Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 278 of 284
Found at i:93560092 original size:20 final size:19
Alignment explanation
Indices: 93560067--93560110 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
93560057 TGGCTGTGGC
93560067 CTGCTTCTATTTTATTTTTT
1 CTGCTT-TATTTTATTTTTT
* *
93560087 CTGCTTTGTTTTGTTTTTT
1 CTGCTTTATTTTATTTTTT
*
93560106 TTGCT
1 CTGCT
93560111 GCTTTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (19 bp):
CTGCTTTATTTTATTTTTT
Found at i:93560103 original size:19 final size:21
Alignment explanation
Indices: 93560067--93560120 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
93560057 TGGCTGTGGC
*
93560067 CTGCTTCTATTTTA-TTTTTT-
1 CTGCTT-TGTTTTATTTTTTTG
*
93560087 CTGCTTTGTTTTGTTTTTTTTG
1 CTGCTTTGTTTT-ATTTTTTTG
93560109 CTGCTTTGTTTT
1 CTGCTTTGTTTT
93560121 TTTCAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 6 0.21
22 12 0.41
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.70
Consensus pattern (21 bp):
CTGCTTTGTTTTATTTTTTTG
Found at i:93560122 original size:19 final size:19
Alignment explanation
Indices: 93560076--93560123 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
93560066 CCTGCTTCTA
*
93560076 TTTTATTTTTTCTGCTTTG
1 TTTTTTTTTTTCTGCTTTG
93560095 TTTTGTTTTTTTTGCTGCTTTG
1 -TTT-TTTTTTTT-CTGCTTTG
93560117 TTTTTTT
1 TTTTTTT
93560124 CAAAAACCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTTTCTGCTTTG
Found at i:93560706 original size:29 final size:29
Alignment explanation
Indices: 93560673--93560789 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
93560663 TGTAATTTTT
*
93560673 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
93560702 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
93560732 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
93560761 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
93560790 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:93560728 original size:30 final size:30
Alignment explanation
Indices: 93560688--93560789 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
93560678 ATTTAGGATT
*
93560688 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
93560718 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
93560748 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
93560778 AAAATGCAATTT
1 AAAATGAAATTT
93560790 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:93560812 original size:14 final size:15
Alignment explanation
Indices: 93560788--93560820 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
93560778 AAAATGCAAT
93560788 TTTTATTTTTTAAAA
1 TTTTATTTTTTAAAA
*
93560803 TTTT-TTTTTTGAAA
1 TTTTATTTTTTAAAA
93560817 TTTT
1 TTTT
93560821 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTATTTTTTAAAA
Found at i:93561076 original size:34 final size:34
Alignment explanation
Indices: 93561033--93561101 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
93561023 ACTGTATGAT
*
93561033 AGCCTAGAATATTTAGATAAATTTTCAATTGAGA
1 AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
93561067 AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
1 AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
93561101 A
1 A
93561102 AAATTAGTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (34 bp):
AGCCTAGAATATTTAGATAAATTTTCAATTAAGA
Found at i:93561704 original size:42 final size:42
Alignment explanation
Indices: 93561641--93561807 Score: 172
Period size: 42 Copynumber: 4.0 Consensus size: 42
93561631 GTTTCCGTTC
* *
93561641 AACCCTAAAGGGTTTCCGTTCAGCACTTTTGAGCTTCTGTTT
1 AACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCTGTTT
* * * *
93561683 AACCCTAATGGGTCTCTGTTCAGCTCTTTTGAGCTTCTGTTT
1 AACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCTGTTT
* * * * * ** *
93561725 AACCCTTATTGGTTTCCGTTAAGCTCTCATGAGCTTCCATTC
1 AACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCTGTTT
* * * *
93561767 AACCCTTATGGGTTTCTGTTTAGCACTTATGTGCTTCTGTT
1 AACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCTGTT
93561808 CAGCCTTCGG
Statistics
Matches: 103, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 103 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.41
Consensus pattern (42 bp):
AACCCTAATGGGTTTCCGTTCAGCACTTATGAGCTTCTGTTT
Found at i:93561771 original size:84 final size:84
Alignment explanation
Indices: 93561651--93561807 Score: 197
Period size: 84 Copynumber: 1.9 Consensus size: 84
93561641 AACCCTAAAG
* ** ** * * *
93561651 GGTTTCCGTTCAGCACTTTTGAGCTTCTGTTTAACCCTAATGGGTCTCTGTTCAGCTCTTTTGAG
1 GGTTTCCGTTAAGCACTCATGAGCTTCCATTCAACCCTAATGGGTCTCTGTTCAGCACTTATGAG
93561716 CTTCTGTTTAACCCTTATT
66 CTTCTGTTTAACCCTTATT
* * * * *
93561735 GGTTTCCGTTAAGCTCTCATGAGCTTCCATTCAACCCTTATGGGTTTCTGTTTAGCACTTATGTG
1 GGTTTCCGTTAAGCACTCATGAGCTTCCATTCAACCCTAATGGGTCTCTGTTCAGCACTTATGAG
93561800 CTTCTGTT
66 CTTCTGTT
93561808 CAGCCTTCGG
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
84 60 1.00
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (84 bp):
GGTTTCCGTTAAGCACTCATGAGCTTCCATTCAACCCTAATGGGTCTCTGTTCAGCACTTATGAG
CTTCTGTTTAACCCTTATT
Found at i:93564220 original size:21 final size:21
Alignment explanation
Indices: 93564196--93564238 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
93564186 TAATTATCTT
* *
93564196 ATAATTGCGCATTGATTTGTA
1 ATAATTGCACATTAATTTGTA
*
93564217 ATAATTGCATATTAATTTGTA
1 ATAATTGCACATTAATTTGTA
93564238 A
1 A
93564239 ATTTTTGTGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (21 bp):
ATAATTGCACATTAATTTGTA
Found at i:93565629 original size:32 final size:32
Alignment explanation
Indices: 93565592--93565673 Score: 119
Period size: 32 Copynumber: 2.6 Consensus size: 32
93565582 TTGAAATTAG
*
93565592 TTTGTTGGATTTTGAAATTATTATGTCTTAAA
1 TTTGTTGGATATTGAAATTATTATGTCTTAAA
* * *
93565624 TTTGTTAGATATTGAATTTATTATGTTTTAAA
1 TTTGTTGGATATTGAAATTATTATGTCTTAAA
*
93565656 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
93565674 GATTGACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.52
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATGTCTTAAA
Found at i:93571934 original size:40 final size:40
Alignment explanation
Indices: 93571890--93571969 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
93571880 ATTTTCAATA
*
93571890 ACAATTGAAGGTTAAAATATGCCACAAATCTTTATACTCT
1 ACAATTGAAGGTTAAAATATGCCACAAAACTTTATACTCT
*
93571930 ACAATTGAAGGTTAAAATATGCCACAAAACTTTCTACTCT
1 ACAATTGAAGGTTAAAATATGCCACAAAACTTTATACTCT
93571970 TTGTAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (40 bp):
ACAATTGAAGGTTAAAATATGCCACAAAACTTTATACTCT
Found at i:93576126 original size:11 final size:11
Alignment explanation
Indices: 93576099--93576137 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
93576089 ACTATACGGC
*
93576099 AATAATAATAGA
1 AATAATTATA-A
93576111 AATAATTATAA
1 AATAATTATAA
*
93576122 AATAATTAAAA
1 AATAATTATAA
93576133 AATAA
1 AATAA
93576138 AAATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
AATAATTATAA
Found at i:93580296 original size:20 final size:21
Alignment explanation
Indices: 93580256--93580309 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
93580246 ACAAATAAAG
*
93580256 TAAAAATTTTAAAAAGATTCA
1 TAAAAATTATAAAAAGATTCA
93580277 -AACAAATTATAAAAAG-TTCA
1 TAA-AAATTATAAAAAGATTCA
93580297 TAAAAATTA-AAAA
1 TAAAAATTATAAAA
93580310 TAGTATGTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.13
20 12 0.40
21 14 0.47
ACGTcount: A:0.63, C:0.06, G:0.04, T:0.28
Consensus pattern (21 bp):
TAAAAATTATAAAAAGATTCA
Found at i:93581974 original size:21 final size:21
Alignment explanation
Indices: 93581940--93581979 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93581930 AAACAGTATC
*
93581940 TCCTTTCTTCATTTGTTTACA
1 TCCTTTCTTCATTTATTTACA
93581961 TCCTTTCTGT-ATTTATTTA
1 TCCTTTCT-TCATTTATTTA
93581980 TTTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.60
Consensus pattern (21 bp):
TCCTTTCTTCATTTATTTACA
Found at i:93585474 original size:40 final size:40
Alignment explanation
Indices: 93585419--93585498 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
93585409 TTGTGAGGTT
*
93585419 TGTCAGCTTGGTAAGCAGGCTAGACTGCCTTTTCCTGCTG
1 TGTCAGCTTGGTAAGCAGGCTAGACTACCTTTTCCTGCTG
93585459 TGTCAGCTTGGTAAGCAGGCTAGACTACCTTTTCCTGCTG
1 TGTCAGCTTGGTAAGCAGGCTAGACTACCTTTTCCTGCTG
93585499 ACAATGCTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.16, C:0.25, G:0.26, T:0.33
Consensus pattern (40 bp):
TGTCAGCTTGGTAAGCAGGCTAGACTACCTTTTCCTGCTG
Found at i:93590118 original size:52 final size:52
Alignment explanation
Indices: 93590040--93590143 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
93590030 CAAACGTATC
*
93590040 TGTGGTTATTGTAGTACAAAGGATCAAGTGTTGCAAAAGCAGGACCAATCGA
1 TGTGGTTATTGCAGTACAAAGGATCAAGTGTTGCAAAAGCAGGACCAATCGA
93590092 TGTGGTTATTGCAGTACAAAGGATCAAGTGTTGCAAAAGCAGGACCAATCGA
1 TGTGGTTATTGCAGTACAAAGGATCAAGTGTTGCAAAAGCAGGACCAATCGA
93590144 GCAAGCATTG
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (52 bp):
TGTGGTTATTGCAGTACAAAGGATCAAGTGTTGCAAAAGCAGGACCAATCGA
Found at i:93596495 original size:15 final size:16
Alignment explanation
Indices: 93596455--93596493 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
93596445 TTTGGGAAAG
*
93596455 AAATTCAAATTTT-AA
1 AAATTAAAATTTTAAA
*
93596470 AATTTAAAATTTTAAA
1 AAATTAAAATTTTAAA
93596486 AAATTAAA
1 AAATTAAA
93596494 TTCTAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTAAAATTTTAAA
Found at i:93596857 original size:31 final size:31
Alignment explanation
Indices: 93596791--93596869 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
93596781 CTGGTCACTG
* **
93596791 AACTATTTGAAAGTTTTCATTTAAGCCATTG
1 AACTATTTAAAAGTTTTCATTTAAGCCATCA
* *
93596822 AACTATTTAAAAGTTTTTATTTAA-CTTATCA
1 AACTATTTAAAAGTTTTCATTTAAGC-CATCA
*
93596853 AACTATTCAAAAGTTTT
1 AACTATTTAAAAGTTTT
93596870 ATTCAAGTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 1 0.02
31 40 0.98
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (31 bp):
AACTATTTAAAAGTTTTCATTTAAGCCATCA
Found at i:93600052 original size:33 final size:33
Alignment explanation
Indices: 93600014--93600169 Score: 113
Period size: 33 Copynumber: 4.7 Consensus size: 33
93600004 CATTGACGGA
*
93600014 TAAGACCATGGTTGGGCCATGGCAATATATGTG
1 TAAGACCATAGTTGGGCCATGGCAATATATGTG
* * * * *
93600047 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGTTGGGCCATGGCAAT-AT-ATGTG
** ** *
93600080 TAAGACCATA-TCTGGGATATGGCACCACGA-GTG
1 TAAGACCATAGT-TGGGCCATGGCAATA-TATGTG
* *
93600113 TAAGACCATGGTTGGGCCATGGCAATACATGTG
1 TAAGACCATAGTTGGGCCATGGCAATATATGTG
* *
93600146 TAAGACCGTAGTTGGACCATGGCA
1 TAAGACCATAGTTGGGCCATGGCA
93600170 TCATATCAGA
Statistics
Matches: 92, Mismatches: 23, Indels: 16
0.70 0.18 0.12
Matches are distributed among these distances:
32 4 0.04
33 84 0.91
34 4 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCCATGGCAATATATGTG
Found at i:93600232 original size:45 final size:45
Alignment explanation
Indices: 93600183--93600294 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
93600173 TATCAGAAAT
*
93600183 GAGTAAGACTATAGCTGAAAGACGCTATGGCATCACGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAAAC
* *
93600228 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCGATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAAAC
* * *
93600273 GTGTAAGACCATGGTTGAAAGA
1 GAGTAAGACCATAGCTGAAAGA
93600295 TACCCTGGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 61 1.00
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAAAC
Found at i:93600304 original size:45 final size:45
Alignment explanation
Indices: 93600183--93600353 Score: 144
Period size: 45 Copynumber: 3.8 Consensus size: 45
93600173 TATCAGAAAT
* * *
93600183 GAGTAAGACTATAGCTGAAAGACGCTATGGCATCACGATTCAAAC
1 GAGTAAGACCATAGCTGAAAGACACCATGGCATCACGATTCAAAC
* * * *
93600228 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCGATTCAAAT
1 GAGTAAGACCATAGCTGAAAGACACCATGGCATCACGATTCAAAC
* * * * * * * *** *
93600273 GTGTAAGACCATGGTTGAAAGATACCCTGGCAACATGACAGAAAAT
1 GAGTAAGACCATAGCTGAAAGACACCATGGCATCACGA-TTCAAAC
* * *
93600319 GAGTAAGACCATAGTTGAAAAACACTATGGCATCA
1 GAGTAAGACCATAGCTGAAAGACACCATGGCATCA
93600354 TGTCGAAGAT
Statistics
Matches: 102, Mismatches: 23, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
45 70 0.69
46 32 0.31
ACGTcount: A:0.39, C:0.19, G:0.23, T:0.20
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACACCATGGCATCACGATTCAAAC
Found at i:93601583 original size:57 final size:58
Alignment explanation
Indices: 93601522--93601630 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 58
93601512 TCTTGTTTCC
* **
93601522 AACATATGCTCATA-AGAGCTTA-ATCAAGATTACCCGTCCGGGCTAAATCCTATCTAT
1 AACATATGCTCA-AGAGAGCTTATATCAAGATTACCAGTCCAAGCTAAATCCTATCTAT
* * *
93601579 AACATATGCTCAAGAGGGCTTATATTAGGATTACCAGTCCAAGCTAAATCCT
1 AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAAGCTAAATCCT
93601631 TTCTGTAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.02
57 19 0.43
58 24 0.55
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.28
Consensus pattern (58 bp):
AACATATGCTCAAGAGAGCTTATATCAAGATTACCAGTCCAAGCTAAATCCTATCTAT
Found at i:93611204 original size:24 final size:24
Alignment explanation
Indices: 93611172--93611220 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
93611162 TGCATGATAT
93611172 TTGGCTTAAGTAAAACTGTCATTG
1 TTGGCTTAAGTAAAACTGTCATTG
93611196 TTGGCTTAAGTAAAACTGTCATTG
1 TTGGCTTAAGTAAAACTGTCATTG
93611220 T
1 T
93611221 ACATTAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.12, G:0.20, T:0.39
Consensus pattern (24 bp):
TTGGCTTAAGTAAAACTGTCATTG
Found at i:93621823 original size:79 final size:81
Alignment explanation
Indices: 93621721--93621904 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
93621711 GCTCCTCGTT
* *
93621721 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
*
93621783 CGGAT-TTAGTAAC-TCGCA
63 CGGATATT-GTAACTTAGCA
**
93621801 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
*
93621865 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
93621881 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93621905 CATCATTCAA
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 14 0.15
79 56 0.61
80 22 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:93621838 original size:39 final size:41
Alignment explanation
Indices: 93621721--93621904 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
93621711 GCTCCTCGTT
* *
93621721 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAATCTCGCA
* *
93621761 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAA-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
93621801 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
* * *
93621840 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAATC-TCGCA
93621881 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93621905 CATCATTCAA
Statistics
Matches: 128, Mismatches: 7, Indels: 19
0.83 0.05 0.12
Matches are distributed among these distances:
38 3 0.02
39 48 0.38
40 66 0.52
41 11 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAATCTCGCA
Found at i:93629583 original size:68 final size:68
Alignment explanation
Indices: 93629470--93629602 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
93629460 CTATCTATGC
* * * *
93629470 TTTGATTGATCCGGAATAAACACATTCGTATATATGCACTGCATTAGTAATAGATAAGAAAATAC
1 TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
93629535 CAG
66 CAG
93629538 TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
1 TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
93629603 GAGTAGAATC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (68 bp):
TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
CAG
Found at i:93636309 original size:68 final size:68
Alignment explanation
Indices: 93636196--93636328 Score: 230
Period size: 68 Copynumber: 2.0 Consensus size: 68
93636186 CTATCTATGC
* * * *
93636196 TTTGATTGATCCGGAATAAACACATTCGTATATATGCACTGCATTAGTAATAGATAAGAAAATAC
1 TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
93636261 CAG
66 CAG
93636264 TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
1 TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
93636329 GAGTAGAATC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (68 bp):
TTTGATTGACCCAGAATAAACACATTCATATATATGCACTACATTAGTAATAGATAAGAAAATAC
CAG
Found at i:93643761 original size:40 final size:40
Alignment explanation
Indices: 93643702--93644098 Score: 713
Period size: 40 Copynumber: 9.9 Consensus size: 40
93643692 GAGCATTGGA
93643702 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93643742 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93643782 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93643822 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
93643862 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
93643902 ATATATCCGGGCTAAAACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93643942 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
93643982 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
93644022 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
93644062 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAG
93644099 NNNNNNNNNN
Statistics
Matches: 350, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 350 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:93651642 original size:37 final size:37
Alignment explanation
Indices: 93651564--93651662 Score: 110
Period size: 37 Copynumber: 2.7 Consensus size: 37
93651554 TTTATCGAGC
* * *
93651564 CAAATCATATCGTTATAATGAATGAATCTCAATCGAC
1 CAAATCATACCGTTATAATGAATGAAGCTCAATCGAA
* * *
93651601 CAAATCATACCGTTATATTGAATGGAGCTTAA-CTGAA
1 CAAATCATACCGTTATAATGAATGAAGCTCAATC-GAA
* *
93651638 CAAATCTTACTGTTATAATGAATGA
1 CAAATCATACCGTTATAATGAATGA
93651663 TGTTTAATTG
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
36 1 0.02
37 50 0.98
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (37 bp):
CAAATCATACCGTTATAATGAATGAAGCTCAATCGAA
Found at i:93651679 original size:37 final size:37
Alignment explanation
Indices: 93651575--93651689 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
93651565 AAATCATATC
* * * * *
93651575 GTTATAATGAATGAAT-CTCAATCGACCAAATCATACC
1 GTTATAATGAATG-ATGCTTAATTGAACAAATCTTACT
* *
93651612 GTTATATTGAATGGA-GCTTAACTGAACAAATCTTACT
1 GTTATAATGAAT-GATGCTTAATTGAACAAATCTTACT
* *
93651649 GTTATAATGAATGATGTTTAATTGATCAAAT-TCTACT
1 GTTATAATGAATGATGCTTAATTGAACAAATCT-TACT
93651686 GTTA
1 GTTA
93651690 GACTGAGTGA
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
36 3 0.05
37 59 0.94
38 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (37 bp):
GTTATAATGAATGATGCTTAATTGAACAAATCTTACT
Found at i:93657432 original size:99 final size:99
Alignment explanation
Indices: 93657237--93657424 Score: 297
Period size: 99 Copynumber: 1.9 Consensus size: 99
93657227 ATGTTGTAAT
* * *
93657237 GGGACTTCCAATGGCACTGATAAAGATAGACTCGATCTGGGTTATTATTGACCTACTAACTAAAT
1 GGGACTTCCAATGACACTGAGAAAGAAAGACTCGATCTGGGTTATTATTGACCTACTAACTAAAT
93657302 CAACTCATTTCATTCCAATTTGTACTAATTACTA
66 CAACTCATTTCATTCCAATTTGTACTAATTACTA
* * *
93657336 GGGACTTCCAATGACACTGAGAAAGAAAGACTCGATCTGGGTTATTGTTGA-CTGACTGACTAAG
1 GGGACTTCCAATGACACTGAGAAAGAAAGACTCGATCTGGGTTATTATTGACCT-ACTAACTAAA
*
93657400 TCAGCTCATTTCATTCCAATTTGTA
65 TCAACTCATTTCATTCCAATTTGTA
93657425 TTGATTACCT
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
98 2 0.02
99 79 0.98
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (99 bp):
GGGACTTCCAATGACACTGAGAAAGAAAGACTCGATCTGGGTTATTATTGACCTACTAACTAAAT
CAACTCATTTCATTCCAATTTGTACTAATTACTA
Found at i:93660883 original size:22 final size:21
Alignment explanation
Indices: 93660858--93660898 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
93660848 TGATATTTAT
93660858 TTTA-TTATTTTATTTCTCTTGA
1 TTTATTTA-TTTATTT-TCTTGA
93660880 TTTATTTATTTATTTTCTT
1 TTTATTTATTTATTTTCTT
93660899 TTCTTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 11 0.61
23 3 0.17
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTTATTTATTTTCTTGA
Found at i:93660883 original size:27 final size:26
Alignment explanation
Indices: 93660852--93660903 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
93660842 CAGATTTGAT
93660852 ATTTATTT-TATTATTTTATTTCTCTTG
1 ATTTATTTAT-TTATTTTATTT-TCTTG
*
93660879 ATTTATTTATTTATTTTCTTTTCTT
1 ATTTATTTATTTATTTTATTTTCTT
93660904 TCTTTTCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 18 0.78
28 1 0.04
ACGTcount: A:0.17, C:0.08, G:0.02, T:0.73
Consensus pattern (26 bp):
ATTTATTTATTTATTTTATTTTCTTG
Found at i:93673347 original size:19 final size:19
Alignment explanation
Indices: 93673325--93673364 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
93673315 CACTTTACGT
*
93673325 GCTAGTACGCACTTTGTAC
1 GCTAGAACGCACTTTGTAC
* *
93673344 GCTAGAATGCATTTTGTAC
1 GCTAGAACGCACTTTGTAC
93673363 GC
1 GC
93673365 CAATATGCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (19 bp):
GCTAGAACGCACTTTGTAC
Found at i:93675892 original size:25 final size:25
Alignment explanation
Indices: 93675847--93675895 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
93675837 ATATAGTTTT
*
93675847 TATATTAATTATAAATGTTATAATA
1 TATATTAATTATAAATATTATAATA
93675872 TATATTATATTAT-AATATTATAAT
1 TATATTA-ATTATAAATATTATAAT
93675896 TAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
TATATTAATTATAAATATTATAATA
Found at i:93677562 original size:41 final size:41
Alignment explanation
Indices: 93677499--93677623 Score: 151
Period size: 41 Copynumber: 3.0 Consensus size: 41
93677489 ACTAATCTGA
* * *
93677499 TTTATTGCCAGTGAAATAATTCAGACTTTATGTCTAGCAGGC
1 TTTA-TGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
*
93677541 TTTATGCCGGTGAAATTATTCAGACTATACGTCTAGCAGGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
* * * * * *
93677582 TTAATGCCGGTGATACATTTCGGACTATAAGTCTAGCAGGC
1 TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
93677623 T
1 T
93677624 AAAAGCCGGT
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
41 68 0.94
42 4 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (41 bp):
TTTATGCCGGTGAAATAATTCAGACTATACGTCTAGCAGGC
Found at i:93677860 original size:21 final size:21
Alignment explanation
Indices: 93677817--93677863 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
93677807 AATATATTAA
*
93677817 ATATATATGCATTTGATAAGT
1 ATATATATGCATTTGAGAAGT
* **
93677838 ATATATATGTATTTGAGGTGT
1 ATATATATGCATTTGAGAAGT
93677859 ATATA
1 ATATA
93677864 CATTTGTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (21 bp):
ATATATATGCATTTGAGAAGT
Found at i:93687929 original size:50 final size:50
Alignment explanation
Indices: 93687870--93688111 Score: 258
Period size: 50 Copynumber: 4.9 Consensus size: 50
93687860 ATGTTGGGTA
* * *
93687870 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** *
93687920 AAGAGGTCCCATGTAAGACCATGTCTGGGACATAACGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * * * *
93687970 GAGAGGTCCCCTGTAAGACCATGTCCGGGACATGGCATGGGCACCAATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * *
93688020 AAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTAC-AGGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGA-GAT
* *
93688071 AACA--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
93688112 TGTTATTATC
Statistics
Matches: 162, Mismatches: 27, Indels: 7
0.83 0.14 0.04
Matches are distributed among these distances:
49 34 0.21
50 122 0.75
51 4 0.02
52 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:93692930 original size:15 final size:16
Alignment explanation
Indices: 93692870--93692930 Score: 63
Period size: 15 Copynumber: 3.8 Consensus size: 16
93692860 TTACTTTTTT
*
93692870 CTCTAAAACCCTAAAAA
1 CTCTAAAAACCT-AAAA
*
93692887 TTCTAAAAACCCTAAAA
1 CTCTAAAAA-CCTAAAA
*
93692904 CTCT-AAACCCTAAAA
1 CTCTAAAAACCTAAAA
93692919 -TCTAAAAACCTA
1 CTCTAAAAACCTA
93692931 CAAGTTAGGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
14 3 0.08
15 14 0.38
16 3 0.08
17 14 0.38
18 3 0.08
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (16 bp):
CTCTAAAAACCTAAAA
Found at i:93696796 original size:75 final size:75
Alignment explanation
Indices: 93696673--93696823 Score: 275
Period size: 75 Copynumber: 2.0 Consensus size: 75
93696663 GCAACATGAA
* * *
93696673 TTACTTGATTATATTGGAAGACCTCTTGCATTTTCCTTCCTCACACTTCCACATGGGTTTTATAA
1 TTACTTGATTATATCGGAAGACCTCTTGCAGTTTCCTTCCTCACACTTCCACATGGGTTTTAGAA
93696738 AGCATGCTCC
66 AGCATGCTCC
93696748 TTACTTGATTATATCGGAAGACCTCTTGCAGTTTCCTTCCTCACACTTCCACATGGGTTTTAGAA
1 TTACTTGATTATATCGGAAGACCTCTTGCAGTTTCCTTCCTCACACTTCCACATGGGTTTTAGAA
93696813 AGCATGCTCC
66 AGCATGCTCC
93696823 T
1 T
93696824 CCAACAAGGA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (75 bp):
TTACTTGATTATATCGGAAGACCTCTTGCAGTTTCCTTCCTCACACTTCCACATGGGTTTTAGAA
AGCATGCTCC
Found at i:93698374 original size:25 final size:24
Alignment explanation
Indices: 93698291--93698491 Score: 76
Period size: 23 Copynumber: 8.5 Consensus size: 24
93698281 AATCTACCCT
* * *
93698291 ATTTGGATAGCTTTTATACATC-A
1 ATTTGGACAGCATTTATACACCAA
* *
93698314 ATTTGAACAGCATTTATATACCAA
1 ATTTGGACAGCATTTATACACCAA
*
93698338 A-TTAGACAGCATTT-TCACACCAAA
1 ATTTGGACAGCATTTAT-ACACC-AA
** *
93698362 ATTTGGACAGCATAAATACATC-A
1 ATTTGGACAGCATTTATACACCAA
** * *
93698385 ATTTGGGTAGCATATATACAAC-A
1 ATTTGGACAGCATTTATACACCAA
* * *
93698408 GTTT-GAGCAACATTTTTACACCAA
1 ATTTGGA-CAGCATTTATACACCAA
** * * * *
93698432 AACTGGACATCATATATGCAACAA
1 ATTTGGACAGCATTTATACACCAA
* * *
93698456 A-TTGGGCAGCATGTA-AGCATCAA
1 ATTTGGACAGCATTTATA-CACCAA
*
93698479 AATTGGACAGCAT
1 ATTTGGACAGCAT
93698492 ATATGTAACA
Statistics
Matches: 130, Mismatches: 38, Indels: 19
0.70 0.20 0.10
Matches are distributed among these distances:
22 2 0.02
23 81 0.62
24 30 0.23
25 16 0.12
26 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (24 bp):
ATTTGGACAGCATTTATACACCAA
Found at i:93698456 original size:24 final size:24
Alignment explanation
Indices: 93698429--93698507 Score: 81
Period size: 23 Copynumber: 3.4 Consensus size: 24
93698419 ATTTTTACAC
* *
93698429 CAAAACTGGACATCATATATGCAA
1 CAAAATTGGACAGCATATATGCAA
* * * *
93698453 C-AAATTGGGCAGCATGTAAGCAT
1 CAAAATTGGACAGCATATATGCAA
*
93698476 CAAAATTGGACAGCATATATGTAA
1 CAAAATTGGACAGCATATATGCAA
93698500 C-AAATTGG
1 CAAAATTGG
93698508 TTCAACTCAT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
23 24 0.56
24 19 0.44
ACGTcount: A:0.42, C:0.16, G:0.19, T:0.23
Consensus pattern (24 bp):
CAAAATTGGACAGCATATATGCAA
Found at i:93699435 original size:43 final size:42
Alignment explanation
Indices: 93699348--93699471 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 42
93699338 AACTCTTACA
* * *
93699348 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACGTATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAC-AATCG
* **
93699391 ATG-CTACTGTCCCAGACAAGGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAACACAA-TCG
93699434 ATGCCAACGTCCCAGACGTGGTCTTACACG-ATAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTA-AACACA
93699472 TCTCAGAAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.07
43 60 0.88
44 3 0.04
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACACAATCG
Found at i:93700632 original size:14 final size:15
Alignment explanation
Indices: 93700613--93700641 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
93700603 TCACGAAACT
93700613 TTCACACAT-ATAAA
1 TTCACACATAATAAA
93700627 TTCACACATAATAAA
1 TTCACACATAATAAA
93700642 CACATTAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:93719109 original size:47 final size:47
Alignment explanation
Indices: 93718937--93719289 Score: 553
Period size: 47 Copynumber: 7.4 Consensus size: 47
93718927 ATTGATGTAC
* * * * *
93718937 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
93718984 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
93719033 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
93719082 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
93719129 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
93719176 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
93719223 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
93719270 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
93719290 TCCCGAAGGG
Statistics
Matches: 289, Mismatches: 15, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 197 0.68
49 92 0.32
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:93725404 original size:38 final size:38
Alignment explanation
Indices: 93725350--93725426 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
93725340 TACACTTTTG
* *
93725350 CCTAAGGGGTTTGATACTCTAATTACGAATTTAGTAGA
1 CCTAAGGGGTTCGATACTCTAATTACGAATTCAGTAGA
*
93725388 CCTAAGGGGTTCGATACTCTAATTATGAATTCAGTAGA
1 CCTAAGGGGTTCGATACTCTAATTACGAATTCAGTAGA
93725426 C
1 C
93725427 TCTACAGGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.32
Consensus pattern (38 bp):
CCTAAGGGGTTCGATACTCTAATTACGAATTCAGTAGA
Found at i:93726149 original size:190 final size:190
Alignment explanation
Indices: 93725826--93726205 Score: 742
Period size: 190 Copynumber: 2.0 Consensus size: 190
93725816 TTTACCACAA
*
93725826 TGTTTACATTTAGGTTTCTCAGGTCAGACATTTCCAACACTTGCAACAGAGGTAGCAGGGACTCT
1 TGTTTACATTTAGGTTTCTCAGATCAGACATTTCCAACACTTGCAACAGAGGTAGCAGGGACTCT
93725891 TAAGTTTGAATGCGATCTAGCTCGATCTCGATTTGAATGTCCCACATTAGCATTTGGATGGCTTT
66 TAAGTTTGAATGCGATCTAGCTCGATCTCGATTTGAATGTCCCACATTAGCATTTGGATGGCTTT
93725956 GATCATCTCGAAATTTCTTTGACATAAACTAAAATGATCTACTCGAAGATCTCTTTCTAG
131 GATCATCTCGAAATTTCTTTGACATAAACTAAAATGATCTACTCGAAGATCTCTTTCTAG
93726016 TGTTTACATTTAGGTTTCTCAGATCAGACATTTCCAACACTTGCAACAGAGGTAGCAGGGACTCT
1 TGTTTACATTTAGGTTTCTCAGATCAGACATTTCCAACACTTGCAACAGAGGTAGCAGGGACTCT
93726081 TAAGTTTGAATGCGATCTAGCTCGATCTCGATTTGAATGTCCCACATTAGCATTTGGATGGCTTT
66 TAAGTTTGAATGCGATCTAGCTCGATCTCGATTTGAATGTCCCACATTAGCATTTGGATGGCTTT
*
93726146 GATCATCTCGAAATTTCTTTGACATAAACTGAAATGATCTACTCGAAGATCTCTTTCTAG
131 GATCATCTCGAAATTTCTTTGACATAAACTAAAATGATCTACTCGAAGATCTCTTTCTAG
93726206 GATTTCTAGC
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 188 1.00
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (190 bp):
TGTTTACATTTAGGTTTCTCAGATCAGACATTTCCAACACTTGCAACAGAGGTAGCAGGGACTCT
TAAGTTTGAATGCGATCTAGCTCGATCTCGATTTGAATGTCCCACATTAGCATTTGGATGGCTTT
GATCATCTCGAAATTTCTTTGACATAAACTAAAATGATCTACTCGAAGATCTCTTTCTAG
Found at i:93728363 original size:43 final size:42
Alignment explanation
Indices: 93728290--93728414 Score: 119
Period size: 42 Copynumber: 2.9 Consensus size: 42
93728280 CATAATCAAG
* * * *
93728290 TACAATACCGACGTCCCAGAC-GTGGTCTTACATGTAATTCA-A
1 TACAATGCCGATGTCCCAGACAG-GGTCTTACACG-AAATCAGA
* **
93728332 TATCGATGCCTCTGTCCCAGACAGGGTCTTACACGAAATCAGA
1 TA-CAATGCCGATGTCCCAGACAGGGTCTTACACGAAATCAGA
* *
93728375 TACAATGCCGATGTCCCAGACATGGTCTTATACGTAAATC
1 TACAATGCCGATGTCCCAGACAGGGTCTTACACG-AAATC
93728415 TCAAACCAGG
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
42 34 0.51
43 32 0.48
44 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TACAATGCCGATGTCCCAGACAGGGTCTTACACGAAATCAGA
Found at i:93728396 original size:42 final size:42
Alignment explanation
Indices: 93728283--93728414 Score: 133
Period size: 43 Copynumber: 3.1 Consensus size: 42
93728273 AGATGCTCAT
* * *
93728283 AATCAAGTACAATACCGACGTCCCAGAC-GTGGTCTTACATGTA
1 AATCAA-TACAATGCCGATGTCCCAGACAG-GGTCTTACACGTA
* * **
93728326 ATTCAATATCGATGCCTCTGTCCCAGACAGGGTCTTACACG-A
1 AATCAATA-CAATGCCGATGTCCCAGACAGGGTCTTACACGTA
* *
93728368 AATCAGATACAATGCCGATGTCCCAGACATGGTCTTATACGTA
1 AATCA-ATACAATGCCGATGTCCCAGACAGGGTCTTACACGTA
93728411 AATC
1 AATC
93728415 TCAAACCAGG
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
42 34 0.47
43 37 0.51
44 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
AATCAATACAATGCCGATGTCCCAGACAGGGTCTTACACGTA
Found at i:93732266 original size:94 final size:94
Alignment explanation
Indices: 93732156--93733174 Score: 1968
Period size: 94 Copynumber: 10.8 Consensus size: 94
93732146 GCCACATTAT
*
93732156 GAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732221 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732250 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732315 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732344 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732409 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732438 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732503 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732532 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732597 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732626 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732691 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732720 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732785 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732814 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732879 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93732908 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93732973 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
93733002 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
93733067 ATGTCTGGCACATGCATCGGCATTGAGAC
66 ATGTCTGGCACATGCATCGGCATTGAGAC
* * *
93733096 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCTG-CCTCGAAATATACAAGCTAGTGTAAGA
1 GAGAGCTAGTGTAAGACATGTCTAGGACATGCATC-GACCTCGAGATATACAAGCCAATGTAAGA
* *
93733160 CCTGTCTGGGACATG
65 CATGTCTGGCACATG
93733175 GCATTGACTT
Statistics
Matches: 918, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
94 917 1.00
95 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (94 bp):
GAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGACCTCGAGATATACAAGCCAATGTAAGAC
ATGTCTGGCACATGCATCGGCATTGAGAC
Found at i:93736732 original size:67 final size:67
Alignment explanation
Indices: 93736654--93736784 Score: 244
Period size: 67 Copynumber: 2.0 Consensus size: 67
93736644 CTATCTATCT
93736654 TCTAATGAAATTCTTGTTATATGGGAGTGTTATCTAATCTTAAAGATAGACAAAGACATTCTCAG
1 TCTAATGAAATTCTTGTTATATGGGAGTGTTATCTAATCTTAAAGATAGACAAAGACATTCTCAG
93736719 TC
66 TC
* *
93736721 TCTAATGAAATTCTTGTTATATGGGATTGTTATCTAATCTTAATGATAGACAAAGACATTCTCA
1 TCTAATGAAATTCTTGTTATATGGGAGTGTTATCTAATCTTAAAGATAGACAAAGACATTCTCA
93736785 TTATGATTGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (67 bp):
TCTAATGAAATTCTTGTTATATGGGAGTGTTATCTAATCTTAAAGATAGACAAAGACATTCTCAG
TC
Found at i:93737557 original size:21 final size:22
Alignment explanation
Indices: 93737531--93737571 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
93737521 TACTAGCCAC
*
93737531 AGGGGC-ACACGCTCGTGTGGG
1 AGGGGCAACACGCCCGTGTGGG
93737552 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACGCCCGTGTG
93737572 ACCAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.17, C:0.27, G:0.44, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACGCCCGTGTGGG
Found at i:93744948 original size:46 final size:46
Alignment explanation
Indices: 93744895--93745800 Score: 1658
Period size: 46 Copynumber: 19.7 Consensus size: 46
93744885 TTGAGCATCC
93744895 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93744941 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93744987 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745033 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745079 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745125 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745171 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745217 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745263 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745309 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745355 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745401 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745447 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745493 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745539 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745585 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
93745631 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
* * * * *
93745677 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCT
* * *
93745724 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
*
93745770 GAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
93745801 GGGGCGGGTT
Statistics
Matches: 839, Mismatches: 12, Indels: 18
0.97 0.01 0.02
Matches are distributed among these distances:
42 2 0.00
43 4 0.00
45 3 0.00
46 794 0.95
47 28 0.03
48 3 0.00
50 3 0.00
51 2 0.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT
Found at i:93748792 original size:15 final size:14
Alignment explanation
Indices: 93748764--93748823 Score: 66
Period size: 15 Copynumber: 4.1 Consensus size: 14
93748754 GTATCGTATC
*
93748764 TTGGGTTTCTTTAT
1 TTGGATTTCTTTAT
*
93748778 TATGGATTCCTTTAT
1 T-TGGATTTCTTTAT
*
93748793 TCTGGATTTCTCTAT
1 T-TGGATTTCTTTAT
93748808 CTTGGATTTCTTTAT
1 -TTGGATTTCTTTAT
93748823 T
1 T
93748824 CGGTTTCCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
14 2 0.05
15 35 0.92
16 1 0.03
ACGTcount: A:0.13, C:0.13, G:0.15, T:0.58
Consensus pattern (14 bp):
TTGGATTTCTTTAT
Found at i:93751288 original size:46 final size:46
Alignment explanation
Indices: 93751230--93751723 Score: 780
Period size: 46 Copynumber: 10.7 Consensus size: 46
93751220 GGTTGAGCAT
* * *
93751230 CCGAACTCGTTGAGTTGAGTCCAATTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
93751276 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
93751322 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
93751368 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
93751414 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
93751460 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
93751506 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
93751552 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * * * *
93751598 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
* *
93751643 ATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGC
1 --CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
93751691 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
93751724 GGGGCGGGTT
Statistics
Matches: 414, Mismatches: 25, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
42 2 0.00
43 3 0.01
45 3 0.01
46 369 0.89
47 27 0.07
48 4 0.01
50 3 0.01
51 3 0.01
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:93755717 original size:95 final size:95
Alignment explanation
Indices: 93755554--93755832 Score: 549
Period size: 95 Copynumber: 2.9 Consensus size: 95
93755544 TCTTAATAGA
93755554 TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATATTG
1 TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATATTG
93755619 AAACTTTGTGATTAAAATGTGAAAATATAT
66 AAACTTTGTGATTAAAATGTGAAAATATAT
93755649 TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATATTG
1 TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATATTG
93755714 AAACTTTGTGATTAAAATGTGAAAATATAT
66 AAACTTTGTGATTAAAATGTGAAAATATAT
*
93755744 TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATGTTG
1 TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATATTG
93755809 AAACTTTGTGATTAAAATGTGAAA
66 AAACTTTGTGATTAAAATGTGAAA
93755833 TAAATGAAAA
Statistics
Matches: 183, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 183 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.37
Consensus pattern (95 bp):
TATACAAGTTTTGTTAAGTGATTTTTAGTGAAAATGCAAAATAGGGATTAAATTGAGAAATATTG
AAACTTTGTGATTAAAATGTGAAAATATAT
Found at i:93768330 original size:46 final size:45
Alignment explanation
Indices: 93768277--93768396 Score: 127
Period size: 46 Copynumber: 2.6 Consensus size: 45
93768267 TATGTGTGCT
*
93768277 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATT-ATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAG--ACATTGACGAGAGCC
* * * * *
93768323 AGTGTAAGACATGTCTAGAACATGCAT-TGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGACATT--GACGAGAGCC
*
93768369 AGTGTAAGACATGCCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
93768397 GACCTCGAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 4 0.07
45 1 0.02
46 56 0.92
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGACATTGACGAGAGCC
Found at i:93768527 original size:49 final size:49
Alignment explanation
Indices: 93768461--93768587 Score: 157
Period size: 49 Copynumber: 2.6 Consensus size: 49
93768451 ATTGTGTGTT
* *
93768461 AGTGTAAGACCTGTTTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTTTGGGACATGGCATCGAC-CTCAATAGATGAAAGCC
* * * * *
93768510 AGTGTAAGACCTATTTGGGACACGGCATCGGCCTCAATATATGAAAGTC
1 AGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGCC
* *
93768559 AGTGTAAGACCTGTTTGAGACATGACATC
1 AGTGTAAGACCTGTTTGGGACATGGCATC
93768588 ACTTTGATGT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTTTGGGACATGGCATCGACCTCAATAGATGAAAGCC
Found at i:93770912 original size:40 final size:40
Alignment explanation
Indices: 93770857--93771089 Score: 219
Period size: 40 Copynumber: 5.9 Consensus size: 40
93770847 GGATATAGCT
* * *
93770857 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTACAGTA
1 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGTTACAGTA
* *
93770897 ACTCGCACA-ATTGCCTTCGGGACTT-GCCCGG-AACTAGTC
1 ACTCGCACAGA-TGCCTTCGGGACTTAGCCCGGTTAC-AGTA
* * *
93770936 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAGATGCCTTCGGGACTTAGCCCGG-TTACAGTA
* * *
93770976 ACTCGTACAGAGGCCTTCGGGACTTAGCCCGGATT-TAGTA
1 ACTCGCACAGATGCCTTCGGGACTTAGCCCGG-TTACAGTA
* * * *
93771016 ACTCGCACAAATGCCTTCGGGACTT-GCCTGG-AACTAGTC
1 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGTTAC-AGTA
* *
93771055 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGGTTA
1 ACTCGCACAGATGCCTTCGGGACTTAGCCCGGTTA
93771090 TCATCCAAAT
Statistics
Matches: 158, Mismatches: 25, Indels: 19
0.78 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 61 0.39
40 94 0.59
41 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAGATGCCTTCGGGACTTAGCCCGGTTACAGTA
Found at i:93770964 original size:79 final size:80
Alignment explanation
Indices: 93770864--93771086 Score: 240
Period size: 79 Copynumber: 2.8 Consensus size: 80
93770854 GCTACTCGCT
* *
93770864 CAAATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACA-ATTGCCTTCGGGACTT-GCCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-CAGTAACTCGCACAGA-GGCCTTCGGGACTTAGCCC
* *
93770926 GGAACTAGTCACTAGCG
64 GGAACTAGTAACTAGCA
* * *
93770943 CAGATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTACAGAGGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTCAGTAACTCGCACAGAGGCCTTCGGGACTTAGCCCGG
** *
93771008 ATTTAGTAACTCGCA
66 AACTAGTAACTAGCA
* * * * * *
93771023 CAAATGCCTTCGGGACTT-GCCTGGA-ACTAGTCACTAGCGCAGATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTC-AGTAACTCGCACAGAGGCCTTCGGGACTTAGCCCG
93771086 G
65 G
93771087 TTATCATCCA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 85 0.70
80 36 0.30
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTCAGTAACTCGCACAGAGGCCTTCGGGACTTAGCCCGG
AACTAGTAACTAGCA
Found at i:93771056 original size:119 final size:119
Alignment explanation
Indices: 93770869--93771086 Score: 384
Period size: 119 Copynumber: 1.8 Consensus size: 119
93770859 TCGCTCAAAT
*
93770869 GCCTTCGGGACATAGCCCGGTTACAGTAACTCGCACAATTGCCTTCGGGACTTGCCCGGAACTAG
1 GCCTTCGGGACATAGCCCGGTTACAGTAACTCGCACAAATGCCTTCGGGACTTGCCCGGAACTAG
93770934 TCACTAGCGCAGATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTACAGAG
66 TCACTAGCGCAGATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTACAGAG
* * *
93770988 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTGCCTGGAACTA
1 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACAAATGCCTTCGGGACTTGCCCGGAACTA
93771052 GTCACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
65 GTCACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
93771087 TTATCATCCA
Statistics
Matches: 94, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 92 0.98
120 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.27, T:0.23
Consensus pattern (119 bp):
GCCTTCGGGACATAGCCCGGTTACAGTAACTCGCACAAATGCCTTCGGGACTTGCCCGGAACTAG
TCACTAGCGCAGATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGTACAGAG
Found at i:93773910 original size:19 final size:19
Alignment explanation
Indices: 93773849--93773911 Score: 83
Period size: 19 Copynumber: 3.3 Consensus size: 19
93773839 GGACACGAGT
93773849 GTGTCCTGGGCACACGGGCA
1 GTGTCCTGGGCACACGGG-A
*
93773869 -TGTCCTGGGCACACGGGC
1 GTGTCCTGGGCACACGGGA
* *
93773887 TTGTCCTGGGCACATGGGA
1 GTGTCCTGGGCACACGGGA
93773906 GTGTCC
1 GTGTCC
93773912 CTGTGTCCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.13, C:0.29, G:0.38, T:0.21
Consensus pattern (19 bp):
GTGTCCTGGGCACACGGGA
Found at i:93775776 original size:46 final size:46
Alignment explanation
Indices: 93775725--93775849 Score: 155
Period size: 46 Copynumber: 2.7 Consensus size: 46
93775715 CATCCCGTAA
* * *
93775725 CCGATGTATGTCCTAGACAAGTCTTACACTGGCT-TACAT-CTCGAGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATACT-GAGG
* * * *
93775771 CCGATGCGTGACCCAGACATGTCTTACACTAGCTCTCATACTGTGG
1 CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGAGG
93775817 CCGATGCATGTCCCAGACATGTCTTACACTGGC
1 CCGATGCATGTCCCAGACATGTCTTACACTGGC
93775850 ACACAAATAA
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 64 0.96
47 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (46 bp):
CCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATACTGAGG
Found at i:93783393 original size:46 final size:44
Alignment explanation
Indices: 93783296--93783415 Score: 136
Period size: 46 Copynumber: 2.7 Consensus size: 44
93783286 AGGCCGACGC
* *
93783296 CATGTCCTAGACATGGTCTTACACTGACACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCAATG
* * *
93783341 CATGTCCCAGACATGTCTTACACTAGCTCTCATACT-GTGGCCAATG
1 CATGTCCCAGACATGTCTTACACT-G-ACACAT-CTCGTAGCCAATG
93783387 CATGTCCCAGACATGTCTTACTA-TGACAC
1 CATGTCCCAGACATGTCTTAC-ACTGACAC
93783416 CCCTCACCCG
Statistics
Matches: 64, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
44 12 0.19
45 15 0.23
46 34 0.53
47 3 0.05
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCAATG
Found at i:93785115 original size:38 final size:38
Alignment explanation
Indices: 93785067--93785226 Score: 158
Period size: 38 Copynumber: 4.0 Consensus size: 38
93785057 TCAAATTAAT
* *
93785067 ATGTATAACCGTGGCATATCCACTTAGCACCATGTTAC
1 ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTAC
* *
93785105 ATGTTTAACCGTGGTATATCCACTTAGTACCACGTTAATGAATC
1 ATGTTTAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C
* * **
93785149 AATATATGTAATCACGGCATATCCACTTAGCACCACGTTAC
1 -ATGT-T-TAACCGTGGCATATCCACTTAGCACCACGTTAC
*
93785190 ATGTTTAACTGTGGCATATCCACTTAGCACCACGTTA
1 ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTA
93785227 ATGAATCAAT
Statistics
Matches: 98, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
38 58 0.59
39 2 0.02
40 3 0.03
41 2 0.02
42 1 0.01
43 1 0.01
44 2 0.02
45 3 0.03
46 2 0.02
47 24 0.24
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (38 bp):
ATGTTTAACCGTGGCATATCCACTTAGCACCACGTTAC
Found at i:93785266 original size:85 final size:85
Alignment explanation
Indices: 93785072--93785278 Score: 299
Period size: 85 Copynumber: 2.4 Consensus size: 85
93785062 TTAATATGTA
* * * *
93785072 TAACCGTGGCATATCCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGTACCA
1 TAACTGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGCATATCCACTTAGCACCA
93785137 CGTTAATGAATCAATATATG
66 CGTTAATGAATCAATATATG
** *
93785157 TAA-TCACGGCATATCCACTTAGCACCACGTTACATGTTTAACTGTGGCATATCCACTTAGCACC
1 TAACT-GTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGCATATCCACTTAGCACC
93785221 ACGTTAATGAATCAATATATG
65 ACGTTAATGAATCAATATATG
* * * *
93785242 TAACTGTGGCAAATCGACTCAGCACCACTTTACATGT
1 TAACTGTGGCATATCCACTTAGCACCACGTTACATGT
93785279 ATCAATATGT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
85 106 0.99
86 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (85 bp):
TAACTGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGCATATCCACTTAGCACCA
CGTTAATGAATCAATATATG
Found at i:93785314 original size:48 final size:48
Alignment explanation
Indices: 93785195--93785323 Score: 145
Period size: 48 Copynumber: 2.7 Consensus size: 48
93785185 GTTACATGTT
* *
93785195 TAACTGTGGCATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
1 TAACTATGGCATATCCACTTAGCACCACATTACATGAATCAATATATG
* * * * * * *
93785242 TAACTGTGGCAAATCGACTCAGCACCACTTTACATGTATCAATATGTG
1 TAACTATGGCATATCCACTTAGCACCACATTACATGAATCAATATATG
*
93785290 TAA-TCATGGTATATCCACTTAGCACCACATTACA
1 TAACT-ATGGCATATCCACTTAGCACCACATTACA
93785324 CATATAACCG
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
47 29 0.43
48 39 0.57
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.29
Consensus pattern (48 bp):
TAACTATGGCATATCCACTTAGCACCACATTACATGAATCAATATATG
Found at i:93791214 original size:48 final size:47
Alignment explanation
Indices: 93791156--93791292 Score: 175
Period size: 48 Copynumber: 2.9 Consensus size: 47
93791146 GTTGATATGA
* * * *
93791156 GATCCTATGTATGACCATGTTTGGAACATGGCATTAGCATCGAGTGGT
1 GATCCCATGTAAGACCATGTTTGG-ACATGGCATTGGCATCAAGTGGT
*
93791204 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCAAGTGGT
1 GATCCCATGTAAGACCATGT-TTGGACATGGCATTGGCATCAAGTGGT
* * *
93791252 GATCCCATATAAGACCATATTTAGGATATGGCATTGGCATC
1 GATCCCATGTAAGACCATGTTT-GGACATGGCATTGGCATC
93791293 TTATTATGTG
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 1 0.01
48 74 0.95
49 3 0.04
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (47 bp):
GATCCCATGTAAGACCATGTTTGGACATGGCATTGGCATCAAGTGGT
Found at i:93796482 original size:43 final size:43
Alignment explanation
Indices: 93796416--93796573 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
93796406 AGCTCATACA
* *
93796416 ATGCCGACATCCCAGACGTGGTCTTACATGTAATCAAATGTCG
1 ATGCCGACATCCCAGACGTGGTCTTACACGAAATCAAATGTCG
* *
93796459 ATGCC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAAT-ACT
1 ATGCCGAC-ATCCCAGAC-GTGGTCTTACACGAAATCAAATGTCG
* * ** * * * *
93796501 ATGTCAATGTCCCAGACATTGTCTTACACATAAATCATAA-GTTG
1 ATGCCGACATCCCAGACGTGGTCTTACAC-GAAATCA-AATGTCG
* *
93796545 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCGACATCCCAGACGTGGTCTTACAC
93796574 AAAAACACAT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 24 0.26
43 39 0.43
44 28 0.31
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCGACATCCCAGACGTGGTCTTACACGAAATCAAATGTCG
Found at i:93797929 original size:12 final size:12
Alignment explanation
Indices: 93797912--93797939 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
93797902 CTCCAATTTT
93797912 CACATGGCCTAG
1 CACATGGCCTAG
93797924 CACATGGCCTAG
1 CACATGGCCTAG
93797936 CACA
1 CACA
93797940 CGGGCGTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.36, G:0.21, T:0.14
Consensus pattern (12 bp):
CACATGGCCTAG
Found at i:93806098 original size:14 final size:14
Alignment explanation
Indices: 93806026--93806201 Score: 87
Period size: 12 Copynumber: 13.2 Consensus size: 14
93806016 AATGTAGAAA
93806026 TTATTATATATATT
1 TTATTATATATATT
93806040 ATT-TT-TAT-T-TT
1 -TTATTATATATATT
93806051 TATATTAT-T-TATT
1 T-TATTATATATATT
* * *
93806064 ATATTATTTACATT
1 TTATTATATATATT
*
93806078 TTGTTATATAT-TT
1 TTATTATATATATT
* *
93806091 TGATT-TATACATT
1 TTATTATATATATT
93806104 TTATTATATATCATT
1 TTATTATATAT-ATT
93806119 TTATTATATATATT
1 TTATTATATATATT
93806133 ATTCATTATAT-T-TT
1 -TT-ATTATATATATT
*
93806147 TTATTTTAT-TA-T
1 TTATTATATATATT
*
93806159 ATATTATATA-ATT
1 TTATTATATATATT
*
93806172 AT-TTAT-TAT-TT
1 TTATTATATATATT
*
93806183 ATTATTATGTATAATT
1 -TTATTATATAT-ATT
93806199 TTA
1 TTA
93806202 AAAATTCATA
Statistics
Matches: 126, Mismatches: 15, Indels: 40
0.70 0.08 0.22
Matches are distributed among these distances:
10 1 0.01
11 7 0.06
12 36 0.29
13 27 0.21
14 24 0.19
15 22 0.17
16 9 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTATATATATT
Found at i:93806157 original size:33 final size:31
Alignment explanation
Indices: 93806026--93806162 Score: 88
Period size: 33 Copynumber: 4.4 Consensus size: 31
93806016 AATGTAGAAA
93806026 TTATTATATATATTATT-TT-TATTTTTATATTAT
1 TTATTATATATATT-TTATTATATTTTT-TA-T-T
* * * * *
93806059 TTATTATAT-TATTTACATTTTGTTATATATT
1 TTATTATATATATTT-TATTATATTTTTTATT
* * *
93806090 TTGATT-TATACATTTTATTATA--TATCATT
1 TT-ATTATATATATTTTATTATATTTTTTATT
93806119 TTATTATATATATTATTCATTATATTTTTTATT
1 TTATTATATATATT-TT-ATTATATTTTTTATT
93806152 TTATTATATAT
1 TTATTATATAT
93806163 TATATAATTA
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
28 3 0.04
29 12 0.15
30 2 0.03
31 17 0.22
32 12 0.15
33 29 0.37
34 4 0.05
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (31 bp):
TTATTATATATATTTTATTATATTTTTTATT
Found at i:93810389 original size:12 final size:12
Alignment explanation
Indices: 93810372--93810409 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
93810362 TAGAAAGAAA
*
93810372 TGCAAGAATAAT
1 TGCAAGAACAAT
93810384 TGCAAGAACAAT
1 TGCAAGAACAAT
*
93810396 TGCAGGAACAAT
1 TGCAAGAACAAT
93810408 TG
1 TG
93810410 GCAAAAGTCC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (12 bp):
TGCAAGAACAAT
Found at i:93818348 original size:43 final size:44
Alignment explanation
Indices: 93818300--93818471 Score: 158
Period size: 44 Copynumber: 3.9 Consensus size: 44
93818290 ATCTTCTAGA
* *
93818300 AAGCAGATTTTGTGTCTCTGTATT-GACAGG-GAGCAGATCGAAG
1 AAGCAGATTTGGAGTCTCTGTATTAGAC-GGAGAGCAGATCGAAG
93818343 AAGCAGATTTGGAGTCTCTGTATTAGACGGAGAGCAGATCGAAG
1 AAGCAGATTTGGAGTCTCTGTATTAGACGGAGAGCAGATCGAAG
* * * * *
93818387 ATAGCAGATCTGACATTCGTGTGT-TTACATC-GA-AG-AGATCGAAG
1 A-AGCAGATTTG-GAGTC-TCTGTATTAGA-CGGAGAGCAGATCGAAG
* * *
93818431 ATGACAGATTTGGCGTCTCTGTATTAGATGGAGAGCAGATC
1 AAG-CAGATTTGGAGTCTCTGTATTAGACGGAGAGCAGATC
93818472 TGACATTCGT
Statistics
Matches: 103, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 4 0.04
43 33 0.32
44 36 0.35
45 16 0.16
46 9 0.09
47 5 0.05
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.27
Consensus pattern (44 bp):
AAGCAGATTTGGAGTCTCTGTATTAGACGGAGAGCAGATCGAAG
Found at i:93818481 original size:75 final size:76
Alignment explanation
Indices: 93818389--93818547 Score: 277
Period size: 76 Copynumber: 2.1 Consensus size: 76
93818379 GATCGAAGAT
93818389 AGCAGATCTGACATTCGTGTGTTTACATCGAAG-AGATCGAAGAT-GACAGATTTGGCGTCTCTG
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTG
*
93818452 TATTAGATGGAG
65 TATTAGACGGAG
93818464 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
93818529 ATTAGACGGAG
66 ATTAGACGGAG
*
93818540 AGTAGATC
1 AGCAGATC
93818548 GAAGATAGCA
Statistics
Matches: 80, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
75 33 0.41
76 46 0.57
77 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (76 bp):
AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
ATTAGACGGAG
Found at i:93818574 original size:90 final size:90
Alignment explanation
Indices: 93818464--93818976 Score: 915
Period size: 90 Copynumber: 5.7 Consensus size: 90
93818454 TTAGATGGAG
93818464 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
93818529 ATTAGACGGAGAGTAGATCGAAGAT
66 ATTAGACGGAGAGTAGATCGAAGAT
93818554 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
93818619 ATTAGACGGAGAGTAGATCGAAGAT
66 ATTAGACGGAGAGTAGATCGAAGAT
93818644 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
93818709 ATTAGACGGAGAGTAGATCGAAGAT
66 ATTAGACGGAGAGTAGATCGAAGAT
93818734 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
93818799 ATTAGACGGAGAGTAGATCGAAGAT
66 ATTAGACGGAGAGTAGATCGAAGAT
*
93818824 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGAT-GATAGATTTGGCGTCTCTG
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAG-CAGATTTGGCGTCTCTG
* *
93818888 TATTAGAC-GAGGAGCAGATTGAAGAT
65 TATTAGACGGA-GAGTAGATCGAAGAT
* * * *
93818914 AACAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGAT-GACAGACTTGGCGTCTCT
1 AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAG-CAGATTTGGCGTCTCT
93818977 ATAGCAGATT
Statistics
Matches: 413, Mismatches: 8, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
89 3 0.01
90 410 0.99
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (90 bp):
AGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGT
ATTAGACGGAGAGTAGATCGAAGAT
Found at i:93819020 original size:65 final size:65
Alignment explanation
Indices: 93818916--93819042 Score: 209
Period size: 65 Copynumber: 2.0 Consensus size: 65
93818906 TTGAAGATAA
*
93818916 CAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAGACTTGGCGTCTCTATAG
1 CAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAAACTTGGCGTCTCTATAG
* * * *
93818981 CAGATTTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCTA
1 CAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAAACTTGGCGTCTCTA
93819043 AATTAGACGG
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (65 bp):
CAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAAACTTGGCGTCTCTATAG
Found at i:93819064 original size:335 final size:335
Alignment explanation
Indices: 93818642--93819281 Score: 1079
Period size: 335 Copynumber: 1.9 Consensus size: 335
93818632 TAGATCGAAG
*
93818642 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAAATTTGGCGTCTCT
** * *
93818707 GTATTAGACGGAGAGTAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGAT
66 AAATTAGACGGAGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGAT
* *
93818772 CGAAGAT-AGCAGATTTGGCGTCTCTGTATTAGACG-GAGAGTAGATCGAAGATAGCAGATCTGA
131 CGAAGATGA-CAGATTTGGCGTCTCTGAATTAGACGAG-GAGCAGATCGAAGATAGCAGATCTGA
* *
93818835 CATTCGTGTGTTTACATCGAAGCAGATCGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGG
194 CATTCGTATGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGG
**
93818900 AGCAGATTGAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAGA
259 AGCAGATCAAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAGA
93818965 CTTGGCGTCTCT
324 CTTGGCGTCTCT
*
93818977 ATAGCAGATTTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGAT-GACAAATTTGGCGTCTC
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAG-CAAATTTGGCGTCTC
* *
93819041 TAAATTAGACGGGGAGCAGATCGAAGATAGCAGATCTAACATTTGTGTGTTTACATCGAAGCAGA
65 TAAATTAGACGGAGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGA
*
93819106 TCGAAGATGATAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAGCAGATCTGAC
130 TCGAAGATGACAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAGCAGATCTGAC
*
93819171 ATTCGTATGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGGGGA
195 ATTCGTATGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGA
*
93819236 GCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAAAG
260 GCAGATCAAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAG
93819282 CAGACAGATT
Statistics
Matches: 285, Mismatches: 17, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
334 1 0.00
335 282 0.99
336 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (335 bp):
ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAAATTTGGCGTCTCT
AAATTAGACGGAGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGAT
CGAAGATGACAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAGCAGATCTGACA
TTCGTATGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTAGACGAGGAG
CAGATCAAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAGACT
TGGCGTCTCT
Found at i:93819104 original size:45 final size:45
Alignment explanation
Indices: 93819055--93819285 Score: 159
Period size: 45 Copynumber: 5.1 Consensus size: 45
93819045 TTAGACGGGG
*
93819055 AGCAGATCGAAGATAGCAGATCTAACATTTGTGTGTTTACATCGA
1 AGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCGA
* * * * * * ** *
93819100 AGCAGATCGAAGAT-GATAGATTTGGCGTCTCTG-AATTAGA-CGA
1 AGCAGATCGAAGATAG-CAGATCTGACATTTGTGTGTTTACATCGA
* *
93819143 GGAGCAGATCGAAGATAGCAGATCTGACATTCGTATGTTTACATCGA
1 --AGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCGA
* * * * * * * *
93819190 AGCAGATCGAAGAT-GACAGATTTGGCGTCTCTGT-ATTAGA-CGGGG
1 AGCAGATCGAAGATAG-CAGATCTGACATTTGTGTGTTTACATC--GA
* * *
93819235 AGCAGATCAAAGATAGCAGATCTGACATTCGTGTGTTTACATCAA
1 AGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCGA
93819280 AGCAGA
1 AGCAGA
93819286 CAGATTTGGC
Statistics
Matches: 132, Mismatches: 42, Indels: 24
0.67 0.21 0.12
Matches are distributed among these distances:
43 4 0.03
44 10 0.08
45 104 0.79
46 10 0.08
47 4 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (45 bp):
AGCAGATCGAAGATAGCAGATCTGACATTTGTGTGTTTACATCGA
Found at i:93819107 original size:155 final size:155
Alignment explanation
Indices: 93818822--93819131 Score: 494
Period size: 155 Copynumber: 2.0 Consensus size: 155
93818812 TAGATCGAAG
* *
93818822 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGATAGATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCT
** * *
93818887 GTATTAGACGAGGAGCAGATTGAAGATAACAGATCTGACATTCGTGTGTTTACATCAAAGAAGAT
66 AAATTAGACGAGGAGCAGATCGAAGATAACAGATCTAACATTCGTGTGTTTACATCAAAGAAGAT
93818952 CGAAGATGACAGACTTGGCGTCTCT
131 CGAAGATGACAGACTTGGCGTCTCT
*
93818977 ATAGCAGATTTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCT
* * * * *
93819042 AAATTAGACGGGGAGCAGATCGAAGATAGCAGATCTAACATTTGTGTGTTTACATCGAAGCAGAT
66 AAATTAGACGAGGAGCAGATCGAAGATAACAGATCTAACATTCGTGTGTTTACATCAAAGAAGAT
* *
93819107 CGAAGATGATAGATTTGGCGTCTCT
131 CGAAGATGACAGACTTGGCGTCTCT
93819132 GAATTAGACG
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
155 141 1.00
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.28
Consensus pattern (155 bp):
ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCT
AAATTAGACGAGGAGCAGATCGAAGATAACAGATCTAACATTCGTGTGTTTACATCAAAGAAGAT
CGAAGATGACAGACTTGGCGTCTCT
Found at i:93819130 original size:90 final size:90
Alignment explanation
Indices: 93818977--93819285 Score: 519
Period size: 90 Copynumber: 3.4 Consensus size: 90
93818967 TGGCGTCTCT
* *
93818977 ATAGCAGATTTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAAATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCT
*
93819042 AAATTAGACGGGGAGCAGATCGAAG
66 GAATTAGACGGGGAGCAGATCGAAG
* * *
93819067 ATAGCAGATCTAACATTTGTGTGTTTACATCGAAGCAGATCGAAGATGATAGATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCT
*
93819132 GAATTAGACGAGGAGCAGATCGAAG
66 GAATTAGACGGGGAGCAGATCGAAG
*
93819157 ATAGCAGATCTGACATTCGTATGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCT
* *
93819222 GTATTAGACGGGGAGCAGATCAAAG
66 GAATTAGACGGGGAGCAGATCGAAG
*
93819247 ATAGCAGATCTGACATTCGTGTGTTTACATCAAAGCAGA
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGA
93819286 CAGATTTGGC
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 203 1.00
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (90 bp):
ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCT
GAATTAGACGGGGAGCAGATCGAAG
Found at i:93819167 original size:245 final size:245
Alignment explanation
Indices: 93818732--93819221 Score: 829
Period size: 245 Copynumber: 2.0 Consensus size: 245
93818722 TAGATCGAAG
*
93818732 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAGATTTGGCGTCTCT
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAAATTTGGCGTCTCT
** * *
93818797 GTATTAGACGGAGAGTAGATCGAAGATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGAT
66 AAATTAGACGGAGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGAT
* *
93818862 CGAAGATGATAGATTTGGCGTCTCTGTATTAGACGAGGAGCAGATTGAAGATAACAGATCTGACA
131 CGAAGATGATAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAACAGATCTGACA
*
93818927 TTCGTGTGTTTACATCAAAGAAGATCGAAGATGACAGACTTGGCGTCTCT
196 TTCGTATGTTTACATCAAAGAAGATCGAAGATGACAGACTTGGCGTCTCT
*
93818977 ATAGCAGATTTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGAT-GACAAATTTGGCGTCTC
1 ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAG-CAAATTTGGCGTCTC
* *
93819041 TAAATTAGACGGGGAGCAGATCGAAGATAGCAGATCTAACATTTGTGTGTTTACATCGAAGCAGA
65 TAAATTAGACGGAGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGA
*
93819106 TCGAAGATGATAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAGCAGATCTGAC
130 TCGAAGATGATAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAACAGATCTGAC
* * *
93819171 ATTCGTATGTTTACATCGAAGCAGATCGAAGATGACAGATTTGGCGTCTCT
195 ATTCGTATGTTTACATCAAAGAAGATCGAAGATGACAGACTTGGCGTCTCT
93819222 GTATTAGACG
Statistics
Matches: 229, Mismatches: 15, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
244 1 0.00
245 228 1.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.27
Consensus pattern (245 bp):
ATAGCAGATCTGACATTCGTGTGTTTACATCGAAGCAGATCGAAGATAGCAAATTTGGCGTCTCT
AAATTAGACGGAGAGCAGATCGAAGATAGCAGATCTAACATTCGTGTGTTTACATCGAAGCAGAT
CGAAGATGATAGATTTGGCGTCTCTGAATTAGACGAGGAGCAGATCGAAGATAACAGATCTGACA
TTCGTATGTTTACATCAAAGAAGATCGAAGATGACAGACTTGGCGTCTCT
Found at i:93820216 original size:8 final size:8
Alignment explanation
Indices: 93820203--93820236 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
93820193 AGTTGATGGC
93820203 GGCGCGTG
1 GGCGCGTG
93820211 GGCGCGTG
1 GGCGCGTG
93820219 GGCGCGTG
1 GGCGCGTG
93820227 GGCGCGTG
1 GGCGCGTG
93820235 GG
1 GG
93820237 AGCCTGTGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.00, C:0.24, G:0.65, T:0.12
Consensus pattern (8 bp):
GGCGCGTG
Found at i:93820758 original size:21 final size:20
Alignment explanation
Indices: 93820729--93820767 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
93820719 TAGAGTTTTA
93820729 TTTTTATTTTATTT-TAATCC
1 TTTTTATTTT-TTTATAATCC
93820749 TTTTTAATTTTTTTATAAT
1 TTTTT-ATTTTTTTATAAT
93820768 TTATTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTATTTTTTTATAATCC
Found at i:93820807 original size:22 final size:23
Alignment explanation
Indices: 93820768--93820822 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 23
93820758 TTTTTATAAT
*
93820768 TTATTTATTTTAAATACTATAAATA
1 TTATTTATTTT--ATACTATAAACA
93820793 TTATTTATTTT-TACTATAAACA
1 TTATTTATTTTATACTATAAACA
93820815 TTATTTAT
1 TTATTTAT
93820823 GTATGTAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 18 0.62
25 11 0.38
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (23 bp):
TTATTTATTTTATACTATAAACA
Found at i:93820850 original size:12 final size:12
Alignment explanation
Indices: 93820833--93821003 Score: 79
Period size: 12 Copynumber: 15.1 Consensus size: 12
93820823 GTATGTAAAA
93820833 ATTATTATATAT
1 ATTATTATATAT
93820845 ATTATT-T-T-T
1 ATTATTATATAT
*
93820854 ATTTTTATAT-T
1 ATTATTATATAT
93820865 A-T-TTAT-TAT
1 ATTATTATATAT
*
93820874 ATTATT-TACAT
1 ATTATTATATAT
*
93820885 TTTATTATATAT
1 ATTATTATATAT
* *
93820897 TTTGATTTATACAT
1 ATT-A-TTATATAT
*
93820911 TTTATTATATAT
1 ATTATTATATAT
93820923 CATTTTATTATATAT
1 -A--TTATTATATAT
93820938 ATTATTCAT-TAT
1 ATTATT-ATATAT
93820950 ATT-TT-T-TAT
1 ATTATTATATAT
*
93820959 TTTATTATATAT
1 ATTATTATATAT
*
93820971 -TATATAAT-TAT
1 AT-TATTATATAT
93820982 -TTATTAT-T-T
1 ATTATTATATAT
*
93820991 ATTATTATGTAT
1 ATTATTATATAT
93821003 A
1 A
93821004 ATTTTAAAAA
Statistics
Matches: 129, Mismatches: 10, Indels: 40
0.72 0.06 0.22
Matches are distributed among these distances:
8 1 0.01
9 19 0.15
10 20 0.16
11 22 0.17
12 41 0.32
13 4 0.03
14 11 0.09
15 11 0.09
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (12 bp):
ATTATTATATAT
Found at i:93820871 original size:7 final size:7
Alignment explanation
Indices: 93820834--93820996 Score: 62
Period size: 7 Copynumber: 21.1 Consensus size: 7
93820824 TATGTAAAAA
93820834 TTATTAT
1 TTATTAT
93820841 ATATATTAT
1 -T-TATTAT
93820850 TT-TTAT
1 TTATTAT
93820856 TT-TTAT
1 TTATTAT
93820862 ATTATTTAT
1 -TTA-TTAT
93820871 TATATTAT
1 T-TATTAT
*
93820879 TTACATTTT
1 TT--ATTAT
93820888 ATTATATAT
1 -TTAT-TAT
*
93820897 TT-TGAT
1 TTATTAT
*
93820903 TTATACATT
1 TTAT-TA-T
93820912 TTATTAT
1 TTATTAT
* *
93820919 ATATCATT
1 TTATTA-T
93820927 TTATTAT
1 TTATTAT
93820934 ATATATTAT
1 -T-TATTAT
*
93820943 TCATTATAT
1 TTA-T-TAT
*
93820952 TTTTTATT
1 TTATTA-T
93820960 TTATTAT
1 TTATTAT
*
93820967 ATATTAT
1 TTATTAT
*
93820974 ATAATTAT
1 -TTATTAT
93820982 TTATTAT
1 TTATTAT
93820989 TTATTAT
1 TTATTAT
93820996 T
1 T
93820997 ATGTATAATT
Statistics
Matches: 119, Mismatches: 17, Indels: 39
0.68 0.10 0.22
Matches are distributed among these distances:
6 14 0.12
7 36 0.30
8 34 0.29
9 33 0.28
10 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (7 bp):
TTATTAT
Found at i:93820890 original size:19 final size:19
Alignment explanation
Indices: 93820866--93820940 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
93820856 TTTTATATTA
93820866 TTTATTATATTATTTACAT
1 TTTATTATATTATTTACAT
**
93820885 TTTATTATA-TATTTTGAT
1 TTTATTATATTATTTACAT
* *
93820903 TTATACATTTTATTATATATCAT
1 TT-T--ATTATATTATTTA-CAT
93820926 TTTATTATATATATT
1 TTTATTATAT-TATT
93820941 ATTCATTATA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
18 9 0.21
19 10 0.24
20 6 0.14
21 8 0.19
22 5 0.12
23 4 0.10
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (19 bp):
TTTATTATATTATTTACAT
Found at i:93820892 original size:14 final size:14
Alignment explanation
Indices: 93820873--93820951 Score: 83
Period size: 14 Copynumber: 5.6 Consensus size: 14
93820863 TTATTTATTA
*
93820873 TATTATTTACATTT
1 TATTATATACATTT
93820887 TATTATAT--ATTT
1 TATTATATACATTT
93820899 TGATT-TATACATTT
1 T-ATTATATACATTT
93820913 TATTATATATCATTT
1 TATTATATA-CATTT
*
93820928 TATTATATATATTAT
1 TATTATATACATT-T
93820943 TCATTATAT
1 T-ATTATAT
93820952 TTTTTATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.14
13 6 0.11
14 19 0.34
15 16 0.29
16 7 0.12
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (14 bp):
TATTATATACATTT
Found at i:93820965 original size:33 final size:31
Alignment explanation
Indices: 93820834--93820970 Score: 97
Period size: 33 Copynumber: 4.4 Consensus size: 31
93820824 TATGTAAAAA
93820834 TTATTATATATATTATT-TT-TATTTTTATATTAT
1 TTATTATATATATT-TTATTATATTTTT-TA-T-T
* * * *
93820867 TTATTATAT-TATTTACATTTTATTATATATT
1 TTATTATATATATTT-TATTATATTTTTTATT
* * *
93820898 TTGATT-TATACATTTTATTATA--TATCATT
1 TT-ATTATATATATTTTATTATATTTTTTATT
93820927 TTATTATATATATTATTCATTATATTTTTTATT
1 TTATTATATATATT-TT-ATTATATTTTTTATT
93820960 TTATTATATAT
1 TTATTATATAT
93820971 TATATAATTA
Statistics
Matches: 81, Mismatches: 13, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
28 3 0.04
29 12 0.15
30 2 0.02
31 18 0.22
32 12 0.15
33 29 0.36
34 5 0.06
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (31 bp):
TTATTATATATATTTTATTATATTTTTTATT
Found at i:93821399 original size:18 final size:18
Alignment explanation
Indices: 93821376--93821410 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93821366 ATCTCATAAA
*
93821376 TTATTTGTTATTTTTATG
1 TTATTTATTATTTTTATG
*
93821394 TTATTTATTGTTTTTAT
1 TTATTTATTATTTTTAT
93821411 ATATTCGCAT
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:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (18 bp):
TTATTTATTATTTTTATG
Found at i:93825899 original size:27 final size:27
Alignment explanation
Indices: 93825869--93826046 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
93825859 ATATTGAGTC
* * *
93825869 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
93825896 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
93825923 CGCACACTTAGTGCTACATAGTCAATCT
1 CGCACACTTAGTGCTACATAGTCAA-CT
** * *
93825951 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
93825978 CGCACACTTAGTGC-ATCATATTCATCT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
93826005 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
93826032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93826047 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:93826008 original size:82 final size:81
Alignment explanation
Indices: 93825890--93826045 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
93825880 TGCTATATAA
* * *
93825890 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAATCTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAA-ATCGCA
93825955 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
93825972 TCAATTCGCACACTTAGTGC-ATCATATTCATCTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
93826036 CACTTAGTGC
65 CACTTAGTGC
93826046 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:93834744 original size:14 final size:15
Alignment explanation
Indices: 93834713--93834746 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
93834703 TTTTTTCTAT
*
93834713 TTTAATTTTTTGAAA
1 TTTAATCTTTTGAAA
93834728 TTTAATCTTTT-AAA
1 TTTAATCTTTTGAAA
93834742 TTTAA
1 TTTAA
93834747 AATTTTAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTAATCTTTTGAAA
Found at i:93835110 original size:21 final size:20
Alignment explanation
Indices: 93835076--93835115 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
93835066 TTCTTGAAAC
*
93835076 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCGTGTGGA
93835096 AGGGCAACACACCCGTGTGG
1 AGGGC-ACACACCCGTGTGG
93835116 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCGTGTGGA
Found at i:93836349 original size:47 final size:48
Alignment explanation
Indices: 93836280--93836543 Score: 201
Period size: 49 Copynumber: 5.6 Consensus size: 48
93836270 TATAATGCTA
*
93836280 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTATC-AAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTATCGAAGCCG
* * *
93836327 ATGCCATGTCCCAGACATGGTCTTACACT-GACT-ATCGAATTCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATC-TA-TCGAAGCCG
** * * * *
93836376 ACACCATGTCCCAAACATGGTCTTACACTAGCTCCATATATCTATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCT-CATCTATCGAAGCCG
* * * *
93836425 ATGCCATATCCCAGACGTGGTCTTACACT-GACACATC--TCGTAGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCTATCGAAGCCG
* * * * *
93836471 ATG-CATGTCTCAGACAT-GTCTTACACTGGCTTA-CGTCA-CGAGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-T-ATCGAAGCCG
*
93836517 ATG-CATGTCCCAAACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
93836544 GGTACACAAA
Statistics
Matches: 172, Mismatches: 32, Indels: 27
0.74 0.14 0.12
Matches are distributed among these distances:
43 1 0.01
44 12 0.07
45 12 0.07
46 43 0.25
47 32 0.19
48 6 0.03
49 62 0.36
50 2 0.01
51 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTATCGAAGCCG
Found at i:93845804 original size:18 final size:19
Alignment explanation
Indices: 93845770--93845805 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
93845760 CTTAGATCCA
*
93845770 TTTATTTTTATTTCATTTT
1 TTTATTTTTATTCCATTTT
93845789 TTTATTTTT-TTCCATTT
1 TTTATTTTTATTCCATTT
93845806 CCTGATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTATTTTTATTCCATTTT
Found at i:93850725 original size:21 final size:21
Alignment explanation
Indices: 93850701--93850741 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
93850691 TTTCCTATGA
93850701 TATGAATTGGACTAAATTGAG
1 TATGAATTGGACTAAATTGAG
* *
93850722 TATGAATTGTATTAAATTGA
1 TATGAATTGGACTAAATTGA
93850742 TGTTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (21 bp):
TATGAATTGGACTAAATTGAG
Found at i:93853466 original size:26 final size:26
Alignment explanation
Indices: 93853437--93853591 Score: 110
Period size: 26 Copynumber: 6.2 Consensus size: 26
93853427 TATCTAGAGA
93853437 TCCTGATTAAAGGCTCTTTGTGAGCT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
* * * *
93853463 TCCTAATTAAAAGTTCTTTGTGAACT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
* *
93853489 TCCTGATT-ATGGCT-TTTATGAGCT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
**** *
93853513 TCCT-ATTATATA-GC-CCGAATAAGCT
1 TCCTGATTA-A-AGGCTCTTTGTGAGCT
93853538 TCCTGA-T--AGGCTCTTTGTGAGCT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
* * *
93853561 TCCCGATTAATGCCTCTTTGTGAGCT
1 TCCTGATTAAAGGCTCTTTGTGAGCT
93853587 TCCTG
1 TCCTG
93853592 TTACATGGCT
Statistics
Matches: 95, Mismatches: 24, Indels: 20
0.68 0.17 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 14 0.15
24 13 0.14
25 17 0.18
26 48 0.51
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (26 bp):
TCCTGATTAAAGGCTCTTTGTGAGCT
Found at i:93858782 original size:8 final size:7
Alignment explanation
Indices: 93858769--93858808 Score: 53
Period size: 8 Copynumber: 5.3 Consensus size: 7
93858759 AATTGAGTTC
93858769 AAAATATA
1 AAAATA-A
93858777 AAAATATA
1 AAAATA-A
93858785 AAAATAA
1 AAAATAA
93858792 TAAAATAA
1 -AAAATAA
93858800 AAAATAA
1 AAAATAA
93858807 AA
1 AA
93858809 TAAGATTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 10 0.32
8 21 0.68
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAAATAA
Found at i:93858802 original size:15 final size:16
Alignment explanation
Indices: 93858777--93858806 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93858767 TCAAAATATA
93858777 AAAATATAAAAATAAT
1 AAAATATAAAAATAAT
93858793 AAAATA-AAAAATAA
1 AAAATATAAAAATAA
93858807 AATAAGATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAATATAAAAATAAT
Found at i:93859869 original size:14 final size:14
Alignment explanation
Indices: 93859850--93859876 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
93859840 GGTAAAACAT
93859850 AATAAAATAAAAAG
1 AATAAAATAAAAAG
93859864 AATAAAATAAAAA
1 AATAAAATAAAAA
93859877 TAAGTAAGTC
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:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AATAAAATAAAAAG
Found at i:93861286 original size:37 final size:37
Alignment explanation
Indices: 93861236--93861309 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
93861226 TGAGTAAGCT
93861236 TTAATAAGCTTAGTAAGTTCGCAGTTTAAAATGATAA
1 TTAATAAGCTTAGTAAGTTCGCAGTTTAAAATGATAA
93861273 TTAATAAGCTTAGTAAGTTCGCAGTTTAAAATGATAA
1 TTAATAAGCTTAGTAAGTTCGCAGTTTAAAATGATAA
93861310 AACTTACTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (37 bp):
TTAATAAGCTTAGTAAGTTCGCAGTTTAAAATGATAA
Found at i:93863824 original size:40 final size:40
Alignment explanation
Indices: 93863780--93863886 Score: 196
Period size: 40 Copynumber: 2.7 Consensus size: 40
93863770 CAACTCGCAC
*
93863780 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
*
93863820 AAATGCCTTCGGGACTTAGGCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
93863860 AAATGCCTTCGGGACTTAGCCCGGATA
1 AAATGCCTTCGGGACTTAGCCCGGATA
93863887 TCATTCAAAT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.23
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:93884799 original size:14 final size:16
Alignment explanation
Indices: 93884767--93884805 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
93884757 TAAATAATTA
93884767 TATTATTTATCATATAT
1 TATTATTTA-CATATAT
93884784 TATTATTTA-ATA-AT
1 TATTATTTACATATAT
93884798 TATTATTT
1 TATTATTT
93884806 TGGTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 3 0.14
17 9 0.41
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTTACATATAT
Found at i:93885115 original size:8 final size:9
Alignment explanation
Indices: 93885094--93885118 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
93885084 AATATTAAAT
93885094 TTTTTTATA
1 TTTTTTATA
93885103 TTTTTTATA
1 TTTTTTATA
93885112 TTTTTTA
1 TTTTTTA
93885119 ATGATGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTATA
Found at i:93885173 original size:28 final size:26
Alignment explanation
Indices: 93885142--93885201 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
93885132 AAAAATTCTA
* *
93885142 TTTTTAATAATTTTAATTTTTTATATATT
1 TTTTTAA-AATTTAAAATTTTT-TAT-TT
93885171 TTTATTAAAATTTAAAATTTTTTATTT
1 TTT-TTAAAATTTAAAATTTTTTATTT
93885198 TTTT
1 TTTT
93885202 ATATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
26 1 0.04
27 5 0.18
28 3 0.11
29 15 0.54
30 4 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (26 bp):
TTTTTAAAATTTAAAATTTTTTATTT
Found at i:93887507 original size:51 final size:51
Alignment explanation
Indices: 93887431--93887533 Score: 188
Period size: 51 Copynumber: 2.0 Consensus size: 51
93887421 TCTATGGTAG
93887431 AGATAATCTCTCATTCAAGGAAGTGAAGGGTCATCTGTTGAGAAAAGACAA
1 AGATAATCTCTCATTCAAGGAAGTGAAGGGTCATCTGTTGAGAAAAGACAA
* *
93887482 AGATAATCTCTCATTCGAGGAAGTGAAGGGTCATCTGTTGAGAAAAGGCAA
1 AGATAATCTCTCATTCAAGGAAGTGAAGGGTCATCTGTTGAGAAAAGACAA
93887533 A
1 A
93887534 CTCAACAATG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (51 bp):
AGATAATCTCTCATTCAAGGAAGTGAAGGGTCATCTGTTGAGAAAAGACAA
Found at i:93891618 original size:17 final size:17
Alignment explanation
Indices: 93891596--93891630 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
93891586 TAATCGTTTA
93891596 ATGGGTGTATTTTTTCT
1 ATGGGTGTATTTTTTCT
93891613 ATGGGTGTATTTTTTCT
1 ATGGGTGTATTTTTTCT
93891630 A
1 A
93891631 AGGTTGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.06, G:0.23, T:0.57
Consensus pattern (17 bp):
ATGGGTGTATTTTTTCT
Found at i:93891638 original size:17 final size:17
Alignment explanation
Indices: 93891598--93891638 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
93891588 ATCGTTTAAT
*
93891598 GGGTGTATTTTTTCTAT
1 GGGTGTATTTTTTCTAA
93891615 GGGTGTATTTTTTCTAA
1 GGGTGTATTTTTTCTAA
*
93891632 GGTTGTA
1 GGGTGTA
93891639 AAAGAATCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.05, G:0.27, T:0.54
Consensus pattern (17 bp):
GGGTGTATTTTTTCTAA
Found at i:93906486 original size:40 final size:40
Alignment explanation
Indices: 93906434--93906666 Score: 281
Period size: 40 Copynumber: 5.8 Consensus size: 40
93906424 ATTACCACAA
* * ** *
93906434 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
93906474 GCACGAATGCCTTCGGGTCTTAGCCAGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
93906514 GCA-AAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
1 GCACAAA-TGCCTTCGGGTCTTAGCCCGG--ATATATCAACTC
*
93906556 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
93906596 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * *
93906636 ACACAATTGCCTTCAGGACTTAGCCCGGATA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATA
93906667 AAATTCAAAT
Statistics
Matches: 169, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
39 3 0.02
40 125 0.74
41 4 0.02
42 34 0.20
43 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:93906580 original size:82 final size:83
Alignment explanation
Indices: 93906434--93906626 Score: 279
Period size: 82 Copynumber: 2.4 Consensus size: 83
93906424 ATTACCACAA
* * * *
93906434 GCAC-AATTGCCTTCGGGTCTTAACCCGG--GCATAGCAACTCGCACGAATGCCTTCGGGTCTTA
1 GCACAAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTA
*
93906496 GCCAGGATATATCAACTT
66 GCCAGGATATATCAACTC
* *
93906514 GCA-AAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCTTA
1 GCACAAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTA
*
93906578 GCCCGGATATATCAACTC
66 GCCAGGATATATCAACTC
93906596 GCACAAA-TGCCTTCGGGTCTTAGCCCGGATA
1 GCACAAATTGCCTTCGGGTCTTAGCCCGGATA
93906627 AAATCACTAA
Statistics
Matches: 101, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
80 26 0.26
82 72 0.71
83 3 0.03
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.25
Consensus pattern (83 bp):
GCACAAATTGCCTTCGGGTCTTAGCCCGGATACATAGCAACTCGCACAAATGCCTGCGGGTCTTA
GCCAGGATATATCAACTC
Found at i:93906658 original size:122 final size:122
Alignment explanation
Indices: 93906434--93906666 Score: 324
Period size: 122 Copynumber: 1.9 Consensus size: 122
93906424 ATTACCACAA
* * * *
93906434 GCACAATTGCCTTCGGGTCTTAACCCGGGCATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* ** * *
93906499 AGGATATATCAACTTGCAAAATTGCCTTCGGGTCTTAGCCCGGATATATATCAACTC
66 AGGATAAATCAACTAACAAAATTGCCTTCAGGACTTAGCCCGGATATATATCAACTC
* * *
93906556 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
* *
93906621 CGGATAAAATC-ACTAACACAATTGCCTTCAGGACTTAGCCCGGATA
66 AGGAT-AAATCAACTAACAAAATTGCCTTCAGGACTTAGCCCGGATA
93906667 AAATTCAAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
122 92 0.96
123 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (122 bp):
GCACAAATGCCTGCGGGTCTTAACCCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCC
AGGATAAATCAACTAACAAAATTGCCTTCAGGACTTAGCCCGGATATATATCAACTC
Found at i:93909773 original size:30 final size:30
Alignment explanation
Indices: 93909737--93909796 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
93909727 GAAAACCAAG
*
93909737 TAAGCATTTAATGCTTAGTAAGTTCGTATA
1 TAAGCATTTAATGCTTAGTAAGTTCATATA
*
93909767 TAAGCATTTAATGTTTAGTAAGTTCATATA
1 TAAGCATTTAATGCTTAGTAAGTTCATATA
93909797 AAAGGAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (30 bp):
TAAGCATTTAATGCTTAGTAAGTTCATATA
Found at i:93910454 original size:13 final size:13
Alignment explanation
Indices: 93910436--93910460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93910426 TCGAGCACAC
93910436 GCCCGTGTCCCTG
1 GCCCGTGTCCCTG
93910449 GCCCGTGTCCCT
1 GCCCGTGTCCCT
93910461 CAGACGGCCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.48, G:0.28, T:0.24
Consensus pattern (13 bp):
GCCCGTGTCCCTG
Found at i:93910715 original size:31 final size:31
Alignment explanation
Indices: 93910677--93910737 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
93910667 GACACATGAC
93910677 TGAGCGACACGCCCAAAGGGTTGGCCGTGTA
1 TGAGCGACACGCCCAAAGGGTTGGCCGTGTA
93910708 TGAGCGACACGCCCAAAGGGTTGGCCGTGT
1 TGAGCGACACGCCCAAAGGGTTGGCCGTGT
93910738 GTCACACAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.26, G:0.36, T:0.16
Consensus pattern (31 bp):
TGAGCGACACGCCCAAAGGGTTGGCCGTGTA
Found at i:93910996 original size:33 final size:33
Alignment explanation
Indices: 93910950--93911016 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
93910940 GTATTTAGGA
93910950 TTACCACTCCAATAATCACATTTTATACTTGGC
1 TTACCACTCCAATAATCACATTTTATACTTGGC
*
93910983 TTACCACTTCAATAATCACATTTTATACTTGGC
1 TTACCACTCCAATAATCACATTTTATACTTGGC
93911016 T
1 T
93911017 CGTTTTATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (33 bp):
TTACCACTCCAATAATCACATTTTATACTTGGC
Found at i:93917407 original size:56 final size:56
Alignment explanation
Indices: 93917340--93918187 Score: 1687
Period size: 56 Copynumber: 15.1 Consensus size: 56
93917330 TATTAGTTTA
*
93917340 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917396 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917452 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917508 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917564 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917620 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917676 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917732 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917788 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917844 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917900 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93917956 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93918012 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93918068 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93918124 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
93918180 TTGCCCAT
1 TTGCCCAT
93918188 CATCCCTTGT
Statistics
Matches: 791, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 791 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:93924966 original size:29 final size:30
Alignment explanation
Indices: 93924899--93925063 Score: 116
Period size: 29 Copynumber: 5.7 Consensus size: 30
93924889 CCACTGACCG
* **
93924899 ATCTCGCACACATAGTG-CTCGGTTGAA-GA
1 ATCTCGCACACACAGTGCCTCAATT-AACGA
*
93924928 A-CTCGCACACACAGTGCCTCAATT-ACCA
1 ATCTCGCACACACAGTGCCTCAATTAACGA
* * ** *
93924956 ATCTCGCACACATAATG-CTCGGTTAAAGGA
1 ATCTCGCACACACAGTGCCTCAATT-AACGA
93924986 AT-TCGCACACACAGTGCCTCAATT-ACTG-
1 ATCTCGCACACACAGTGCCTCAATTAAC-GA
* *
93925014 ATCTCGCACACATAGTG-CTCGATTAACGGA
1 ATCTCGCACACACAGTGCCTCAATTAAC-GA
*
93925044 AT-TTGCACACACAGTGCCTC
1 ATCTCGCACACACAGTGCCTC
93925064 TAATCATTCG
Statistics
Matches: 105, Mismatches: 20, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
27 1 0.01
28 30 0.29
29 60 0.57
30 14 0.13
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.23
Consensus pattern (30 bp):
ATCTCGCACACACAGTGCCTCAATTAACGA
Done.