found at i:22151364 original size:48 final size:46
Alignment explanation
Indices: 22151307--22151430 Score: 146
Period size: 48 Copynumber: 2.7 Consensus size: 46
22151297 ATATTCATAC
* *
22151307 CGATGCCATGTCCCAGACATGGTCTTACACTGACACAT-TTATACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCATA-GT
* * *
22151353 GCTGATGCCATGTCCCAGATATGGTTTTACACTAACACATCTCGTAGT
1 -C-GATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCATAGT
*
22151401 CGATG-CATGTCCCAGACAT-GTCCTACACTA
1 CGATGCCATGTCCCAGACATGGTCTTACACTA
22151431 GCTCTCGACT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
44 9 0.13
45 13 0.19
46 4 0.06
47 2 0.03
48 36 0.54
49 3 0.04
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCATAGT
Found at i:22151465 original size:47 final size:45
Alignment explanation
Indices: 22151403--22151526 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 45
22151393 CTCGTAGTCG
* *
22151403 ATGCATGTCCCAGACATGTCCTACACTAGCTCTCGACTCAA-T-GCCA
1 ATGCATGTCCTAGACATGTCTTACACTAGCTCTC-A-T-AAGTGGCCA
* *
22151449 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCG
1 ATG-CATGTCCTAGACAT-GTCTTACACTAGCTCTCATAA-GTGGCCA
22151497 ATGCATGTCCTAGACATGTCTTACACTAGC
1 ATGCATGTCCTAGACATGTCTTACACTAGC
22151527 ACACAAATAA
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 2 0.03
46 16 0.24
47 29 0.43
48 21 0.31
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
ATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAAGTGGCCA
Found at i:22152685 original size:11 final size:10
Alignment explanation
Indices: 22152657--22152690 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22152647 AGCCTGTAAG
22152657 TATTCTGAAT
1 TATTCTGAAT
*
22152667 TTTTCTGAAT
1 TATTCTGAAT
22152677 ATATTCTGAAT
1 -TATTCTGAAT
22152688 TAT
1 TAT
22152691 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:22157892 original size:24 final size:24
Alignment explanation
Indices: 22157865--22157911 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22157855 TTGTCAGGAG
**
22157865 AGGATTTAAGAGTTGATAAGGGAT
1 AGGATTTAAGAGCAGATAAGGGAT
*
22157889 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAAGAGCAGATAAGGGA
22157912 GGAAATCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.36, T:0.23
Consensus pattern (24 bp):
AGGATTTAAGAGCAGATAAGGGAT
Found at i:22159368 original size:27 final size:27
Alignment explanation
Indices: 22159328--22159432 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
22159318 AGGAAGCGTC
*
22159328 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
22159355 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* * * *
22159382 CCGGTGGTTCTGCCACGATTAACTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* *
22159410 CTGGTGACTCTGTCA-AATTATCT
1 CTGGTGGCTCTGCCACAATTATCT
22159433 ATTCTGGCAG
Statistics
Matches: 63, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.03
27 47 0.75
28 14 0.22
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:22162390 original size:93 final size:93
Alignment explanation
Indices: 22162283--22162453 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
22162273 GCCCCTAAGT
* *
22162283 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22162348 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
22162376 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
22162441 CGAGTTCGGATGC
66 CGAGTTCGGATGC
22162454 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:22162450 original size:46 final size:46
Alignment explanation
Indices: 22162278--22162450 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
22162268 AACCCGCCCC
* * *
22162278 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
22162324 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
22162372 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
22162417 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22162451 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:22168574 original size:19 final size:20
Alignment explanation
Indices: 22168550--22168587 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
22168540 GGTACCACCA
22168550 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
22168569 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
22168588 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:22168936 original size:46 final size:46
Alignment explanation
Indices: 22168812--22168937 Score: 189
Period size: 46 Copynumber: 2.7 Consensus size: 46
22168802 AACCCGTCCC
* * * *
22168812 TAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
22168858 TAAATGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
22168904 TAAGTGAACTCAGACTCAACTCAACGAATTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
22168938 TGCTCAACCA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:22185991 original size:22 final size:22
Alignment explanation
Indices: 22185966--22186008 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22185956 TTCCTTTTTG
*
22185966 AATTACATTATTTATATTTATT
1 AATTACATTATTTATACTTATT
*
22185988 AATTATATTATTTATACTTAT
1 AATTACATTATTTATACTTAT
22186009 ATTTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (22 bp):
AATTACATTATTTATACTTATT
Found at i:22186015 original size:22 final size:21
Alignment explanation
Indices: 22185967--22186023 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 21
22185957 TCCTTTTTGA
*
22185967 ATTACATTATTTATATTTATT
1 ATTATATTATTTATATTTATT
*
22185988 AATTATATTATTTATACTTA-T
1 -ATTATATTATTTATATTTATT
22186009 A-T-T-TTATTTATATTT
1 ATTATATTATTTATATTT
22186024 GATTTAGGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.34
18 1 0.03
19 1 0.03
20 1 0.03
21 1 0.03
22 17 0.53
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTATATTATTTATATTTATT
Found at i:22186017 original size:17 final size:17
Alignment explanation
Indices: 22185974--22186020 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
22185964 TGAATTACAT
22185974 TATTTATATTTATTAATTA
1 TATTT-TATTTA-TAATTA
*
22185993 TA--TTATTTATACTTA
1 TATTTTATTTATAATTA
22186008 TATTTTATTTATA
1 TATTTTATTTATA
22186021 TTTGATTTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
15 7 0.28
16 6 0.24
17 10 0.40
19 2 0.08
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATTTTATTTATAATTA
Found at i:22189723 original size:29 final size:29
Alignment explanation
Indices: 22189681--22189740 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
22189671 AAGGTTCTGA
22189681 AATTGCATTTTTTGACACCACTGGAAACT
1 AATTGCATTTTTTGACACCACTGGAAACT
22189710 AATTGCATTTTTTGACACCACTGGAAACT
1 AATTGCATTTTTTGACACCACTGGAAACT
22189739 AA
1 AA
22189741 GTCATTATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.33
Consensus pattern (29 bp):
AATTGCATTTTTTGACACCACTGGAAACT
Found at i:22197142 original size:41 final size:41
Alignment explanation
Indices: 22196898--22197136 Score: 299
Period size: 41 Copynumber: 5.8 Consensus size: 41
22196888 TTAAACAGAT
** * * *
22196898 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
22196940 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
22196980 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
22197021 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
22197062 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
22197101 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
22197137 TATTACATTC
Statistics
Matches: 181, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 167 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:22202144 original size:39 final size:39
Alignment explanation
Indices: 22202100--22202178 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
22202090 CCCTAAACTA
22202100 CAGATTATTTTGGATCATTTGTATCAGTGCCAGTTTGAT
1 CAGATTATTTTGGATCATTTGTATCAGTGCCAGTTTGAT
22202139 CAGATTATTTTGGATCATTTGTATCAGTGCCAGTTTGAT
1 CAGATTATTTTGGATCATTTGTATCAGTGCCAGTTTGAT
22202178 C
1 C
22202179 TCGAAATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (39 bp):
CAGATTATTTTGGATCATTTGTATCAGTGCCAGTTTGAT
Found at i:22206201 original size:3 final size:3
Alignment explanation
Indices: 22206193--22206245 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
22206183 ATTTTGATAT
22206193 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
22206241 GAA GA
1 GAA GA
22206246 GAGTTTATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22210200 original size:10 final size:10
Alignment explanation
Indices: 22210185--22210234 Score: 73
Period size: 10 Copynumber: 5.0 Consensus size: 10
22210175 TAAATTCAGG
22210185 ATTTATTTTT
1 ATTTATTTTT
*
22210195 ATTTATCTTT
1 ATTTATTTTT
*
22210205 AATTATTTTT
1 ATTTATTTTT
*
22210215 ATTTATTTGT
1 ATTTATTTTT
22210225 ATTTATTTTT
1 ATTTATTTTT
22210235 TAGAATTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (10 bp):
ATTTATTTTT
Found at i:22213568 original size:29 final size:29
Alignment explanation
Indices: 22213535--22213593 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
22213525 GAGACTTTTG
22213535 AGTCAATTTATGAAGATAAAACTGAATTT
1 AGTCAATTTATGAAGATAAAACTGAATTT
*
22213564 AGTCAATTTATGAAGATAAAATTGAATTT
1 AGTCAATTTATGAAGATAAAACTGAATTT
22213593 A
1 A
22213594 TAATTAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.36
Consensus pattern (29 bp):
AGTCAATTTATGAAGATAAAACTGAATTT
Found at i:22216906 original size:97 final size:98
Alignment explanation
Indices: 22216745--22216941 Score: 360
Period size: 97 Copynumber: 2.0 Consensus size: 98
22216735 TCTCTTCTTC
* *
22216745 TAACTAGGTGAACCGAAACGAAGATATGGAGAAAAAAAAGAGAAAAGACAAAACCTGCAGCCAAA
1 TAACTAGGTGAACCGAAACGAAAATAGGGAGAAAAAAAAGAGAAAAGACAAAACCTGCAGCCAAA
22216810 CAACTCATATTCCATCCCTATTCTAGCCTGGAA
66 CAACTCATATTCCATCCCTATTCTAGCCTGGAA
22216843 TAACTAGGTGAACCGAAACGAAAATAGGGAG-AAAAAAAGAGAAAAGACAAAACCTGCAGCCAAA
1 TAACTAGGTGAACCGAAACGAAAATAGGGAGAAAAAAAAGAGAAAAGACAAAACCTGCAGCCAAA
*
22216907 CAGCTCATATTCCATCCCTATTCTAGCCTGGAA
66 CAACTCATATTCCATCCCTATTCTAGCCTGGAA
22216940 TA
1 TA
22216942 GCACGTTCCT
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 67 0.70
98 29 0.30
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (98 bp):
TAACTAGGTGAACCGAAACGAAAATAGGGAGAAAAAAAAGAGAAAAGACAAAACCTGCAGCCAAA
CAACTCATATTCCATCCCTATTCTAGCCTGGAA
Found at i:22217910 original size:7 final size:7
Alignment explanation
Indices: 22217885--22217925 Score: 64
Period size: 7 Copynumber: 5.7 Consensus size: 7
22217875 ATTCCTAAGT
22217885 AAAAATA
1 AAAAATA
*
22217892 AATAAATT
1 AA-AAATA
22217900 AAAAATA
1 AAAAATA
22217907 AAAAATA
1 AAAAATA
22217914 AAAAATA
1 AAAAATA
22217921 AAAAA
1 AAAAA
22217926 GGGAGGATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
7 25 0.81
8 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:22218510 original size:13 final size:13
Alignment explanation
Indices: 22218492--22218516 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22218482 TTATTATACT
22218492 AGGATAATTATTA
1 AGGATAATTATTA
22218505 AGGATAATTATT
1 AGGATAATTATT
22218517 TAGATTTAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (13 bp):
AGGATAATTATTA
Found at i:22218588 original size:20 final size:20
Alignment explanation
Indices: 22218533--22218592 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
22218523 TAAATTTAGG
22218533 ATTTATTTTTATTTATCTTTC
1 ATTTA-TTTTATTTATCTTTC
* *
22218554 A-TTATCCTTAATTATCTTT-
1 ATTTAT-TTTATTTATCTTTC
22218573 ATTTATTTGTATTTATCTTT
1 ATTTATTT-TATTTATCTTT
22218593 TAGAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 3 0.09
20 28 0.88
21 1 0.03
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (20 bp):
ATTTATTTTATTTATCTTTC
Found at i:22219950 original size:42 final size:41
Alignment explanation
Indices: 22219839--22219951 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 41
22219829 TACCATAACA
* *
22219839 ATGCCATATCCCAGATATGGTCTTACATGAGATCTCACATCG
1 ATGCCATATCCCAGATATGGTCTTACA-AAAATCTCACATCG
* * * *
22219881 ATGCTAATAGCCCAGCTATGGTCTTACAAAAATCCTCATATCG
1 ATGC-CATATCCCAGATATGGTCTTACAAAAAT-CTCACATCG
22219924 ATGCCATATCCCAGATATGGTCTTACAA
1 ATGCCATATCCCAGATATGGTCTTACAA
22219952 GTAATGTCAA
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACAAAAATCTCACATCG
Found at i:22229670 original size:14 final size:14
Alignment explanation
Indices: 22229651--22229677 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22229641 ATTTATGATT
22229651 AAATAATTTCTTTA
1 AAATAATTTCTTTA
22229665 AAATAATTTCTTT
1 AAATAATTTCTTT
22229678 TGCACAATAA
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:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATAATTTCTTTA
Found at i:22233097 original size:18 final size:18
Alignment explanation
Indices: 22233074--22233109 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22233064 CACAAAGATA
*
22233074 TTTCTTTTTTTTTAATTT
1 TTTCTTTTTTTTCAATTT
22233092 TTTCTTTTTTTTCAATTT
1 TTTCTTTTTTTTCAATTT
22233110 AATTATGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (18 bp):
TTTCTTTTTTTTCAATTT
Found at i:22235099 original size:29 final size:30
Alignment explanation
Indices: 22235043--22235099 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
22235033 TTGGGCCCTC
* *
22235043 CCACACGGGCTAGACACACAGTCGTGTGAG
1 CCACACGGGCTAGACACACAGCCATGTGAG
*
22235073 CCACACGGGCTA-ACACACGGCCATGTG
1 CCACACGGGCTAGACACACAGCCATGTG
22235100 CCAGACCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.26, C:0.33, G:0.28, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGACACACAGCCATGTGAG
Found at i:22235329 original size:21 final size:23
Alignment explanation
Indices: 22235288--22235329 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
22235278 TCAATCAAGA
*
22235288 TTGAAGATTTACTTTTGATTTCT
1 TTGAAGATTTACTTATGATTTCT
22235311 TTGAAG-TTTA-TTATGATTT
1 TTGAAGATTTACTTATGATTT
22235330 TTTCTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (23 bp):
TTGAAGATTTACTTATGATTTCT
Found at i:22239776 original size:21 final size:21
Alignment explanation
Indices: 22239751--22239795 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
22239741 ATTTGAGAAC
*
22239751 AATAATACAAAGTATTAATGT
1 AATAATACAAAGTATTAATAT
22239772 AATAATACAAAGTATTAATAT
1 AATAATACAAAGTATTAATAT
22239793 AAT
1 AAT
22239796 TCATGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (21 bp):
AATAATACAAAGTATTAATAT
Found at i:22243443 original size:24 final size:24
Alignment explanation
Indices: 22243365--22243444 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
22243355 CTATCAATGC
** *
22243365 AAAGTATATACATATTGATTATGT
1 AAAGTATATGTATACTGATTATGT
* * *
22243389 AAAGTTCTATGTGTGAACT-ATCTATGC
1 AAAG-TATATGTAT--ACTGAT-TATGT
22243416 AAAGTATATGTATACTGATTATGT
1 AAAGTATATGTATACTGATTATGT
22243440 AAAGT
1 AAAGT
22243445 TCTATGTGTG
Statistics
Matches: 42, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
24 16 0.38
25 7 0.17
26 9 0.21
27 10 0.24
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.39
Consensus pattern (24 bp):
AAAGTATATGTATACTGATTATGT
Found at i:22243532 original size:24 final size:24
Alignment explanation
Indices: 22243500--22243573 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 24
22243490 TAAAGTTTTA
22243500 TGTGTGAACTATCTATGCAAAGTG
1 TGTGTGAACTATCTATGCAAAGTG
* *
22243524 TGTGCGAACTGAT-TATGTAAAGTTCTG
1 TGTGTGAACT-ATCTATGCAAAG---TG
22243551 TGTGTGAACTATCTATGCAAAGT
1 TGTGTGAACTATCTATGCAAAGT
22243574 TTATGCGTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 18 0.44
25 2 0.05
26 2 0.05
27 19 0.46
ACGTcount: A:0.28, C:0.12, G:0.24, T:0.35
Consensus pattern (24 bp):
TGTGTGAACTATCTATGCAAAGTG
Found at i:22243707 original size:51 final size:51
Alignment explanation
Indices: 22243353--22243699 Score: 363
Period size: 51 Copynumber: 6.8 Consensus size: 51
22243343 GATCCAACAT
* * * *
22243353 AACTATCAATGCAAAGTATATACATATTGATTATGTAAAGTTCTATGTGTG
1 AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGTTCTATGTGTG
* *
22243404 AACTATCTATGCAAAGTATATGTATACTGATTATGTAAAGTTCTATGTGTG
1 AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGTTCTATGTGTG
* * * * * ** * *
22243455 AATTGTCCATGCAAAGTGTGCGTGTTCTGATTATGTAAAGTTTTATGTGTG
1 AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGTTCTATGTGTG
* *
22243506 AACTATCTATGCAAAGTGTGTGCGA-ACTGATTATGTAAAGTTCTGTGTGTG
1 AACTATCTATGCAAAGTATGTGC-ATACTGATTATGTAAAGTTCTATGTGTG
* * * **
22243557 AACTATCTATGCAAAGTTTATGCGTACTGATTACATAAAGTTCTATGTGTG
1 AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGTTCTATGTGTG
* * * ** * * * *
22243608 AACTGTCTATGCAAAATGTGTGTGTACTGATTATATATATTTCTATATGTG
1 AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGTTCTATGTGTG
* * * *
22243659 ATCTGTCTATGCAAAGTATGTGCATATTAATTATGTAAAGT
1 AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGT
22243700 ATTATATGCA
Statistics
Matches: 247, Mismatches: 47, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
51 247 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (51 bp):
AACTATCTATGCAAAGTATGTGCATACTGATTATGTAAAGTTCTATGTGTG
Found at i:22243714 original size:153 final size:153
Alignment explanation
Indices: 22243353--22243699 Score: 464
Period size: 153 Copynumber: 2.3 Consensus size: 153
22243343 GATCCAACAT
* * *
22243353 AACTATCAATGCAAAGTATATACATATTGATTATGTAAAGTTCTATGTGTGAACTATCTATGCAA
1 AACTATCTATGCAAAGTATGTGCATATTGATTATGTAAAGTTCTATGTGTGAACTATCTATGCAA
* ** * * *
22243418 AGTATATGTATACTGATTATGTAAAGTTCTATGTGTGAATTGTCCATGCAAAGTGTGCGTGTTCT
66 AGTATATGCATACTGATTACATAAAGTTCTATGTGTGAACTGTCCATGCAAAATGTGCGTGTACT
* *
22243483 GATTATGTAAAGTTTTATGTGTG
131 GATTATATAAAGTTTTATATGTG
* * *
22243506 AACTATCTATGCAAAGTGTGTGCGA-ACTGATTATGTAAAGTTCTGTGTGTGAACTATCTATGCA
1 AACTATCTATGCAAAGTATGTGC-ATATTGATTATGTAAAGTTCTATGTGTGAACTATCTATGCA
* * * *
22243570 AAGTTTATGCGTACTGATTACATAAAGTTCTATGTGTGAACTGTCTATGCAAAATGTGTGTGTAC
65 AAGTATATGCATACTGATTACATAAAGTTCTATGTGTGAACTGTCCATGCAAAATGTGCGTGTAC
*
22243635 TGATTATATATA-TTTCTATATGTG
130 TGATTATATAAAGTTT-TATATGTG
* * *
22243659 ATCTGTCTATGCAAAGTATGTGCATATTAATTATGTAAAGT
1 AACTATCTATGCAAAGTATGTGCATATTGATTATGTAAAGT
22243700 ATTATATGCA
Statistics
Matches: 167, Mismatches: 24, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
152 4 0.02
153 162 0.97
154 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (153 bp):
AACTATCTATGCAAAGTATGTGCATATTGATTATGTAAAGTTCTATGTGTGAACTATCTATGCAA
AGTATATGCATACTGATTACATAAAGTTCTATGTGTGAACTGTCCATGCAAAATGTGCGTGTACT
GATTATATAAAGTTTTATATGTG
Found at i:22248237 original size:182 final size:182
Alignment explanation
Indices: 22247930--22248294 Score: 730
Period size: 182 Copynumber: 2.0 Consensus size: 182
22247920 AATCAAACTC
22247930 TTATTATTCTAGATTATTTTATTATTATTTGATCTATGAATTTAGCCTATAAATAGGCTCTTTTA
1 TTATTATTCTAGATTATTTTATTATTATTTGATCTATGAATTTAGCCTATAAATAGGCTCTTTTA
22247995 CAATCTTAAAAAAAACAACTATTACAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTA
66 CAATCTTAAAAAAAACAACTATTACAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTA
22248060 CGTTTTGAGGGTTCTTTATTTTTGGGTTTTCGGGGTTTAGTTTTTATCTCCA
131 CGTTTTGAGGGTTCTTTATTTTTGGGTTTTCGGGGTTTAGTTTTTATCTCCA
22248112 TTATTATTCTAGATTATTTTATTATTATTTGATCTATGAATTTAGCCTATAAATAGGCTCTTTTA
1 TTATTATTCTAGATTATTTTATTATTATTTGATCTATGAATTTAGCCTATAAATAGGCTCTTTTA
22248177 CAATCTTAAAAAAAACAACTATTACAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTA
66 CAATCTTAAAAAAAACAACTATTACAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTA
22248242 CGTTTTGAGGGTTCTTTATTTTTGGGTTTTCGGGGTTTAGTTTTTATCTCCA
131 CGTTTTGAGGGTTCTTTATTTTTGGGTTTTCGGGGTTTAGTTTTTATCTCCA
22248294 T
1 T
22248295 CCTTTGCACT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
182 183 1.00
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.46
Consensus pattern (182 bp):
TTATTATTCTAGATTATTTTATTATTATTTGATCTATGAATTTAGCCTATAAATAGGCTCTTTTA
CAATCTTAAAAAAAACAACTATTACAGATTAGAACTCATAACACATTTAGAGAATTTTGTGTTTA
CGTTTTGAGGGTTCTTTATTTTTGGGTTTTCGGGGTTTAGTTTTTATCTCCA
Found at i:22248875 original size:2 final size:2
Alignment explanation
Indices: 22248868--22248898 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22248858 AACTTCCTTT
22248868 TA TA 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 TA TA T
22248899 TTCTTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22251939 original size:14 final size:14
Alignment explanation
Indices: 22251920--22251949 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22251910 TATTTTCAAG
22251920 ATAGATTAACGCAT
1 ATAGATTAACGCAT
*
22251934 ATAGATTCACGCAT
1 ATAGATTAACGCAT
22251948 AT
1 AT
22251950 TTATAAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (14 bp):
ATAGATTAACGCAT
Found at i:22256224 original size:29 final size:29
Alignment explanation
Indices: 22256174--22256259 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 29
22256164 TCTGATTCAA
* *
22256174 ATGGCCCATCT-GGCCTAGTTCATATTATT
1 ATGGCCCA-CTAGGCCCAATTCATATTATT
**
22256203 ATGGCCCACTAGGCCCAATTCACCTTCA-T
1 ATGGCCCACTAGGCCCAATTCATATT-ATT
* *
22256232 ATGGCCCATTAGGCCCAAATCATATTAT
1 ATGGCCCACTAGGCCCAATTCATATTAT
22256260 ACTCATGCTC
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
28 3 0.07
29 42 0.91
30 1 0.02
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (29 bp):
ATGGCCCACTAGGCCCAATTCATATTATT
Found at i:22257715 original size:16 final size:16
Alignment explanation
Indices: 22257694--22257726 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
22257684 AAAAATTCAA
22257694 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
22257710 GATTTCAGGATTTTTG
1 GATTTCAGGATTTTTG
22257726 G
1 G
22257727 GTCGTTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.27, T:0.48
Consensus pattern (16 bp):
GATTTCAGGATTTTTG
Found at i:22267394 original size:18 final size:18
Alignment explanation
Indices: 22267371--22267405 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22267361 TACTTTTAGA
22267371 TTAATTAATTTATATTAT
1 TTAATTAATTTATATTAT
**
22267389 TTAATTTTTTTATATTA
1 TTAATTAATTTATATTA
22267406 ACATAATACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTAATTAATTTATATTAT
Found at i:22270057 original size:2 final size:2
Alignment explanation
Indices: 22270052--22270076 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22270042 TTTTTTTTTT
22270052 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
22270077 TTACAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22273612 original size:23 final size:23
Alignment explanation
Indices: 22273585--22273633 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
22273575 CATGAATCAA
22273585 GTTAGTTTAAGTGGGTTGAATGC
1 GTTAGTTTAAGTGGGTTGAATGC
22273608 GTTAGTTTAAGTGGGTTGAATGC
1 GTTAGTTTAAGTGGGTTGAATGC
22273631 GTT
1 GTT
22273634 TCATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.04, G:0.35, T:0.41
Consensus pattern (23 bp):
GTTAGTTTAAGTGGGTTGAATGC
Found at i:22275455 original size:46 final size:46
Alignment explanation
Indices: 22275402--22275492 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
22275392 TATATATACA
* * *
22275402 CATCTCATACATATTTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCACATTAACCATTCGGCTTTACCACATATC
* *
22275448 CATCTCATACACATTTCGCATTAACCATTCGGCTTTCCCACATAT
1 CATCTCATACACATTTCACATTAACCATTCGGCTTTACCACATAT
22275493 ATACACATCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.31, G:0.07, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCACATTAACCATTCGGCTTTACCACATATC
Found at i:22275537 original size:47 final size:47
Alignment explanation
Indices: 22275506--22275813 Score: 499
Period size: 47 Copynumber: 6.6 Consensus size: 47
22275496 CACATCCACG
* ** *
22275506 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * * *
22275553 TTTATCACGTTGGCCATTCGGCCTTATCACATATATGCATGTTCATA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
* * *
22275600 TTCTTCACATTGGCCATTCAGCCTTATCACACATATACATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
22275647 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
22275694 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
22275741 TTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTTCACA
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
*
22275788 TTCATCACATTTGCCATTCGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
22275814 GCTNATTCAT
Statistics
Matches: 245, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 245 1.00
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACA
Found at i:22275584 original size:94 final size:94
Alignment explanation
Indices: 22275506--22276015 Score: 594
Period size: 94 Copynumber: 5.3 Consensus size: 94
22275496 CACATCCACG
* ** * * *
22275506 TTCATCACATTGGCCATTCTGCCTTATCACATGTATGCATGTTCATATTTATCACGTTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
* *
22275571 CGGCCTTATCACATATATGCATGTTCATA
66 CGGCCTTATCACACATATGCATGTTCACA
* * *
22275600 TTCTTCACATTGGCCATTCAGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
22275665 CGGCCTTATCACACATATGCATGTTCACA
66 CGGCCTTATCACACATATGCATGTTCACA
22275694 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
*
22275759 CGGCCTTATCACACAAATGCATGTTCACA
66 CGGCCTTATCACACATATGCATGTTCACA
* **
22275788 TTCATCACATTTGCCATTCGGCCTTAGCTNATTCATCACAT-TGGCCATTCGGCCTT-ATCACAC
1 TTCATCACATTGGCCATTCGGCC-T---T-A-TCA-CACATAT-G-CA-T--G--TTCA-CATTC
** * **** ** *
22275851 ATACACA-TGTTCACATTCATCACATCACACATATACATGTTCACA
51 AT-CACATTGGCCA-TTCGGCCTTATCACACATATGCATGTTCACA
*
22275896 TTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
*
22275961 CGGCCTTATCACACAAATGCATGTTCACA
66 CGGCCTTATCACACATATGCATGTTCACA
*
22275990 TTCATCACATTTGCCATTCGGCCTTA
1 TTCATCACATTGGCCATTCGGCCTTA
22276016 GCTCATGTAT
Statistics
Matches: 352, Mismatches: 44, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
94 247 0.70
95 12 0.03
96 1 0.00
97 1 0.00
98 1 0.00
99 2 0.01
100 6 0.02
101 11 0.03
102 6 0.02
103 2 0.01
104 1 0.00
105 1 0.00
106 1 0.00
107 12 0.03
108 48 0.14
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
CGGCCTTATCACACATATGCATGTTCACA
Found at i:22275677 original size:22 final size:22
Alignment explanation
Indices: 22275650--22275771 Score: 58
Period size: 23 Copynumber: 5.3 Consensus size: 22
22275640 GTTCACATTC
22275650 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
22275672 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
22275696 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* *
22275719 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
22275743 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
22275766 ATCACA
1 ATCACA
22275772 CAAATGCATG
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 22 0.30
24 22 0.30
25 12 0.16
ACGTcount: A:0.25, C:0.30, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:22275701 original size:25 final size:25
Alignment explanation
Indices: 22275672--22275749 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
22275662 ATTCGGCCTT
22275672 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
22275697 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
22275719 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
22275744 ATCACA
1 ATCACA
22275750 TTGGCCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:22275750 original size:23 final size:23
Alignment explanation
Indices: 22275676--22275750 Score: 59
Period size: 23 Copynumber: 3.2 Consensus size: 23
22275666 GGCCTTATCA
22275676 CACATATGCATGTTCACATTCAT
1 CACATATGCATGTTCACATTCAT
* *
22275699 CACAT-TGGCCA--TTCGGCCTT-AT
1 CACATAT-G-CATGTTC-ACATTCAT
22275721 CACACATATGCATGTTCACATTCAT
1 --CACATATGCATGTTCACATTCAT
22275746 CACAT
1 CACAT
22275751 TGGCCATTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
22 6 0.15
23 16 0.41
24 11 0.28
25 6 0.15
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (23 bp):
CACATATGCATGTTCACATTCAT
Found at i:22275878 original size:30 final size:30
Alignment explanation
Indices: 22275844--22275905 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
22275834 ATTCGGCCTT
22275844 ATCACACATACACATGTTCACATTCATCAC
1 ATCACACATACACATGTTCACATTCATCAC
*
22275874 ATCACACATATACATGTTCACATTCATCAC
1 ATCACACATACACATGTTCACATTCATCAC
22275904 AT
1 AT
22275906 TGGCCATTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.37, C:0.31, G:0.03, T:0.29
Consensus pattern (30 bp):
ATCACACATACACATGTTCACATTCATCAC
Found at i:22275929 original size:77 final size:76
Alignment explanation
Indices: 22275719--22275952 Score: 314
Period size: 77 Copynumber: 3.0 Consensus size: 76
22275709 ATTCGGCCTT
* *
22275719 ATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACAAATGCATGTT
1 ATCACACATAT-CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
22275784 CACATTCATCAC
65 CACATTCATCAC
** * *
22275796 ATTTGC-CAT-TC-GGCCTT-AGCTNATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 A-TCACACATATCATG--TTCA-C--ATTCATCACATTGGCCATTCGGCCTTATCACACATATAC
22275857 ATGTTCACATTCATCAC
60 ATGTTCACATTCATCAC
22275874 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
1 ATCACACATAT-CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
22275939 CACATTCATCAC
65 CACATTCATCAC
22275951 AT
1 AT
22275953 TGGCCATTCG
Statistics
Matches: 136, Mismatches: 10, Indels: 22
0.81 0.06 0.13
Matches are distributed among these distances:
74 1 0.01
75 2 0.01
76 4 0.03
77 63 0.46
78 59 0.43
79 4 0.03
80 2 0.01
81 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (76 bp):
ATCACACATATCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTTC
ACATTCATCAC
Found at i:22276014 original size:47 final size:47
Alignment explanation
Indices: 22275874--22276015 Score: 257
Period size: 47 Copynumber: 3.0 Consensus size: 47
22275864 CATTCATCAC
22275874 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
22275921 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
22275968 ATCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTT
1 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
22276015 A
1 A
22276016 GCTCATGTAT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 92 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.32
Consensus pattern (47 bp):
ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTT
Found at i:22276027 original size:94 final size:94
Alignment explanation
Indices: 22275874--22276046 Score: 256
Period size: 94 Copynumber: 1.8 Consensus size: 94
22275864 CATTCATCAC
* * **
22275874 ATCACACATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATACATGTT
1 ATCACACAAATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACATATACACATT
*
22275939 CACATTCATCACATTGGCCATTCGGCCTT
66 CACATCCATCACATTGGCCATTCGGCCTT
* * * **
22275968 ATCACACAAATGCATGTTCACATTCATCACATTTGCCATTCGGCCTTAGCTCATGTATACACATT
1 ATCACACAAATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACATATACACATT
22276033 CACATCCATCACAT
66 CACATCCATCACAT
22276047 AAAATCCTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 69 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.31
Consensus pattern (94 bp):
ATCACACAAATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAGCACACATATACACATT
CACATCCATCACATTGGCCATTCGGCCTT
Found at i:22276128 original size:19 final size:19
Alignment explanation
Indices: 22276089--22276125 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
22276079 ATTCACATCA
22276089 CAAATATCCAAATATACTT
1 CAAATATCCAAATATACTT
*
22276108 CAAATA-CCACATATACTT
1 CAAATATCCAAATATACTT
22276126 TCACTTTGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (19 bp):
CAAATATCCAAATATACTT
Found at i:22278841 original size:40 final size:40
Alignment explanation
Indices: 22278788--22279106 Score: 413
Period size: 40 Copynumber: 8.0 Consensus size: 40
22278778 GAATACACAT
* *
22278788 CACCAGCATGAATGCTCTTTGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * **
22278828 CACTAGTACGAATGCTCTTCGGGACTTAACCCTAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
22278868 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATGA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
22278908 CACCAACACGTATGCTCTTCGGGACTTAGCCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
22278948 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATGA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
22278988 CACCAACACGTATGCTCTTCGGGACTTAGCCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
22279028 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
22279068 CACCAACACGTATGCTCTTCGGGACTTAACCCGGATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
22279107 TCACTAAAAG
Statistics
Matches: 235, Mismatches: 44, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 235 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:22278923 original size:80 final size:80
Alignment explanation
Indices: 22278790--22279106 Score: 508
Period size: 80 Copynumber: 4.0 Consensus size: 80
22278780 ATACACATCA
* * * * ** *
22278790 CCAGCATGAATGCTCTTTGGGACTTAGCCCGGATATAACACTAGTACGAATGCTCTTCGGGACTT
1 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGTATGCTCTTCGGGACTT
*
22278855 AACCCTAATATAACT
66 AACCCTGATATAACT
*
22278870 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATGACACCAACACGTATGCTCTTCGGGACTT
1 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGTATGCTCTTCGGGACTT
*
22278935 AGCCCTGATATAACT
66 AACCCTGATATAACT
*
22278950 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATGACACCAACACGTATGCTCTTCGGGACTT
1 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGTATGCTCTTCGGGACTT
*
22279015 AGCCCTGATATAACT
66 AACCCTGATATAACT
*
22279030 CCAGCACGAATGCTCTTCGAGACTTAGCCCAGATATAACACCAACACGTATGCTCTTCGGGACTT
1 CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGTATGCTCTTCGGGACTT
*
22279095 AACCCGGATATA
66 AACCCTGATATA
22279107 TCACTAAAAG
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 223 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (80 bp):
CCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAACACCAACACGTATGCTCTTCGGGACTT
AACCCTGATATAACT
Found at i:22281648 original size:2 final size:2
Alignment explanation
Indices: 22281643--22281667 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22281633 TTTTTTTTTT
22281643 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
22281668 TTACAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:22287444 original size:20 final size:21
Alignment explanation
Indices: 22287396--22287447 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
22287386 AAGACCAACC
22287396 AATTTTTGGTACTCTTTCATG
1 AATTTTTGGTACTCTTTCATG
**
22287417 TTTTTTTGGTACT-TTCTCAT-
1 AATTTTTGGTACTCTT-TCATG
22287437 AATTTTTGGTA
1 AATTTTTGGTA
22287448 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.17, C:0.12, G:0.13, T:0.58
Consensus pattern (21 bp):
AATTTTTGGTACTCTTTCATG
Found at i:22287467 original size:18 final size:18
Alignment explanation
Indices: 22287455--22287520 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
22287445 GTATTTTTTT
22287455 ATTTTTTTATATTTTCTC
1 ATTTTTTTATATTTTCTC
* * *
22287473 ATTTTTTTAGCACTTCCTCAC
1 ATTTTTTTA-TA-TT-TTCTC
*
22287494 AGTTTTTTATATTTTCTC
1 ATTTTTTTATATTTTCTC
22287512 ATATTTTTT
1 AT-TTTTTT
22287521 TTTGTACTCC
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
18 13 0.36
19 9 0.25
20 3 0.08
21 11 0.31
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.64
Consensus pattern (18 bp):
ATTTTTTTATATTTTCTC
Found at i:22289417 original size:38 final size:38
Alignment explanation
Indices: 22289365--22289440 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
22289355 TCTCGAGACC
*
22289365 ATAAATTCAGAGTTGAATAAATTATTTTATTATTATTT
1 ATAAATTCACAGTTGAATAAATTATTTTATTATTATTT
*
22289403 ATAAATTTACAGTTGAATAAATTATTTTATTATTATTT
1 ATAAATTCACAGTTGAATAAATTATTTTATTATTATTT
22289441 TTGAGTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (38 bp):
ATAAATTCACAGTTGAATAAATTATTTTATTATTATTT
Found at i:22292411 original size:34 final size:35
Alignment explanation
Indices: 22292365--22292432 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
22292355 TGCCGGCTCC
* *
22292365 TGCTGAAAGGATCGCACC-TTTGAGAGTGAGCCCA
1 TGCTGAAAGGATCACACCAGTTGAGAGTGAGCCCA
* *
22292399 TGCTGAAGGGATCACGCCAGTTGAGAGTGAGCCC
1 TGCTGAAAGGATCACACCAGTTGAGAGTGAGCCC
22292433 GTGACTATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.25, C:0.24, G:0.32, T:0.19
Consensus pattern (35 bp):
TGCTGAAAGGATCACACCAGTTGAGAGTGAGCCCA
Found at i:22296227 original size:36 final size:36
Alignment explanation
Indices: 22296179--22296249 Score: 97
Period size: 36 Copynumber: 2.0 Consensus size: 36
22296169 TAGCATGGTA
* * * *
22296179 TTTCACTCGCAAATTGATGGCCAGTCGGAAAGAGTC
1 TTTCACTCGCAAATCGACGACCAGTCGAAAAGAGTC
*
22296215 TTTCACTTGCAAATCGACGACCAGTCGAAAAGAGT
1 TTTCACTCGCAAATCGACGACCAGTCGAAAAGAGT
22296250 GATTTAGATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (36 bp):
TTTCACTCGCAAATCGACGACCAGTCGAAAAGAGTC
Found at i:22309076 original size:47 final size:47
Alignment explanation
Indices: 22308720--22309052 Score: 567
Period size: 47 Copynumber: 7.0 Consensus size: 47
22308710 GAAATGATAG
*
22308720 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22308767 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
22308814 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGGATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
22308861 TAAGGCCTAATAGCCGATGCGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22308908 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
22308957 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
22309006 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
22309053 CGGGGCTGAG
Statistics
Matches: 274, Mismatches: 10, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
47 180 0.66
49 94 0.34
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:22309082 original size:47 final size:48
Alignment explanation
Indices: 22308720--22309103 Score: 541
Period size: 47 Copynumber: 8.1 Consensus size: 48
22308710 GAAATGATAG
22308720 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* *
22308767 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* *
22308814 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-GATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
* * *
22308861 TAAGGCCTAATAGCCGATGCGATGAATGTGAAAGTG-TATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
*
22308908 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
22308957 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
22309006 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
** * * * * *
22309053 -CGGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGCATA-A-ATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
22309100 TAAG
1 TAAG
22309104 TCCCGAAGGG
Statistics
Matches: 312, Mismatches: 19, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
46 4 0.01
47 210 0.67
48 2 0.01
49 96 0.31
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (48 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGA
Found at i:22309278 original size:37 final size:37
Alignment explanation
Indices: 22309222--22309300 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
22309212 CCGAGCTCTA
* *
22309222 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
22309259 AAGACCCGATAACTTCGTGTGGAGATTATGTTCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
22309296 AAGAC
1 AAGAC
22309301 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:22317721 original size:25 final size:25
Alignment explanation
Indices: 22317703--22317783 Score: 117
Period size: 25 Copynumber: 3.2 Consensus size: 25
22317693 AGCTCGAGAA
22317703 AGCTTACCAATATTCAGCTCGTATG
1 AGCTTACCAATATTCAGCTCGTATG
**
22317728 AGCTTACCGTTATTCAGCTCGTATG
1 AGCTTACCAATATTCAGCTCGTATG
* * *
22317753 AGTTTACCATTATTTAGCTCGTATG
1 AGCTTACCAATATTCAGCTCGTATG
22317778 AGCTTA
1 AGCTTA
22317784 TCGATTATAG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (25 bp):
AGCTTACCAATATTCAGCTCGTATG
Found at i:22317833 original size:25 final size:24
Alignment explanation
Indices: 22317718--22317829 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 24
22317708 ACCAATATTC
22317718 AGCTCGTATGAGCTTACCG-TTATT
1 AGCTCGTATGAGCTTACCGATTA-T
*
22317742 CAGCTCGTATGAGTTTACC-ATTATTT
1 -AGCTCGTATGAGCTTACCGATTA--T
*
22317768 AGCTCGTATGAGCTTATCGATTAT
1 AGCTCGTATGAGCTTACCGATTAT
** * * *
22317792 AGCTCACAAGAGCATACCGATTCAG
1 AGCTCGTATGAGCTTACCGATT-AT
22317817 AGCTCGTATGAGC
1 AGCTCGTATGAGC
22317830 ATACATGTAC
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
24 18 0.25
25 47 0.66
26 6 0.08
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (24 bp):
AGCTCGTATGAGCTTACCGATTAT
Found at i:22320390 original size:40 final size:40
Alignment explanation
Indices: 22320316--22320496 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
22320306 AACCCAAGTA
* *
22320316 CCTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
22320355 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
22320395 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
22320435 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
22320474 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
22320497 CGTCCGAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 38 0.29
40 91 0.70
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:22328558 original size:40 final size:40
Alignment explanation
Indices: 22328484--22328624 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
22328474 AACCCAAGTA
* *
22328484 CCTTCGGGATTTAG-CCGGATATAG-CAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
22328523 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
22328563 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
22328602 CCTTCAGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
22328625 CGTCCAAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 37 0.40
40 55 0.59
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:22329324 original size:41 final size:41
Alignment explanation
Indices: 22329267--22329345 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
22329257 CCATGACCAT
22329267 ACCTAACCAAATTCAAGTAAAGAATTTAGTACAATCACTAC
1 ACCTAACCAAATTCAAGTAAAGAATTTAGTACAATCACTAC
*
22329308 ACCTAACCAGATTCAAGTAAAGAATTTAGTACAATCAC
1 ACCTAACCAAATTCAAGTAAAGAATTTAGTACAATCAC
22329346 ACATATTCAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.46, C:0.22, G:0.09, T:0.24
Consensus pattern (41 bp):
ACCTAACCAAATTCAAGTAAAGAATTTAGTACAATCACTAC
Found at i:22331689 original size:42 final size:42
Alignment explanation
Indices: 22331626--22331778 Score: 110
Period size: 42 Copynumber: 3.5 Consensus size: 42
22331616 TATCCCATGC
* *
22331626 AAGACCATGCCTGAGATATGGCATTGATATGAGGTCCCATAT
1 AAGACCATGTCTGAGACATGGCATTGATATGAGGTCCCATAT
* * * * *
22331668 AAGACCATGTCTGGGACATGGCGTCAGTACTGATTTGA-GACTTCGTAT
1 AAGACCATGTCTGAGACAT-G-G-CA-T--TGATATGAGGTC-CCATAT
* * * * * * *
22331716 AAGACCATATCTGGGATATGGCATCGATGTGTGGTCCCATGT
1 AAGACCATGTCTGAGACATGGCATTGATATGAGGTCCCATAT
22331758 AAGACCATGTCTGAGACATGG
1 AAGACCATGTCTGAGACATGG
22331779 ATTTGGCACC
Statistics
Matches: 84, Mismatches: 19, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
42 42 0.50
43 3 0.04
44 2 0.02
45 4 0.05
46 2 0.02
47 3 0.04
48 28 0.33
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (42 bp):
AAGACCATGTCTGAGACATGGCATTGATATGAGGTCCCATAT
Found at i:22338646 original size:45 final size:45
Alignment explanation
Indices: 22338577--22339073 Score: 680
Period size: 45 Copynumber: 11.1 Consensus size: 45
22338567 GGAAAGAACT
*
22338577 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGTC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
22338622 GGTGAAATGTTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * *
22338667 GGTGAGATATTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* *
22338712 GGTGAAATGTTATTCGGGCCTTTAAGCCTAGCAGGCTATAATGCT
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * *
22338757 GATGAAATGTTATTCGGGCCTTTGAGCCTAGCAAGCTATAATGCA
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
*
22338802 GGTGAAATGTTATTCTGGCCTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * *
22338847 GGTGAGATATTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * *
22338892 GGTGAGATATTATTCGGGCTTTTGAGCCTAGCAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* * ** *
22338937 GGTGAGATATTATTCATGCCTTTGAGCCTAGTAGGCTATAATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
* ** * *
22338982 GGTGAGATACTATTCGGG-CTTTCGAGCCTAACAGGCTATAATGCA
1 GGTGAAATGTTATTCGGGCCTTT-GAGCCTAGCAGGCTATAATGCC
* *
22339027 GGTGAAATGATA-TCGGGCC-TCGAGCCTAGCAGG-TGA-AATGCC
1 GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCT-ATAATGCC
22339069 GGTGA
1 GGTGA
22339074 TTTGAGAAAA
Statistics
Matches: 412, Mismatches: 37, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
42 11 0.03
43 12 0.03
44 10 0.02
45 379 0.92
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (45 bp):
GGTGAAATGTTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCC
Found at i:22338987 original size:25 final size:25
Alignment explanation
Indices: 22338914--22338987 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 25
22338904 TTCGGGCTTT
*
22338914 TGAGCCTAGCAGGCTATAATGCCGG
1 TGAGCCTAGTAGGCTATAATGCCGG
* * * **
22338939 TGAG-ATATTA---T-TCATGCCTT
1 TGAGCCTAGTAGGCTATAATGCCGG
22338959 TGAGCCTAGTAGGCTATAATGCCGG
1 TGAGCCTAGTAGGCTATAATGCCGG
22338984 TGAG
1 TGAG
22338988 ATACTATTCG
Statistics
Matches: 33, Mismatches: 11, Indels: 10
0.61 0.20 0.19
Matches are distributed among these distances:
20 10 0.30
21 5 0.15
24 4 0.12
25 14 0.42
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (25 bp):
TGAGCCTAGTAGGCTATAATGCCGG
Found at i:22341855 original size:25 final size:25
Alignment explanation
Indices: 22341827--22341913 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
22341817 CATCTCGAGA
*
22341827 GAGCTTACCGATATTTAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGTAT
* **
22341852 GAGCTTA-CTATTATTCAATTCGTAT
1 GAGCTTACCGA-TATTCAGCTCGTAT
* * *
22341877 GAGCTTACTGTTACTCAGCTCGTAT
1 GAGCTTACCGATATTCAGCTCGTAT
*
22341902 GAGCTGACCGAT
1 GAGCTTACCGAT
22341914 TATAGCTCAA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
24 2 0.04
25 45 0.96
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (25 bp):
GAGCTTACCGATATTCAGCTCGTAT
Done.