Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 66 of 203
Found at i:21177512 original size:11 final size:12
Alignment explanation
Indices: 21177486--21177517 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
21177476 AACATTTAGC
21177486 TTTTAGTTATAA
1 TTTTAGTTATAA
21177498 TTTTAGTTA-AA
1 TTTTAGTTATAA
21177509 TTTTA-TTAT
1 TTTTAGTTAT
21177518 TAGTCCCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 7 0.37
12 9 0.47
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.62
Consensus pattern (12 bp):
TTTTAGTTATAA
Found at i:21177680 original size:14 final size:14
Alignment explanation
Indices: 21177661--21177687 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21177651 AAATATTATA
21177661 GTTAAATTCATTTG
1 GTTAAATTCATTTG
21177675 GTTAAATTCATTT
1 GTTAAATTCATTT
21177688 ACTAGTCCTA
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:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (14 bp):
GTTAAATTCATTTG
Found at i:21184777 original size:68 final size:68
Alignment explanation
Indices: 21184697--21184827 Score: 226
Period size: 68 Copynumber: 1.9 Consensus size: 68
21184687 TATCAAGGTA
* *
21184697 AAATCTGCTAACTGAATGTCTTCCTCTTTTCGTAGGTGGGAATTATCTTTATTTACGATTTTGAG
1 AAATCTGATAACTGAATGTCTTCCTCTTTTCGTAGGTGAGAATTATCTTTATTTACGATTTTGAG
21184762 GGT
66 GGT
* *
21184765 AAATCTGATAACTGAATGTCTTCCTCTTTTCGTTGGTGAGAATTGTCTTTATTTACGATTTTG
1 AAATCTGATAACTGAATGTCTTCCTCTTTTCGTAGGTGAGAATTATCTTTATTTACGATTTTG
21184828 TGAACTGGCG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 59 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (68 bp):
AAATCTGATAACTGAATGTCTTCCTCTTTTCGTAGGTGAGAATTATCTTTATTTACGATTTTGAG
GGT
Found at i:21185751 original size:29 final size:32
Alignment explanation
Indices: 21185705--21185780 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 32
21185695 AAATTATAGA
* * *
21185705 TATTTCATATAAGCAAATCTATTAATTATAAT-T
1 TATTTCA-ATAA-AAAATATATTAATTAAAATAT
*
21185738 TA-TT-AATAAAAAATATTTTAATTAAAATAT
1 TATTTCAATAAAAAATATATTAATTAAAATAT
21185768 TATTTCAATAAAA
1 TATTTCAATAAAA
21185781 TGTTTAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
29 15 0.42
30 7 0.19
31 3 0.08
32 9 0.25
33 2 0.06
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (32 bp):
TATTTCAATAAAAAATATATTAATTAAAATAT
Found at i:21191513 original size:42 final size:42
Alignment explanation
Indices: 21191400--21191528 Score: 124
Period size: 42 Copynumber: 3.1 Consensus size: 42
21191390 TCATATAAGT
* * *
21191400 TTTC-GTTCAGCTC-TATTGAGCTTCTGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTTA-AGAGCTTTTGTTCAACCCTTATGGG
** * *
21191441 TTTCCATTCAGCTCTTAAGAGCTCTCGTTCAACCCTTATGGG
1 TTTCTGTTCAGCTCTTAAGAGCTTTTGTTCAACCCTTATGGG
* *
21191483 TTTCTGTTTAGCTTTTATA-AGCTTTTGTTC-ACCCTTA-GGG
1 TTTCTGTTCAGCTCTTA-AGAGCTTTTGTTCAACCCTTATGGG
21191523 TTTCTG
1 TTTCTG
21191529 ATAATGATGT
Statistics
Matches: 73, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
40 9 0.12
41 11 0.15
42 50 0.68
43 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTAAGAGCTTTTGTTCAACCCTTATGGG
Found at i:21197564 original size:25 final size:25
Alignment explanation
Indices: 21197528--21197589 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
21197518 CCCACAACTT
*
21197528 GTGAGAGTATACCGATTTACAGCTC
1 GTGAGAGCATACCGATTTACAGCTC
21197553 GTGAGAGCATACCGATTTACAGCTC
1 GTGAGAGCATACCGATTTACAGCTC
* *
21197578 ATGTGAGCATAC
1 GTGAGAGCATAC
21197590 ATGTGCAGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (25 bp):
GTGAGAGCATACCGATTTACAGCTC
Found at i:21197698 original size:79 final size:79
Alignment explanation
Indices: 21197567--21197724 Score: 316
Period size: 79 Copynumber: 2.0 Consensus size: 79
21197557 GAGCATACCG
21197567 ATTTACAGCTCATGTGAGCATACATGTGCAGGATTTGACTGATTACAGTTATATGATTTAGCACA
1 ATTTACAGCTCATGTGAGCATACATGTGCAGGATTTGACTGATTACAGTTATATGATTTAGCACA
21197632 TTATGTGTGACCTA
66 TTATGTGTGACCTA
21197646 ATTTACAGCTCATGTGAGCATACATGTGCAGGATTTGACTGATTACAGTTATATGATTTAGCACA
1 ATTTACAGCTCATGTGAGCATACATGTGCAGGATTTGACTGATTACAGTTATATGATTTAGCACA
21197711 TTATGTGTGACCTA
66 TTATGTGTGACCTA
21197725 TCCTGGGTAT
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 79 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (79 bp):
ATTTACAGCTCATGTGAGCATACATGTGCAGGATTTGACTGATTACAGTTATATGATTTAGCACA
TTATGTGTGACCTA
Found at i:21198285 original size:26 final size:25
Alignment explanation
Indices: 21198230--21198285 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
21198220 CGATTGTTGG
* *
21198230 CCATGTGTTTTGGTTGTTGAAATGG
1 CCATTTGTTTTGGTTGTTGAAATGA
*
21198255 CCATTTGTTTTGGCTTG-TGATATGA
1 CCATTTGTTTTGG-TTGTTGAAATGA
21198280 CACATT
1 C-CATT
21198286 AATGATGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.18, C:0.12, G:0.25, T:0.45
Consensus pattern (25 bp):
CCATTTGTTTTGGTTGTTGAAATGA
Found at i:21200212 original size:22 final size:22
Alignment explanation
Indices: 21200178--21200281 Score: 93
Period size: 22 Copynumber: 4.7 Consensus size: 22
21200168 ATGCAATTTT
* *
21200178 CACTATGGTGCCTACTGATTCG
1 CACTACGGTGCCTACTAATTCG
* *
21200200 CAGTACGGTGCCTACTAATTTG
1 CACTACGGTGCCTACTAATTCG
* *
21200222 CTCTACAGTGCCTACTAATTCG
1 CACTACGGTGCCTACTAATTCG
* * ***
21200244 CACTTCGATGCCTA-TCGCTCAG
1 CACTACGGTGCCTACTAATTC-G
21200266 CACTACGGTGCCTACT
1 CACTACGGTGCCTACT
21200282 GGTGTGGTGT
Statistics
Matches: 63, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
21 3 0.05
22 59 0.94
23 1 0.02
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.30
Consensus pattern (22 bp):
CACTACGGTGCCTACTAATTCG
Found at i:21202475 original size:9 final size:9
Alignment explanation
Indices: 21202461--21202574 Score: 167
Period size: 9 Copynumber: 12.7 Consensus size: 9
21202451 TTTGGTTAAA
21202461 AATTAACCG
1 AATTAACCG
*
21202470 AATTAACCA
1 AATTAACCG
21202479 AATTAACCG
1 AATTAACCG
*
21202488 AATTACCCG
1 AATTAACCG
21202497 AATTAACCG
1 AATTAACCG
21202506 AATT-ACTCG
1 AATTAAC-CG
21202515 AATTAACCG
1 AATTAACCG
21202524 AATTAACCG
1 AATTAACCG
*
21202533 AATTACCCG
1 AATTAACCG
*
21202542 AATTACCCG
1 AATTAACCG
21202551 AATTAACCG
1 AATTAACCG
*
21202560 AATTAACCT
1 AATTAACCG
21202569 AATTAA
1 AATTAA
21202575 ATCATACATA
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
8 2 0.02
9 92 0.96
10 2 0.02
ACGTcount: A:0.43, C:0.24, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:21204259 original size:68 final size:68
Alignment explanation
Indices: 21204143--21204463 Score: 329
Period size: 68 Copynumber: 4.7 Consensus size: 68
21204133 TAGGTGCACA
* * * *
21204143 ACACCATACCGTGTAAGACCATAGCTGGGCTATGGCAACATATAAAGTCTGCGAGGACAATAAAC
1 ACACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCTGCGAAGACAGTAAAC
21204208 ATG
66 ATG
** * * * **
21204211 GTACCATATCATGTAAAACCATAGCTGGGTTATGGCAACATATGAAGTCCACCG-AGACAGTAAA
1 ACACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGT-CTGCGAAGACAGTAAA
21204275 CATG
65 CATG
* * * * * * * ** * *
21204279 ATACTATATCCTGTAAGACTATAGCTGGGATATGGCAACATATGAAGCCCGTTAAGATAGTTAAC
1 ACACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCTGCGAAGACAGTAAAC
21204344 ATG
66 ATG
* * * * * * * *
21204347 ACACCATATCGTGTAAGACCATAGTTGGGCTATAGAAATATATGAATTTTGCCAAGATAGTAAAC
1 ACACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCTGCGAAGACAGTAAAC
21204412 ATG
66 ATG
* * *
21204415 GCACTATATCGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTC
1 ACACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTC
21204464 CACTAGGACA
Statistics
Matches: 202, Mismatches: 49, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
67 1 0.00
68 198 0.98
69 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (68 bp):
ACACCATATCGTGTAAGACCATAGCTGGGCTATGGCAACATATGAAGTCTGCGAAGACAGTAAAC
ATG
Found at i:21207209 original size:2 final size:2
Alignment explanation
Indices: 21207198--21207227 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
21207188 ATCATGCATG
21207198 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21207228 CACTCAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21208603 original size:12 final size:12
Alignment explanation
Indices: 21208586--21208638 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
21208576 ATATCAAATC
21208586 TAAAGTATGATT
1 TAAAGTATGATT
* *
21208598 TAAAGTATAATAAA
1 TAAAGTATGAT--T
*
21208612 TAAAATATGATT
1 TAAAGTATGATT
21208624 TAAAGTATGATT
1 TAAAGTATGATT
21208636 TAA
1 TAA
21208639 TGTTAAAAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 24 0.73
14 9 0.27
ACGTcount: A:0.51, C:0.00, G:0.11, T:0.38
Consensus pattern (12 bp):
TAAAGTATGATT
Found at i:21209139 original size:30 final size:29
Alignment explanation
Indices: 21209105--21209161 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
21209095 TTAGTAGATC
21209105 AAATAAACTATACTAATAAATACTAAATAT
1 AAATAAACTATACTAA-AAATACTAAATAT
* * *
21209135 AAATATATTATACTCAAAATACTAAAT
1 AAATAAACTATACTAAAAATACTAAAT
21209162 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.46
30 13 0.54
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATAAACTATACTAAAAATACTAAATAT
Found at i:21211853 original size:55 final size:52
Alignment explanation
Indices: 21211786--21211958 Score: 132
Period size: 55 Copynumber: 3.4 Consensus size: 52
21211776 TACTTTACCT
*
21211786 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAA
1 TTTTTTACAATTTAATATTATAATCTA-TTTCTTAAAATT-ATATTTTATCTAA
* * * *
21211840 TTTTTTACTAATTTACTATTGGT--TGT-TTTC-CAAATATT-T-TTTT-TCT--
1 TTTTTTAC-AATTTAATATT-ATAATCTATTTCTTAAA-ATTATATTTTATCTAA
*
21211886 TTTTTT-CAATTTAATATTATAATTTATTTTCTTAAAATTCATATTTTATCTAA
1 TTTTTTACAATTTAATATTATAATCTA-TTTCTTAAAATT-ATATTTTATCTAA
* *
21211939 TTATTTACTAATTTACTATT
1 TTTTTTAC-AATTTAATATT
21211959 GGTTGTTTCC
Statistics
Matches: 92, Mismatches: 11, Indels: 31
0.69 0.08 0.23
Matches are distributed among these distances:
43 1 0.01
44 10 0.11
45 3 0.03
46 6 0.07
47 7 0.08
48 6 0.07
49 5 0.05
50 5 0.05
51 6 0.07
52 7 0.08
53 5 0.05
54 10 0.11
55 20 0.22
56 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.59
Consensus pattern (52 bp):
TTTTTTACAATTTAATATTATAATCTATTTCTTAAAATTATATTTTATCTAA
Found at i:21211902 original size:99 final size:99
Alignment explanation
Indices: 21211786--21211981 Score: 347
Period size: 99 Copynumber: 2.0 Consensus size: 99
21211776 TACTTTACCT
*
21211786 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTTTTTACTAA
1 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAA
*
21211851 TTTACTATTGGTTGTTTTCCAAATATTTTTTTTC
66 TTTACTATTGGTTGTTTCCCAAATATTTTTTTTC
* * *
21211885 TTTTTTTCAATTTAATATTATAATTTATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAA
1 TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAA
21211950 TTTACTATTGGTTGTTTCCCAAATATTTTTTT
66 TTTACTATTGGTTGTTTCCCAAATATTTTTTT
21211982 GAGTTTCTAA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 92 1.00
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.59
Consensus pattern (99 bp):
TTTTTTTCAATTTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAA
TTTACTATTGGTTGTTTCCCAAATATTTTTTTTC
Found at i:21212002 original size:99 final size:99
Alignment explanation
Indices: 21211797--21212004 Score: 292
Period size: 99 Copynumber: 2.1 Consensus size: 99
21211787 TTTTTTCAAT
*
21211797 TTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTTTTTACTAATTTACTATTGG
1 TTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAATTTACTATTGG
* * * *** *
21211862 TTGTTTTCCAAATATTTTTTTTCTTTTTTTCAAT
66 TTGTTTCCCAAATATTTTTTTACTTTCTAAAAAA
* * *
21211896 TTAATATTATAATTTATTTTCTTAAAATTCATATTTTATCTAATTATTTACTAATTTACTATTGG
1 TTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAATTTACTATTGG
*
21211961 TTGTTTCCCAAATATTTTTTTGAGTTTCTAAAAAA
66 TTGTTTCCCAAATATTTTTTT-ACTTTCTAAAAAA
21211996 TT-ATATTAT
1 TTAATATTAT
21212005 TTAATGAATT
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 88 0.92
100 8 0.08
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (99 bp):
TTAATATTATAATCTACTTTCTTAAAATTAATATTTTATCTAATTATTTACTAATTTACTATTGG
TTGTTTCCCAAATATTTTTTTACTTTCTAAAAAA
Found at i:21215010 original size:43 final size:43
Alignment explanation
Indices: 21214955--21215119 Score: 190
Period size: 43 Copynumber: 3.9 Consensus size: 43
21214945 ATCATATACA
* * *
21214955 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * * *
21214997 ATGCCACTGTCCCAAACAGGGTCTTATATGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * *
21215039 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* *
21215082 ATGCCAATGTCCTAGACATGGTCTTACATGAAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
21215120 CCTCGGGACT
Statistics
Matches: 100, Mismatches: 21, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
42 40 0.40
43 60 0.60
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:21215087 original size:85 final size:84
Alignment explanation
Indices: 21214945--21215117 Score: 229
Period size: 85 Copynumber: 2.0 Consensus size: 84
21214935 AAACACATAT
* * * *
21214945 ATCATATACAATGCCATATCCCAGATATGGTCTTACATGTTATCACATATCGATGCCACTGTCCC
1 ATCATATACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCC
*
21215010 AAACAGGGTCTTATATGAA
66 AAACAGGGTCTTACATGAA
* * * *
21215029 ATCATATACGATGCCAATGTCCCAGACATGGTCTTATACGTAATCTCATATCGATGCCAATGTCC
1 ATCATATACAATGCC-ATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCC
* * *
21215094 TAGACATGGTCTTACATGAA
65 CAAACAGGGTCTTACATGAA
21215114 ATCA
1 ATCA
21215118 CACCTCGGGA
Statistics
Matches: 76, Mismatches: 12, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 14 0.18
85 62 0.82
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (84 bp):
ATCATATACAATGCCATATCCCAGACATGGTCTTACACGTAATCACATATCGATGCCAATGTCCC
AAACAGGGTCTTACATGAA
Found at i:21216232 original size:9 final size:9
Alignment explanation
Indices: 21216218--21216247 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
21216208 AATCAAATCA
21216218 AGTTATTCG
1 AGTTATTCG
21216227 AGTTATTCG
1 AGTTATTCG
*
21216236 AATTATTCG
1 AGTTATTCG
21216245 AGT
1 AGT
21216248 CAACTTGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.27, C:0.10, G:0.20, T:0.43
Consensus pattern (9 bp):
AGTTATTCG
Found at i:21216440 original size:19 final size:19
Alignment explanation
Indices: 21216389--21216473 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 19
21216379 TCTCTTAACG
* *
21216389 AAAAATCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
*
21216408 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTT
*
21216428 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTTT
21216446 AGAAATTCTAAAATTTATATTTTT
1 A-AAATTC-AAAA--TA-ATTTTT
21216470 AAAA
1 AAAA
21216474 AATTATAAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
18 6 0.11
19 17 0.32
20 20 0.38
22 1 0.02
23 3 0.06
24 6 0.11
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:21216461 original size:18 final size:19
Alignment explanation
Indices: 21216416--21216464 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
21216406 TCAAAATTTG
*
21216416 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
21216435 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
21216454 TAAA-ATTTATA
1 AAAATATTTATA
21216465 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:21216487 original size:18 final size:18
Alignment explanation
Indices: 21216455--21216525 Score: 65
Period size: 18 Copynumber: 3.8 Consensus size: 18
21216445 TAGAAATTCT
*
21216455 AAAATT-TATATTTTTAA
1 AAAATTATAAATTTTTAA
21216472 AAAATTATAAATTTTTAAA
1 AAAATTATAAATTTTT-AA
*
21216491 AAAATATATAAAAATTTTAA
1 AAAAT-TAT-AAATTTTTAA
*
21216511 TAAAATAAT-AATTTT
1 -AAAATTATAAATTTT
21216526 GAAATCTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
17 6 0.13
18 13 0.29
19 7 0.16
20 7 0.16
21 12 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AAAATTATAAATTTTTAA
Found at i:21216500 original size:20 final size:20
Alignment explanation
Indices: 21216464--21216525 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
21216454 TAAAATTTAT
21216464 ATTTTT-AAAAAAT-TATAA
1 ATTTTTAAAAAAATATATAA
21216482 ATTTTTAAAAAAATATATAAA
1 ATTTTTAAAAAAATATAT-AA
* *
21216503 AATTTTAATAAAATA-AT-A
1 ATTTTTAAAAAAATATATAA
21216521 ATTTT
1 ATTTT
21216526 GAAATCTAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.29
19 7 0.18
20 5 0.13
21 15 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATTTTTAAAAAAATATATAA
Found at i:21216840 original size:21 final size:21
Alignment explanation
Indices: 21216816--21216856 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21216806 ACCTTTTCTA
21216816 AAGTTAAAA-GTCAAAACTATC
1 AAGTTAAAAGGT-AAAACTATC
21216837 AAGTTAAAAGGTAAAACTAT
1 AAGTTAAAAGGTAAAACTAT
21216857 GTTGTTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.54, C:0.10, G:0.12, T:0.24
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATC
Found at i:21230397 original size:31 final size:31
Alignment explanation
Indices: 21230324--21230398 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
21230314 AACTTTAAGG
21230324 AAAGTTTAGAAACCTTCTAATCAAATCAAAA
1 AAAGTTTAGAAACCTTCTAATCAAATCAAAA
*
21230355 AAATTTTAGAAACCTTCTAATCAAATCAAAA
1 AAAGTTTAGAAACCTTCTAATCAAATCAAAA
* *
21230386 CAAGTTGAGAAAC
1 AAAGTTTAGAAAC
21230399 ACTTTGAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (31 bp):
AAAGTTTAGAAACCTTCTAATCAAATCAAAA
Found at i:21234191 original size:31 final size:31
Alignment explanation
Indices: 21234156--21234218 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
21234146 TATAAGTAAC
21234156 TAGCATTTGGATGTTATTTAATAGACATTAT
1 TAGCATTTGGATGTTATTTAATAGACATTAT
21234187 TAGCATTTGGATGTTATTTAATAGACATTAT
1 TAGCATTTGGATGTTATTTAATAGACATTAT
21234218 T
1 T
21234219 TAAGTGTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.46
Consensus pattern (31 bp):
TAGCATTTGGATGTTATTTAATAGACATTAT
Found at i:21242595 original size:13 final size:12
Alignment explanation
Indices: 21242576--21242618 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
21242566 TATATAACAA
21242576 TTATTTTTATAT
1 TTATTTTTATAT
*
21242588 TATATTTTTATTTT
1 T-TATTTTTA-TAT
21242602 TTATTTTT-TAT
1 TTATTTTTATAT
21242613 TTATTT
1 TTATTT
21242619 AGAATTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 8 0.30
12 1 0.04
13 15 0.56
14 3 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTATTTTTATAT
Found at i:21242605 original size:15 final size:15
Alignment explanation
Indices: 21242581--21242619 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 15
21242571 AACAATTATT
21242581 TTTATATTATATTTTTA
1 TTTAT-TTAT-TTTTTA
21242598 TTT-TTTATTTTTTA
1 TTTATTTATTTTTTA
21242612 TTTATTTA
1 TTTATTTA
21242620 GAATTTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 9 0.43
15 8 0.38
16 1 0.05
17 3 0.14
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTATTTTTTA
Found at i:21243050 original size:13 final size:13
Alignment explanation
Indices: 21243028--21243057 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21243018 CAATATTTAC
21243028 ATTTTCTTGTTAA
1 ATTTTCTTGTTAA
*
21243041 ATTTTTTTGTTAA
1 ATTTTCTTGTTAA
21243054 ATTT
1 ATTT
21243058 AACTATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (13 bp):
ATTTTCTTGTTAA
Found at i:21243663 original size:18 final size:18
Alignment explanation
Indices: 21243640--21243675 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
21243630 CGTGTCAGTG
21243640 TGAGTGTAAATAGTAACT
1 TGAGTGTAAATAGTAACT
*
21243658 TGAGTGTGAATAGTAACT
1 TGAGTGTAAATAGTAACT
21243676 ATCTAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.33
Consensus pattern (18 bp):
TGAGTGTAAATAGTAACT
Found at i:21247416 original size:272 final size:271
Alignment explanation
Indices: 21246891--21247424 Score: 870
Period size: 272 Copynumber: 2.0 Consensus size: 271
21246881 TACACTTTTT
* * * * * *
21246891 CTTGTAAATATTTGATATTGTTTCCTTTTTGTCATGTGATTCATTAATGAATCATATTAATGTGT
1 CTTGTAAATATTTGATATTGTTTCATTTTGGCCATATGATTCATTAATGAATCACATTAATATGT
* * *
21246956 ATTTTGTAAAGTCTTTAGGTTACCTAATATATATGTTTCATGTTGAATTTGTTAATAATTAGGAT
66 ATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTGAATTTGTTAATAATTAGGAT
* * * *
21247021 GTTTTAGACCTCATTGAAAATGTATGTTGGATTTTACAGATTGTTTTAGTATTGTATCAACTGGA
131 GTTTCAGACCTAATTGAAAATGTATGTTGGATCTTACAGACTGTTTTAGTATTGTATCAACTGGA
21247086 TTTGGTTTGTATTGTTAACTATATATCTCTAGTAAAAGAAATTTATGATAGAGCCTACTATTACT
196 TTTGGTTTGTATTGTTAACTATATATCTCTAGTAAAAGAAATTTATGATAGAGCCTACTATTACT
21247151 ATATACTCTTG
261 ATATACTCTTG
* * *
21247162 CTTGTAAATATTTTATATTGTTTCATTTTGGCCCTATGATTCATTAATGAATCACATTACTATGT
1 CTTGTAAATATTTGATATTGTTTCATTTTGGCCATATGATTCATTAATGAATCACATTAATATGT
*
21247227 ATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTGAATTTGTTGATAATTAGGAT
66 ATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTGAATTTGTTAATAATTAGGAT
* * * *
21247292 GTTATCGGACTTAATTGAAAATGTATGTTGGATCTTATAGACTGTTTTAGTATTGTATCACCTGG
131 GTT-TCAGACCTAATTGAAAATGTATGTTGGATCTTACAGACTGTTTTAGTATTGTATCAACTGG
21247357 ATTTGGTTTGTATTGTTAACTATATATCTCTAGTAAAAGAAATTTATGATAGAGCCTACTATTAC
195 ATTTGGTTTGTATTGTTAACTATATATCTCTAGTAAAAGAAATTTATGATAGAGCCTACTATTAC
21247422 TAT
260 TAT
21247425 TGTAACACCC
Statistics
Matches: 241, Mismatches: 21, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
271 120 0.50
272 121 0.50
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (271 bp):
CTTGTAAATATTTGATATTGTTTCATTTTGGCCATATGATTCATTAATGAATCACATTAATATGT
ATTTTATAAAGTATTTAGGTTACCTAATATATATGCTTCATGTTGAATTTGTTAATAATTAGGAT
GTTTCAGACCTAATTGAAAATGTATGTTGGATCTTACAGACTGTTTTAGTATTGTATCAACTGGA
TTTGGTTTGTATTGTTAACTATATATCTCTAGTAAAAGAAATTTATGATAGAGCCTACTATTACT
ATATACTCTTG
Found at i:21248778 original size:42 final size:42
Alignment explanation
Indices: 21248731--21248847 Score: 141
Period size: 42 Copynumber: 2.8 Consensus size: 42
21248721 AGTGCTAAAC
* *
21248731 AGAAACCCATAAGGGTTGAACGGAAGCTCATA-AGAGCTGAA
1 AGAAACCCATAAGGGTTAAACAGAAGCTCATATAGAGCTGAA
*
21248772 TAGAAACCCGTAAGGGTTAAACAGAAGCTCA-ATAGAGCTGAA
1 -AGAAACCCATAAGGGTTAAACAGAAGCTCATATAGAGCTGAA
* *
21248814 AGGAAACCCATTAA-GGTTTAACAGAAACTCATAT
1 A-GAAACCCA-TAAGGGTTAAACAGAAGCTCATAT
21248848 GAGTTAAACA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 2 0.03
42 58 0.89
43 5 0.08
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.18
Consensus pattern (42 bp):
AGAAACCCATAAGGGTTAAACAGAAGCTCATATAGAGCTGAA
Found at i:21248797 original size:21 final size:21
Alignment explanation
Indices: 21248726--21248797 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
21248716 CACAAAGTGC
21248726 TAAACAGAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGGGT
* * * * * *
21248747 TGAACGGAAGCTCATAAGAGC
1 TAAACAGAAACCCATAAGGGT
* * *
21248768 TGAATAGAAACCCGTAAGGGT
1 TAAACAGAAACCCATAAGGGT
21248789 TAAACAGAA
1 TAAACAGAA
21248798 GCTCAATAGA
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGGGT
Found at i:21256558 original size:27 final size:26
Alignment explanation
Indices: 21256521--21256588 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 26
21256511 AAAAATAAAA
* *
21256521 ATTTACCAAAATATAATCCCTTTTTTT
1 ATTTAACAAAATATAAT-ACTTTTTTT
* * *
21256548 ATTTAATAAAATATTATATTTTTTTT
1 ATTTAACAAAATATAATACTTTTTTT
*
21256574 ATTTACCAAAATATA
1 ATTTAACAAAATATA
21256589 CCAAAAAAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
26 19 0.58
27 14 0.42
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (26 bp):
ATTTAACAAAATATAATACTTTTTTT
Found at i:21256667 original size:27 final size:26
Alignment explanation
Indices: 21256629--21256686 Score: 107
Period size: 27 Copynumber: 2.2 Consensus size: 26
21256619 GCCTGATCAG
21256629 GCCAATGCCATTGGCGGCACCAATGGT
1 GCCAATGCCATTGGCGGCACCAAT-GT
21256656 GCCAATGCCATTGGCGGCACCAATGT
1 GCCAATGCCATTGGCGGCACCAATGT
21256682 GCCAA
1 GCCAA
21256687 AGGACTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 7 0.23
27 24 0.77
ACGTcount: A:0.24, C:0.31, G:0.28, T:0.17
Consensus pattern (26 bp):
GCCAATGCCATTGGCGGCACCAATGT
Found at i:21257210 original size:19 final size:19
Alignment explanation
Indices: 21257186--21257246 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
21257176 TCTAATTAAG
21257186 TAATAACTCTATTTTAATT
1 TAATAACTCTATTTTAATT
* * *
21257205 TAATAA-ACTATTCTCATT
1 TAATAACTCTATTTTAATT
* *
21257223 TAATAACTATATTTTAAAT
1 TAATAACTCTATTTTAATT
21257242 TAATA
1 TAATA
21257247 GAAATACTAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
18 15 0.45
19 18 0.55
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAACTCTATTTTAATT
Found at i:21257215 original size:18 final size:18
Alignment explanation
Indices: 21257194--21257246 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
21257184 AGTAATAACT
21257194 CTATTTTAATTTAATAAA
1 CTATTTTAATTTAATAAA
* *
21257212 CTATTCTCATTTAAT-AA
1 CTATTTTAATTTAATAAA
*
21257229 CTATATTTTAAATTAATA
1 C--TATTTTAATTTAATA
21257247 GAAATACTAG
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 3 0.11
18 13 0.48
19 11 0.41
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (18 bp):
CTATTTTAATTTAATAAA
Found at i:21257796 original size:5 final size:5
Alignment explanation
Indices: 21257786--21257815 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
21257776 GGCTGTGTCA
21257786 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
1 GTTTT GTTTT GTTTT GTTTT GTTTT GTTTT
21257816 TTTAATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
GTTTT
Found at i:21257887 original size:27 final size:27
Alignment explanation
Indices: 21257821--21257889 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
21257811 GTTTTTTTAA
***
21257821 TATATTTTGGTAAATAAAAAAATTTAT
1 TATATTTTGGTAAATAAAAAAAGGGAT
* *
21257848 AATATTTTAGTAAATAAAAAAAGGGAT
1 TATATTTTGGTAAATAAAAAAAGGGAT
*
21257875 TATACTTTGGTAAAT
1 TATATTTTGGTAAAT
21257890 TTTTATTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.48, C:0.01, G:0.12, T:0.39
Consensus pattern (27 bp):
TATATTTTGGTAAATAAAAAAAGGGAT
Found at i:21260723 original size:20 final size:21
Alignment explanation
Indices: 21260698--21260737 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21260688 TGCCATATTT
21260698 AATAATGA-AAAAAATCAAAC
1 AATAATGATAAAAAATCAAAC
*
21260718 AATAATGATAATAAATCAAA
1 AATAATGATAAAAAATCAAA
21260738 GATAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (21 bp):
AATAATGATAAAAAATCAAAC
Found at i:21262419 original size:94 final size:94
Alignment explanation
Indices: 21262259--21262545 Score: 342
Period size: 94 Copynumber: 3.0 Consensus size: 94
21262249 GTGGCACAGT
* * **
21262259 TTCATATTGCTCTATTGCAACTTCAAGGAGATAAGATTTGCTGTTGTAGTTTCATTCCAACCCAC
1 TTCATATTGCTCTATTGCAACTTCAAGGAGATAAGATTCGCTATTGTAGTTTCATTCTGACCCAC
* *
21262324 TGCAACTTCAGGGATATAGGATTTGTATC
66 TGCAACTTCAGGGGTATAGGATTTGTAGC
* * * * * * * * *
21262353 TTCATTTTGCTCTACTGCAACTTTAGGGAGGTAAGATTCGCTATGGTAGCTTCAATCTGACACAC
1 TTCATATTGCTCTATTGCAACTTCAAGGAGATAAGATTCGCTATTGTAGTTTCATTCTGACCCAC
* *
21262418 TGCAACTTCAGGGGCACAGGATTTGTAGC
66 TGCAACTTCAGGGGTATAGGATTTGTAGC
* * * * *
21262447 TTCATCTTGCTCCATTGCAACCTCAATGAGATAAGATTCG-TCATTGTAGTTTGTATTCTGACCC
1 TTCATATTGCTCTATTGCAACTTCAAGGAGATAAGATTCGCT-ATTGTAGTTT-CATTCTGACCC
*
21262511 ACTGCAACTTCAGGGGTATAGGAATTGTAGC
64 ACTGCAACTTCAGGGGTATAGGATTTGTAGC
21262542 TTCA
1 TTCA
21262546 ATCAAATCAA
Statistics
Matches: 158, Mismatches: 33, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
93 1 0.01
94 117 0.74
95 40 0.25
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (94 bp):
TTCATATTGCTCTATTGCAACTTCAAGGAGATAAGATTCGCTATTGTAGTTTCATTCTGACCCAC
TGCAACTTCAGGGGTATAGGATTTGTAGC
Found at i:21262567 original size:139 final size:138
Alignment explanation
Indices: 21262398--21262685 Score: 355
Period size: 139 Copynumber: 2.1 Consensus size: 138
21262388 ATTCGCTATG
** * * *
21262398 GTAGCTTCAATCTGACACACTGCAACTTCAGGGGCACAGGATTTGTAGCTTCATCTTGCTCCATT
1 GTAGCTTCAATCAAACACACTACAACTTCAGGGACACAGGATTTGTAGCTTCATCTTGCTCCACT
* * * * * *
21262463 GCAACCTCA-ATGAGATAAGATTCGTCATTGTAGTTTGTATTCTGACCCACTGCAACTTCAGGGG
66 GCAACCTCAGA-AAGATAAGATTCGTCATGGTAGATT-CAATCCGACCCACTGCAACTTCAGGGG
21262527 TATAGGAATT
129 TATAGGAATT
* *
21262537 GTAGCTTCAATCAAATCA-ACTACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCTCCAC
1 GTAGCTTCAATCAAA-CACACTACAACTTCAGGGACACAGGATTTGTAGCTTCATCTTGCTCCAC
* * * * **
21262601 TGCAACTTTAGAAAGATAAGATTTGTTATGGTAGATTCAATCCGACTTACTGCAACTTCAGGGGT
65 TGCAACCTCAGAAAGATAAGATTCGTCATGGTAGATTCAATCCGACCCACTGCAACTTCAGGGGT
*
21262666 ATAGGATTT
130 ATAGGAATT
21262675 GTAGCTTCAAT
1 GTAGCTTCAAT
21262686 ATGTTCCATT
Statistics
Matches: 127, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
138 42 0.33
139 82 0.65
140 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (138 bp):
GTAGCTTCAATCAAACACACTACAACTTCAGGGACACAGGATTTGTAGCTTCATCTTGCTCCACT
GCAACCTCAGAAAGATAAGATTCGTCATGGTAGATTCAATCCGACCCACTGCAACTTCAGGGGTA
TAGGAATT
Found at i:21262607 original size:44 final size:44
Alignment explanation
Indices: 21262320--21263073 Score: 160
Period size: 44 Copynumber: 16.3 Consensus size: 44
21262310 TCATTCCAAC
* *
21262320 CCACTGCAACTTCAGGGATATAGGATTTGTATCTTCATTTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* * ** *
21262364 CTACTGCAACTTTAGGGAGGTAAGATTCGCTATGGTAGCTTCAATC-TGAC-
1 CCACTGCAACTTCAGGGATATAGGA-T---T-T-GTAGCTTC-ATCTTG-CT
* ** *
21262414 ACACTGCAACTTCAGGGGCACAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* * ** * * * *
21262458 CCATTGCAACCTCAATGAGATAAGATTCGTCATTGTAGTTTGTAT-TCTGAC-
1 CCACTGCAACTTCAGGGATATAGGA----T--TTGTAGCTT-CATCT-TG-CT
* * ***
21262509 CCACTGCAACTTCAGGGGTATAGGAATTGTAGCTTCAATC-AAAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
* *
21262553 CAACTACAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* ** * * * *
21262597 CCACTGCAACTTTAGAAAGATAAGATTTGTTATGGTAGATTCAATC-CGACT
1 CCACTGCAACTTCAGGGATATAGGA----TT-T-GTAGCTTC-ATCTTG-CT
* * * *
21262648 -TACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-ATGTT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
* * * * * * *
21262691 CCATTGCAACTTCAAGGAGATAATATTCGCTATGGTAGTTTCA-ATT-CAAC
1 CCACTGCAACTTC-AGG-GAT-ATA--GGAT-TTGTAGCTTCATCTTGC--T
* * **
21262741 CCACTGCAACTTCAAGGG-TATATGATTTGTAG-TTGCAACTTTATT
1 CCACTGCAACTTC-AGGGATATAGGATTTGTAGCTT-CATC-TTGCT
* * * *
21262786 CCAACCTATTGCAACTTCAGGGGTATAGAAATTGTAGCTTCAATC-TGAT
1 CC-A-C---TGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
** * *
21262835 CCACTAAAACTTCAGGGATGTAGGATTTGTAGCTTCATCTTACT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* * * * ** *
21262879 CCACTACAACTTCAGGGAGATA-GATATGCTATGGTAGA-CTCGGC-
1 CCACTGCAACTTCAGGGATATAGGATTTG-TA-GCTTCATCT-TGCT
* * * * * ***
21262923 CTACTGCAACTTTAGGGGTGTAAGATTTATAGTTGTAGCTTCATTCCAAC-
1 CCACTGCAACTTCAGGGATAT-AG---GAT--TTGTAGCTTCA-TCTTGCT
* *
21262973 CCACTGCAACTTCAGGG-TATAGGAATTGTAGCTTCAATC-TGAT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCT
* * ** *
21263016 ACATTGCTGCTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCT
1 CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
* *
21263060 CTACTACAACTTCA
1 CCACTGCAACTTCA
21263074 AGGAGATAAG
Statistics
Matches: 500, Mismatches: 139, Indels: 142
0.64 0.18 0.18
Matches are distributed among these distances:
43 46 0.09
44 220 0.44
45 26 0.05
46 8 0.02
47 8 0.02
48 8 0.02
49 23 0.05
50 123 0.25
51 37 0.07
52 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGATATAGGATTTGTAGCTTCATCTTGCT
Found at i:21262663 original size:94 final size:93
Alignment explanation
Indices: 21262559--21262772 Score: 243
Period size: 94 Copynumber: 2.3 Consensus size: 93
21262549 AAATCAACTA
* *
21262559 CAACTTCAGGGATATAGGATTTGTAGCTTC-ATCTTGCTCCACTGCAACTT-TAGAAAGATAAGA
1 CAACTTCAGGG-TATAGGATTTGTAGCTTCAAT-ATGCTCCACTGCAACTTCAAG-AAGATAAGA
* * * **
21262622 TTTGTTATGGTAGATTCAATCCGACTTACTG
63 TTCGCTATGGTAGATTCAATCCAACCCACTG
* * * *
21262653 CAACTTCAGGGGTATAGGATTTGTAGCTTCAATATGTTCCATTGCAACTTCAAGGAGATAATATT
1 CAACTTCA-GGGTATAGGATTTGTAGCTTCAATATGCTCCACTGCAACTTCAAGAAGATAAGATT
* *
21262718 CGCTATGGTAGTTTCAATTCAACCCACTG
65 CGCTATGGTAGATTCAATCCAACCCACTG
*
21262747 CAACTTCAAGGGTATATGATTTGTAG
1 CAACTTC-AGGGTATAGGATTTGTAG
21262773 TTGCAACTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
94 94 0.92
95 8 0.08
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.34
Consensus pattern (93 bp):
CAACTTCAGGGTATAGGATTTGTAGCTTCAATATGCTCCACTGCAACTTCAAGAAGATAAGATTC
GCTATGGTAGATTCAATCCAACCCACTG
Found at i:21262839 original size:94 final size:93
Alignment explanation
Indices: 21262741--21263047 Score: 215
Period size: 93 Copynumber: 3.3 Consensus size: 93
21262731 TCAATTCAAC
*
21262741 CCACTGCAACTTCAAGGGTATATGATTTGTAGTTGCAACTTTATTCCAACCTATTGCAACTTCAG
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAGTTGCAACTTTATTCCAACCTA-TGCAACTTCAG
21262806 GGGTATAGAAATTGTAGCTTCAATCTGAT
65 GGGTATAGAAATTGTAGCTTCAATCTGAT
** * * *
21262835 CCACTAAAACTTC-AGGGATGTAGGATTTGTAGCTT-CATC-TTACTCC-A-CTA--CAACTTCA
1 CCACTGCAACTTCAAGGG-TATAGGATTTGTAG-TTGCAACTTTATTCCAACCTATGCAACTTCA
* * ** * *
21262893 GGGAG-ATAGATA-TGCTATGGTAGACTC-G-G
64 GGG-GTATAGAAATTG-TA-GCTTCAATCTGAT
* * * * * * * * *
21262922 CCTACTGCAACTTTAGGGGTGTAAGATTTATAGTTGTAGCTTCATTCCAACCCACTGCAACTTCA
1 CC-ACTGCAACTTCAAGGGTATAGGATTTGTAGTTGCAACTTTATTCCAACCTA-TGCAACTTCA
*
21262987 -GGGTATAGGAATTGTAGCTTCAATCTGAT
64 GGGGTATAGAAATTGTAGCTTCAATCTGAT
* * ** *
21263016 ACATTGCTGCTTCAGGGGTATAGGATTTGTAG
1 CCACTGCAACTTCAAGGGTATAGGATTTGTAG
21263048 CTTCATCTTG
Statistics
Matches: 157, Mismatches: 38, Indels: 37
0.68 0.16 0.16
Matches are distributed among these distances:
87 6 0.04
88 42 0.27
89 14 0.09
90 1 0.01
91 5 0.03
92 7 0.04
93 43 0.27
94 37 0.24
95 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (93 bp):
CCACTGCAACTTCAAGGGTATAGGATTTGTAGTTGCAACTTTATTCCAACCTATGCAACTTCAGG
GGTATAGAAATTGTAGCTTCAATCTGAT
Found at i:21263008 original size:43 final size:44
Alignment explanation
Indices: 21262955--21263053 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 44
21262945 AGATTTATAG
*
21262955 TTGTAGCTTCATTCCAACCCACTGCAACTTCA-GGGTATAGGAA
1 TTGTAGCTTCATTCCAACACACTGCAACTTCAGGGGTATAGGAA
* ** * * ** *
21262998 TTGTAGCTTCAATCTGATACATTGCTGCTTCAGGGGTATAGGAT
1 TTGTAGCTTCATTCCAACACACTGCAACTTCAGGGGTATAGGAA
21263042 TTGTAGCTTCAT
1 TTGTAGCTTCAT
21263054 CTTGCTCTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
43 24 0.53
44 21 0.47
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.34
Consensus pattern (44 bp):
TTGTAGCTTCATTCCAACACACTGCAACTTCAGGGGTATAGGAA
Found at i:21263042 original size:181 final size:183
Alignment explanation
Indices: 21262654--21263096 Score: 500
Period size: 181 Copynumber: 2.4 Consensus size: 183
21262644 GACTTACTGC
* * *
21262654 AACTTCAGGGGTATAGGATTTGTAGCTTCAATATGT-TCCATTGCAACTTCAAGGAGATAATATT
1 AACTTCAGGGGTATAGGATTTGTAGCTTC-ATCT-TCTCCACTACAACTTCAAGGAGATAATATT
* * * *
21262718 CGCTATGGTAGTTTCAATTCAACCCACTGCAACTTCAAGGGTATATGATTTGTAGTTGCAACTTT
64 CGCTATGGTAG--T--ACTCAACCCACTGCAACTTCAAGGGTATAAGATTTATAGTTGCAACTTC
* * *
21262783 ATTCCAACCTATTGCAACTTCAGGGGTATAGAAATTGTAGCTTCAATCTGATCCACTAA
125 ATTCCAACCCACTGCAACTTCAGGGGTATAGAAATTGTAGCTTCAATCTGATACACTAA
* * *
21262842 AACTTCAGGGATGTAGGATTTGTAGCTTCATCTTACTCCACTACAACTTCAGGGAGATAGATA-T
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTT-CTCCACTACAACTTCAAGGAGATA-ATATT
** * * * * * *
21262906 -GCTATGGTAG-ACTCGGCCTACTGCAACTTTAGGGGTGTAAGATTTATAGTTGTAGCTTCATTC
64 CGCTATGGTAGTACTCAACCCACTGCAACTTCAAGGGTATAAGATTTATAGTTGCAACTTCATTC
* * **
21262969 CAACCCACTGCAACTTCA-GGGTATAGGAATTGTAGCTTCAATCTGATACATTGC
129 CAACCCACTGCAACTTCAGGGGTATAGAAATTGTAGCTTCAATCTGATACACTAA
** * *
21263023 TGCTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCTACTACAACTTCAAGGAGATAAGATTC
1 AACTTCAGGGGTATAGGATTTGTAGCTTCATCTT-CTCCACTACAACTTCAAGGAGATAATATTC
*
21263088 GTTATGGTA
65 GCTATGGTA
21263097 ACTTCAATCC
Statistics
Matches: 216, Mismatches: 34, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
180 2 0.01
181 84 0.39
182 65 0.30
186 1 0.00
187 13 0.06
188 48 0.22
189 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (183 bp):
AACTTCAGGGGTATAGGATTTGTAGCTTCATCTTCTCCACTACAACTTCAAGGAGATAATATTCG
CTATGGTAGTACTCAACCCACTGCAACTTCAAGGGTATAAGATTTATAGTTGCAACTTCATTCCA
ACCCACTGCAACTTCAGGGGTATAGAAATTGTAGCTTCAATCTGATACACTAA
Found at i:21264462 original size:81 final size:81
Alignment explanation
Indices: 21264363--21264526 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
21264353 GACTTTAATG
21264363 GAAAAATAGCCTCCATTTCATAAACCAATGAGAAAGGAGTTGCCCCGGTGGAGGATCTGACAGAC
1 GAAAAATAGCCTCCATTTCATAAACCAATGAGAAAGGAGTTGCCCCGGTGGAGGATCTGACAGAC
*
21264428 GTTCAATACGCATAGA
66 GTTCAATAAGCATAGA
*
21264444 GAAAAATAGCCTCCATTTCATAAACCAATGAGAAAGGTGTTGCCCCGGTGGAGGATCTGACAGAC
1 GAAAAATAGCCTCCATTTCATAAACCAATGAGAAAGGAGTTGCCCCGGTGGAGGATCTGACAGAC
21264509 GTTCAATAAGCATAGA
66 GTTCAATAAGCATAGA
21264525 GA
1 GA
21264527 GTAAATGGTA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (81 bp):
GAAAAATAGCCTCCATTTCATAAACCAATGAGAAAGGAGTTGCCCCGGTGGAGGATCTGACAGAC
GTTCAATAAGCATAGA
Found at i:21269224 original size:72 final size:72
Alignment explanation
Indices: 21269107--21269251 Score: 281
Period size: 72 Copynumber: 2.0 Consensus size: 72
21269097 AAAGTCCTTT
*
21269107 TAACTAGGAGGTTTTCTCATTTCGGGTCAATCAAGATGAAAAATCATGTCCCGTAAGTTGGGGCA
1 TAACTAGGAGGTTTTCTCATTTCGGGTCAATCAAGATGAAAAATCATGTCCCGTAAGTTGGGGAA
21269172 CAAAATC
66 CAAAATC
21269179 TAACTAGGAGGTTTTCTCATTTCGGGTCAATCAAGATGAAAAATCATGTCCCGTAAGTTGGGGAA
1 TAACTAGGAGGTTTTCTCATTTCGGGTCAATCAAGATGAAAAATCATGTCCCGTAAGTTGGGGAA
21269244 CAAAATC
66 CAAAATC
21269251 T
1 T
21269252 CAAATTCTCA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (72 bp):
TAACTAGGAGGTTTTCTCATTTCGGGTCAATCAAGATGAAAAATCATGTCCCGTAAGTTGGGGAA
CAAAATC
Found at i:21271462 original size:22 final size:21
Alignment explanation
Indices: 21271433--21271476 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
21271423 CTACAAACCC
21271433 AAAAAAACCAAAAAAAAGAAG
1 AAAAAAACCAAAAAAAAGAAG
* *
21271454 AAAAGAAACGAAAAAAAGGAAG
1 AAAA-AAACCAAAAAAAAGAAG
21271476 A
1 A
21271477 TGAGGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (21 bp):
AAAAAAACCAAAAAAAAGAAG
Found at i:21272274 original size:16 final size:16
Alignment explanation
Indices: 21272243--21272279 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
21272233 ATGTGAATAA
21272243 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
21272259 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
21272275 TATTA
1 TATTA
21272280 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:21272609 original size:22 final size:19
Alignment explanation
Indices: 21272581--21272628 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 19
21272571 GAAAAAAAAC
21272581 TTATTTTATATTGATCTGTAAA
1 TTATTTTATATTGA-C--TAAA
*
21272603 TTATTTTCTATTGACTAAA
1 TTATTTTATATTGACTAAA
21272622 TTATTTT
1 TTATTTT
21272629 CTGTAAAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 11 0.44
21 1 0.04
22 13 0.52
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (19 bp):
TTATTTTATATTGACTAAA
Found at i:21274103 original size:15 final size:15
Alignment explanation
Indices: 21274076--21274130 Score: 74
Period size: 15 Copynumber: 3.7 Consensus size: 15
21274066 AAAAATGGCA
*
21274076 GGAGGAGGGGGTGGT
1 GGAGGAGGAGGTGGT
* *
21274091 GGTGGAGGAGGTGGA
1 GGAGGAGGAGGTGGT
21274106 GGAGGAGGAGGTGGT
1 GGAGGAGGAGGTGGT
*
21274121 GGCGGAGGAG
1 GGAGGAGGAG
21274131 CTGCACCACC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.18, C:0.02, G:0.69, T:0.11
Consensus pattern (15 bp):
GGAGGAGGAGGTGGT
Found at i:21274115 original size:18 final size:18
Alignment explanation
Indices: 21274075--21274130 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
21274065 AAAAAATGGC
* * *
21274075 AGGAGGAGGGGGTGGTGG
1 AGGAGGAGGTGGAGGAGG
*
21274093 TGGAGGAGGTGGAGGAGG
1 AGGAGGAGGTGGAGGAGG
* *
21274111 AGGAGGTGGTGGCGGAGG
1 AGGAGGAGGTGGAGGAGG
21274129 AG
1 AG
21274131 CTGCACCACC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.20, C:0.02, G:0.68, T:0.11
Consensus pattern (18 bp):
AGGAGGAGGTGGAGGAGG
Found at i:21287128 original size:13 final size:12
Alignment explanation
Indices: 21287103--21287137 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21287093 GGTTTGCTTC
21287103 TCATGTTTATAA
1 TCATGTTTATAA
*
21287115 TCATGTTTGTTAA
1 TCATGTTT-ATAA
21287128 TCATGTTTAT
1 TCATGTTTAT
21287138 CTTATGCCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.26, C:0.09, G:0.11, T:0.54
Consensus pattern (12 bp):
TCATGTTTATAA
Found at i:21291639 original size:80 final size:81
Alignment explanation
Indices: 21291554--21291713 Score: 214
Period size: 83 Copynumber: 2.0 Consensus size: 81
21291544 AGAATTAATT
* * ** *
21291554 TTTTTAATTATTTTACAAGAAATTTTTAGC-ATTTATGTTAAAATAAATTTATAAAATATTTATT
1 TTTTTAATTATTTAACAAGAAATTTTTAACAATTTATGCCAAAATAAATTTATAAAAGATTTATT
*
21291618 TAACACTTGAATCCTA
66 TAACAATTGAATCCTA
* * *
21291634 TTTTTAATTATTTAACAAGGACTTTTTAACAATATTTATGCCAAAATATATTTATAAAAGATTTA
1 TTTTTAATTATTTAACAAGAAATTTTTAAC-A-ATTTATGCCAAAATAAATTTATAAAAGATTTA
21291699 TTTAACAATTGAATC
64 TTTAACAATTGAATC
21291714 TTAGTTAAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 26 0.38
83 42 0.62
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.46
Consensus pattern (81 bp):
TTTTTAATTATTTAACAAGAAATTTTTAACAATTTATGCCAAAATAAATTTATAAAAGATTTATT
TAACAATTGAATCCTA
Found at i:21295117 original size:16 final size:17
Alignment explanation
Indices: 21295096--21295127 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21295086 TCAATCGATT
21295096 TAATTAT-AATAATTAG
1 TAATTATAAATAATTAG
21295112 TAATTATAAATAATTA
1 TAATTATAAATAATTA
21295128 TAAGCTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATTAG
Found at i:21296101 original size:21 final size:21
Alignment explanation
Indices: 21296068--21296107 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21296058 ATATAAATAG
*
21296068 TTTTTAAAATTTTTATGAACA
1 TTTTTAAAATTTTAATGAACA
* *
21296089 TTTTTGAATTTTTAATGAA
1 TTTTTAAAATTTTAATGAA
21296108 GTGCGCGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (21 bp):
TTTTTAAAATTTTAATGAACA
Found at i:21301738 original size:22 final size:21
Alignment explanation
Indices: 21301705--21301745 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
21301695 GTTTAGCAGC
21301705 TATTTTTCGTGTT-TTTGGGT
1 TATTTTTCGTGTTGTTTGGGT
21301725 TATTGTTTCAGTGTTGTTTGG
1 TATT-TTTC-GTGTTGTTTGG
21301746 AGTCGGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 4 0.22
22 5 0.28
23 5 0.28
ACGTcount: A:0.07, C:0.05, G:0.27, T:0.61
Consensus pattern (21 bp):
TATTTTTCGTGTTGTTTGGGT
Found at i:21305673 original size:22 final size:22
Alignment explanation
Indices: 21305637--21305678 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21305627 AAGATATAAT
* *
21305637 GTCTTCTTCAATAATTGATTCA
1 GTCTTCCTCAATAATGGATTCA
*
21305659 GTCTTCCTCATTAATGGATT
1 GTCTTCCTCAATAATGGATT
21305679 AAGATTTCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (22 bp):
GTCTTCCTCAATAATGGATTCA
Found at i:21311094 original size:17 final size:17
Alignment explanation
Indices: 21311072--21311106 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
21311062 GGCAGAGCTA
21311072 GAAAAGTCACTTCACTC
1 GAAAAGTCACTTCACTC
21311089 GAAAAGTCACTTCACTC
1 GAAAAGTCACTTCACTC
21311106 G
1 G
21311107 TACCGTAGTC
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:0.34, C:0.29, G:0.14, T:0.23
Consensus pattern (17 bp):
GAAAAGTCACTTCACTC
Found at i:21321571 original size:21 final size:21
Alignment explanation
Indices: 21321543--21321582 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
21321533 AATCCAACCA
*
21321543 AAATCAA-CAAATATAGCATG
1 AAATCAACCAAAAATAGCATG
21321563 AAATGCAACCAAAAATAGCA
1 AAAT-CAACCAAAAATAGCA
21321583 AATTTAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.57, C:0.17, G:0.10, T:0.15
Consensus pattern (21 bp):
AAATCAACCAAAAATAGCATG
Found at i:21321585 original size:31 final size:32
Alignment explanation
Indices: 21321527--21321610 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 32
21321517 AGCCCTTCCT
* *
21321527 GCATTAAATCCAACC-AAAATCAACAAATATA
1 GCATAAAATACAACCAAAAATCAACAAATATA
* * * *
21321558 GCATGAAATGCAACCAAAAAT-AGCAAATTTA
1 GCATAAAATACAACCAAAAATCAACAAATATA
21321589 GCATAAAAAATACAACCAAAAA
1 GCAT--AAAATACAACCAAAAA
21321611 CATTAATTCT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
31 25 0.57
32 5 0.11
33 14 0.32
ACGTcount: A:0.57, C:0.19, G:0.07, T:0.17
Consensus pattern (32 bp):
GCATAAAATACAACCAAAAATCAACAAATATA
Found at i:21321873 original size:21 final size:21
Alignment explanation
Indices: 21321834--21321873 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
21321824 CTGCTCGTCT
* *
21321834 CTGCCTCCCTCGCTGCTGCTG
1 CTGCCTCCCTAGCTACTGCTG
*
21321855 CTGCCTCCCTATCTACTGC
1 CTGCCTCCCTAGCTACTGC
21321874 CTCTGCTCTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.47, G:0.17, T:0.30
Consensus pattern (21 bp):
CTGCCTCCCTAGCTACTGCTG
Found at i:21321879 original size:21 final size:20
Alignment explanation
Indices: 21321832--21321879 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
21321822 TTCTGCTCGT
* *
21321832 CTCTGCCTCCCTCGCTGCTG
1 CTCTGCCTCCCTAGCTACTG
*
21321852 CTGCTGCCTCCCTATCTACTG
1 CT-CTGCCTCCCTAGCTACTG
21321873 CCTCTGC
1 -CTCTGC
21321880 TCTAAGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.04, C:0.48, G:0.17, T:0.31
Consensus pattern (20 bp):
CTCTGCCTCCCTAGCTACTG
Found at i:21322292 original size:13 final size:14
Alignment explanation
Indices: 21322266--21322294 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21322256 ACTTAACATG
21322266 AATTAAACCATTAT
1 AATTAAACCATTAT
21322280 AATTAAA-CATTAT
1 AATTAAACCATTAT
21322293 AA
1 AA
21322295 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:21326590 original size:9 final size:9
Alignment explanation
Indices: 21326558--21326830 Score: 116
Period size: 9 Copynumber: 30.0 Consensus size: 9
21326548 TAAGTATAAT
21326558 TAAGTTATG
1 TAAGTTATG
* *
21326567 CAAGTCATG
1 TAAGTTATG
21326576 T-A-TTATG
1 TAAGTTATG
*
21326583 TAAGTTATT
1 TAAGTTATG
*
21326592 TAAATTATG
1 TAAGTTATG
21326601 TAAGTTATG
1 TAAGTTATG
* * *
21326610 AAATTTGATCTT
1 TAAGTT-A--TG
*
21326622 TAAATTATG
1 TAAGTTATG
21326631 TAAGTTATG
1 TAAGTTATG
21326640 T-A-TTATG
1 TAAGTTATG
21326647 TAAGTTATG
1 TAAGTTATG
* * *
21326656 AAATTTGATCTT
1 TAAGTT-A--TG
*
21326668 TAAATTATG
1 TAAGTTATG
21326677 TAAGTTATG
1 TAAGTTATG
21326686 T-A-TTATG
1 TAAGTTATG
* *
21326693 CAAGTTTTG
1 TAAGTTATG
* * *
21326702 AAATTTTGATCTT
1 TAA-GTT-A--TG
*
21326715 TAAATTATG
1 TAAGTTATG
* *
21326724 TAACTCATG
1 TAAGTTATG
21326733 T-A-TTATG
1 TAAGTTATG
21326740 TAAGTTATG
1 TAAGTTATG
*
21326749 TAAATTATG
1 TAAGTTATG
*
21326758 TAAGTTATA
1 TAAGTTATG
* * *
21326767 AAATTTGATCTT
1 TAAGTT-A--TG
*
21326779 TAAATTATG
1 TAAGTTATG
21326788 TAAGTTATG
1 TAAGTTATG
21326797 T-A-TTATG
1 TAAGTTATG
21326804 TAAGTTATG
1 TAAGTTATG
*
21326813 TAAATTATG
1 TAAGTTATG
21326822 TAAGTTATG
1 TAAGTTATG
21326831 AAATTTGANN
Statistics
Matches: 195, Mismatches: 46, Indels: 46
0.68 0.16 0.16
Matches are distributed among these distances:
7 27 0.14
8 10 0.05
9 129 0.66
10 5 0.03
11 4 0.02
12 17 0.09
13 3 0.02
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:21326629 original size:21 final size:21
Alignment explanation
Indices: 21326605--21326676 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 21
21326595 ATTATGTAAG
21326605 TTATGAAATTTGATCTTTAAA
1 TTATGAAATTTGATCTTTAAA
* *
21326626 TTATGTAAGTTATGTAT-TATGTAAG
1 TTATG-AAATT-TG-ATCT-T-TAAA
21326651 TTATGAAATTTGATCTTTAAA
1 TTATGAAATTTGATCTTTAAA
21326672 TTATG
1 TTATG
21326677 TAAGTTATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
21 13 0.32
22 7 0.17
23 6 0.15
24 7 0.17
25 8 0.20
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (21 bp):
TTATGAAATTTGATCTTTAAA
Found at i:21326654 original size:46 final size:46
Alignment explanation
Indices: 21326577--21326754 Score: 275
Period size: 46 Copynumber: 3.8 Consensus size: 46
21326567 CAAGTCATGT
*
21326577 ATTATGTAAGTTATTTAAATTATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGT--ATTATGTAAGTTATGAAATTTGATCTTTAA
21326625 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
* *
21326671 ATTATGTAAGTTATGTATTATGCAAGTTTTGAAATTTTGATCTTTAA
1 ATTATGTAAGTTATGTATTATGTAAGTTATGAAA-TTTGATCTTTAA
* *
21326718 ATTATGTAACTCATGTATTATGTAAGTTATGTAAATT
1 ATTATGTAAGTTATGTATTATGTAAGTTATG-AAATT
21326755 ATGTAAGTTA
Statistics
Matches: 121, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
46 62 0.51
47 41 0.34
48 18 0.15
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (46 bp):
ATTATGTAAGTTATGTATTATGTAAGTTATGAAATTTGATCTTTAA
Found at i:21326724 original size:93 final size:94
Alignment explanation
Indices: 21326577--21326754 Score: 279
Period size: 93 Copynumber: 1.9 Consensus size: 94
21326567 CAAGTCATGT
* * * *
21326577 ATTATGTAAGTTATTTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAGTTATGTA
1 ATTATGTAAGTTATGT-AATTATGCAAGTTATGAAATTTGATCTTTAAATTATGTAACTCATGTA
21326642 TTATGTAAGTTATG-AAATTTGATCTTTAA
65 TTATGTAAGTTATGTAAATTTGATCTTTAA
*
21326671 ATTATGTAAGTTATGT-ATTATGCAAGTTTTGAAATTTTGATCTTTAAATTATGTAACTCATGTA
1 ATTATGTAAGTTATGTAATTATGCAAGTTATGAAA-TTTGATCTTTAAATTATGTAACTCATGTA
21326735 TTATGTAAGTTATGTAAATT
65 TTATGTAAGTTATGTAAATT
21326755 ATGTAAGTTA
Statistics
Matches: 77, Mismatches: 5, Indels: 4
0.90 0.06 0.05
Matches are distributed among these distances:
92 16 0.21
93 41 0.53
94 20 0.26
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.48
Consensus pattern (94 bp):
ATTATGTAAGTTATGTAATTATGCAAGTTATGAAATTTGATCTTTAAATTATGTAACTCATGTAT
TATGTAAGTTATGTAAATTTGATCTTTAA
Found at i:21326786 original size:64 final size:64
Alignment explanation
Indices: 21326671--21326838 Score: 259
Period size: 64 Copynumber: 2.6 Consensus size: 64
21326661 TGATCTTTAA
* * *
21326671 ATTATGTAAGTTATGT--ATTATGCAAGTTTTGAAATTTTGATCTTTAAATTATGTAACTCATGT
1 ATTATGTAAGTTATGTAAATTATGTAAGTTAT-AAAATTTGATCTTTAAATTATGTAACTCATGT
* *
21326734 ATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATGTAAGTTATGT
1 ATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATGTAACTCATGT
*
21326798 ATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGA
1 ATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGA
21326839 NNNNNNNNNN
Statistics
Matches: 97, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
63 16 0.16
64 69 0.71
65 12 0.12
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.46
Consensus pattern (64 bp):
ATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATGTAACTCATGT
Found at i:21328553 original size:41 final size:39
Alignment explanation
Indices: 21328507--21328624 Score: 146
Period size: 41 Copynumber: 2.9 Consensus size: 39
21328497 TTAATTAAGC
*
21328507 TTTTAGCGGCGTTTTTAAAAAAAGCGCCGCTAATTCTCTAA
1 TTTTAGCGGCGTTTTT-TAAAAA-CGCCGCTAATTCTCTAA
* *
21328548 TTTTAGCAGTGCCTTTTTTAAAAACGCCGCTAATTCTCTAT
1 TTTTAGC-G-GCGTTTTTTAAAAACGCCGCTAATTCTCTAA
*
21328589 TTTTAGCGGCGATATTTTTAAAAACGCCACTAATTC
1 TTTTAGCGGCG-T-TTTTTAAAAACGCCGCTAATTC
21328625 CCTTGGAGAC
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
39 2 0.03
40 2 0.03
41 51 0.75
42 6 0.09
43 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (39 bp):
TTTTAGCGGCGTTTTTTAAAAACGCCGCTAATTCTCTAA
Found at i:21329114 original size:26 final size:26
Alignment explanation
Indices: 21329085--21329204 Score: 213
Period size: 26 Copynumber: 4.6 Consensus size: 26
21329075 TGATACAAAT
* *
21329085 TGATAATGAGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
21329111 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21329137 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21329163 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
21329189 TGATAATGGGTTAGGT
1 TGATAATGGGTTAGGT
21329205 CTTTTGTATT
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 90 1.00
ACGTcount: A:0.32, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:21330627 original size:28 final size:26
Alignment explanation
Indices: 21330581--21330655 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
21330571 AAAAGCAACT
* * *
21330581 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTGTTATACCCCTA-G-ATGCA
* *
21330609 AAATTACTGTTATAGCCCTAGGTGCA
1 AAATTACTGTTATACCCCTAGATGCA
*
21330635 AAATTACCGTTATACCCCTAG
1 AAATTACTGTTATACCCCTAG
21330656 GGTTAATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 22 0.55
27 1 0.03
28 17 0.43
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (26 bp):
AAATTACTGTTATACCCCTAGATGCA
Found at i:21330791 original size:27 final size:26
Alignment explanation
Indices: 21330760--21330927 Score: 210
Period size: 27 Copynumber: 6.2 Consensus size: 26
21330750 AGGAAGCGTC
*
21330760 CTGGTGGGTATGCCACAATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
21330787 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
*
21330814 CTGGTGGCTATGCCACGATTATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
21330841 CTGGTGGCTATGCCACGATTATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGAT
* *
21330868 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGAT
* *
21330895 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTATGCCACATTATCTG-AT
21330922 CTGGTG
1 CTGGTG
21330928 ACTTCGTCAC
Statistics
Matches: 128, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
26 10 0.08
27 116 0.91
28 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGAT
Found at i:21330844 original size:54 final size:53
Alignment explanation
Indices: 21330760--21330927 Score: 232
Period size: 54 Copynumber: 3.1 Consensus size: 53
21330750 AGGAAGCGTC
* *
21330760 CTGGTGGGTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
* *
21330814 CTGGTGGCTATGCCACGATTATCTGTTCTGGTGGCTATGCCACGAT-TATCTGAT
1 CTGGTGGCTATGCCAC-ATTATCTGTTCTGGTGGCTCTGCCAC-ATATATCTGTT
*
21330868 CTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTAT
1 CTGGTGGCTATGCCACAT-TATCTGTTCTGGTGGCTCTGCCACATATATCTGT-T
21330922 CTGGTG
1 CTGGTG
21330928 ACTTCGTCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
53 9 0.09
54 91 0.89
55 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGTTCTGGTGGCTCTGCCACATATATCTGTT
Found at i:21330895 original size:81 final size:81
Alignment explanation
Indices: 21330760--21330927 Score: 284
Period size: 81 Copynumber: 2.1 Consensus size: 81
21330750 AGGAAGCGTC
*
21330760 CTGGTGGGTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
*
21330825 GCCACGATTATCTGT-T
66 GCCAC-AATATCTGTAT
* *
21330841 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
21330906 GCCACAATATCTGTAT
66 GCCACAATATCTGTAT
21330922 CTGGTG
1 CTGGTG
21330928 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 8 0.10
81 74 0.90
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (81 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTAT
GCCACAATATCTGTAT
Found at i:21332514 original size:8 final size:7
Alignment explanation
Indices: 21332503--21332565 Score: 56
Period size: 7 Copynumber: 8.4 Consensus size: 7
21332493 TTAATCAACT
21332503 AACCCTTA
1 AACCC-TA
21332511 AACCCTA
1 AACCCTA
21332518 ATACCCT-
1 A-ACCCTA
21332525 AACCCTTAA
1 AACCC-T-A
*
21332534 AACCTTA
1 AACCCTA
*
21332541 AACACTA
1 AACCCTA
21332548 ATACCCTA
1 A-ACCCTA
21332556 AACCCTA
1 AACCCTA
21332563 AAC
1 AAC
21332566 ACTTTAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
6 4 0.09
7 21 0.46
8 17 0.37
9 4 0.09
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.21
Consensus pattern (7 bp):
AACCCTA
Found at i:21332548 original size:22 final size:22
Alignment explanation
Indices: 21332500--21332568 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
21332490 CATTTAATCA
21332500 ACTAACCCTTAAACCCTAATAC
1 ACTAACCCTTAAACCCTAATAC
* *
21332522 CCTAACCCTTAAAACCTTAA-AC
1 ACTAACCCTT-AAACCCTAATAC
21332544 ACTAATACCC-TAAACCCTAA-AC
1 ACT-A-ACCCTTAAACCCTAATAC
21332566 ACT
1 ACT
21332569 TTAAAACATC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 26 0.65
23 10 0.25
24 4 0.10
ACGTcount: A:0.42, C:0.36, G:0.00, T:0.22
Consensus pattern (22 bp):
ACTAACCCTTAAACCCTAATAC
Found at i:21332563 original size:15 final size:15
Alignment explanation
Indices: 21332504--21332563 Score: 68
Period size: 15 Copynumber: 3.9 Consensus size: 15
21332494 TAATCAACTA
21332504 ACCCTTAAACCCTAAT
1 ACCC-TAAACCCTAAT
*
21332520 ACCCT-AACCCTTAAA
1 ACCCTAAACCC-TAAT
* *
21332535 ACCTTAAACACTAAT
1 ACCCTAAACCCTAAT
21332550 ACCCTAAACCCTAA
1 ACCCTAAACCCTAA
21332564 ACACTTTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
14 5 0.14
15 23 0.64
16 8 0.22
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.22
Consensus pattern (15 bp):
ACCCTAAACCCTAAT
Found at i:21332677 original size:34 final size:37
Alignment explanation
Indices: 21332633--21332719 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 37
21332623 CAAAATAACA
* *
21332633 AACCCCAAACCATAAACTT-A-ACATACTACCA-TTG
1 AACCCTAAACCATAAACTTAATACATACTACCATTTC
* *
21332667 AACCCTAAACCATAAATTTAAAATATATACTACCATTTC
1 AACCCTAAACCATAAACTT--AATACATACTACCATTTC
21332706 AACCCTAAACCATA
1 AACCCTAAACCATA
21332720 GGCCTTAACC
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
34 17 0.39
37 1 0.02
38 10 0.23
39 16 0.36
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (37 bp):
AACCCTAAACCATAAACTTAATACATACTACCATTTC
Found at i:21333257 original size:81 final size:82
Alignment explanation
Indices: 21333157--21333460 Score: 386
Period size: 81 Copynumber: 3.7 Consensus size: 82
21333147 CGTTTGGGCT
* * *
21333157 TAAAAACGCTGCTATTGATCAG-TTTTAGTGGCGTTTGGACAAAAACACCGCTATTTCTCCAGTT
1 TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTAGACAAAAACACCGCTATTTCTCCAGTT
*
21333221 TTTAGTGGCGTTTTGGA
66 TTTAGTGGCGTTTTAGA
* * *
21333238 TAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTAGAAAAAAACACTGCTATTTCTCCAG-T
1 TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTAGACAAAAACACCGCTATTTCTCCAGTT
*
21333302 TTTAGTGGCATTTTAGA
66 TTTAGTGGCGTTTTAGA
* * ** *
21333319 TAAAAACACCGCTATTGATTAG-CTTTAGTGGCGTTTAGGACAAAAATGCCACTATTTC-CTCAG
1 TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTA-GACAAAAACACCGCTATTTCTC-CAG
21333382 TTTTTAGTGGCG-TTTAGA
64 TTTTTAGTGGCGTTTTAGA
* **
21333400 TAAAAACACCGCTATTGAT-ATGTTTTTAGTGGCGTTTTAGATAAAAACGTCGCTATTTCTC
1 TAAAAACACCGCTATTGATCA-GTTTTTAGTGGCG-TTTAGACAAAAACACCGCTATTTCTC
21333461 ATTTTTTGCT
Statistics
Matches: 195, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
80 16 0.08
81 101 0.52
82 73 0.37
83 5 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (82 bp):
TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTAGACAAAAACACCGCTATTTCTCCAGTT
TTTAGTGGCGTTTTAGA
Found at i:21333305 original size:40 final size:40
Alignment explanation
Indices: 21333157--21333456 Score: 293
Period size: 41 Copynumber: 7.4 Consensus size: 40
21333147 CGTTTGGGCT
* * *
21333157 TAAAAACGCTGCTATTGATCAG-TTTTAGTGGCGTTTGGA
1 TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTAGA
* ** *
21333196 CAAAAACACCGCTATTTCTCCAGTTTTTAGTGGCGTTTTGGA
1 TAAAAACACCGCTATTGAT-CAGTTTTTAGTGGCG-TTTAGA
*
21333238 TAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTAGA
1 TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTAGA
* * ** *
21333278 AAAAAACACTGCTATTTCTCCAG-TTTTAGTGGCATTTTAGA
1 TAAAAACACCGCTATTGAT-CAGTTTTTAGTGGC-GTTTAGA
* *
21333319 TAAAAACACCGCTATTGATTAG-CTTTAGTGGCGTTTAGGA
1 TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTA-GA
* ** * **
21333359 CAAAAATGCCACTATTTCCTCAGTTTTTAGTGGCGTTTAGA
1 TAAAAACACCGCTA-TTGATCAGTTTTTAGTGGCGTTTAGA
21333400 TAAAAACACCGCTATTGAT-ATGTTTTTAGTGGCGTTTTAGA
1 TAAAAACACCGCTATTGATCA-GTTTTTAGTGGCG-TTTAGA
**
21333441 TAAAAACGTCGCTATT
1 TAAAAACACCGCTATT
21333457 TCTCATTTTT
Statistics
Matches: 212, Mismatches: 39, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
39 19 0.09
40 71 0.33
41 87 0.41
42 35 0.17
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (40 bp):
TAAAAACACCGCTATTGATCAGTTTTTAGTGGCGTTTAGA
Found at i:21333476 original size:122 final size:120
Alignment explanation
Indices: 21333157--21333466 Score: 363
Period size: 122 Copynumber: 2.5 Consensus size: 120
21333147 CGTTTGGGCT
* * *
21333157 TAAAAACGCTGCTATTGATCAGTTTTAGTGGCG-TTTGGACAAAAACACCGCTATTTCTCCAGTT
1 TAAAAACACTGCTATTGATCAGTTTTAGTGGCGTTTTAGATAAAAACACCGCTATTTCT-CA-TT
* * * *
21333221 TTTAGTGGCGTTTTGGATAAAAACGCCGCTATTGATCAGTTTTTAGTGGCGTTTAGA
64 TTTAGTGGCGTTTAGGACAAAAACGCCACTATTCATCAGTTTTTAGTGGCGTTTAGA
* ** * ** * **
21333278 AAAAAACACTGCTATTTCTCCAGTTTTAGTGGCATTTTAGATAAAAACACCGCTATTGATTAGCT
1 TAAAAACACTGCTATTGAT-CAGTTTTAGTGGCGTTTTAGATAAAAACACCGCTATTTCTCATTT
* *
21333343 TTAGTGGCGTTTAGGACAAAAATGCCACTATTTCCTCAGTTTTTAGTGGCGTTTAGA
65 TTAGTGGCGTTTAGGACAAAAACGCCACTA-TTCATCAGTTTTTAGTGGCGTTTAGA
* **
21333400 TAAAAACACCGCTATTGAT-ATGTTTTTAGTGGCGTTTTAGATAAAAACGTCGCTATTTCTCATT
1 TAAAAACACTGCTATTGATCA-G-TTTTAGTGGCGTTTTAGATAAAAACACCGCTATTTCTCATT
21333464 TTT
64 TTT
21333467 TGCTGCGTTT
Statistics
Matches: 154, Mismatches: 30, Indels: 9
0.80 0.16 0.05
Matches are distributed among these distances:
120 1 0.01
121 43 0.28
122 89 0.58
123 21 0.14
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (120 bp):
TAAAAACACTGCTATTGATCAGTTTTAGTGGCGTTTTAGATAAAAACACCGCTATTTCTCATTTT
TAGTGGCGTTTAGGACAAAAACGCCACTATTCATCAGTTTTTAGTGGCGTTTAGA
Found at i:21333649 original size:15 final size:15
Alignment explanation
Indices: 21333629--21333676 Score: 78
Period size: 15 Copynumber: 3.2 Consensus size: 15
21333619 AATTAGATAT
21333629 TAAAGATGGGTTTGC
1 TAAAGATGGGTTTGC
*
21333644 TAAAGACGGGTTTGC
1 TAAAGATGGGTTTGC
*
21333659 TAAAAATGGGTTTGC
1 TAAAGATGGGTTTGC
21333674 TAA
1 TAA
21333677 CTGAGGATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.31
Consensus pattern (15 bp):
TAAAGATGGGTTTGC
Found at i:21334887 original size:31 final size:31
Alignment explanation
Indices: 21334849--21334910 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
21334839 AGATGATGAG
*
21334849 ATAGATGTAAAGGCCAAGGGAAAATATAAAA
1 ATAGATGTAAAGGCCAAAGGAAAATATAAAA
*
21334880 ATAGATGTAAAGGCCAAAGGCAAATATAAAA
1 ATAGATGTAAAGGCCAAAGGAAAATATAAAA
21334911 CAAATTGCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.21, T:0.16
Consensus pattern (31 bp):
ATAGATGTAAAGGCCAAAGGAAAATATAAAA
Found at i:21338353 original size:27 final size:27
Alignment explanation
Indices: 21338323--21338637 Score: 181
Period size: 27 Copynumber: 11.7 Consensus size: 27
21338313 ACTAAAATGT
* * *
21338323 CCTCAATTTGTAAAATTACCAAAGTAC
1 CCTCGATTTATAAAATTACCAAATTAC
* ***
21338350 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAAAATTACCAAATTAC
* * **
21338377 CCTCGATTTACAAAATTACTATTTTAC
1 CCTCGATTTATAAAATTACCAAATTAC
**
21338404 CCTCGATTTATAAAATTACCATTTTAC
1 CCTCGATTTATAAAATTACCAAATTAC
* * * **
21338431 CCTCAATTTATAGAATTATCATTTTAC
1 CCTCGATTTATAAAATTACCAAATTAC
* * * * ***
21338458 CCTCAATTTACAGAATTATCGTTTTAC
1 CCTCGATTTATAAAATTACCAAATTAC
* * *
21338485 CCTCGATTTACAAAATTACTAAAATAC
1 CCTCGATTTATAAAATTACCAAATTAC
* * * *
21338512 CCTTGGTTTACAAAATTACCAAAATA-
1 CCTCGATTTATAAAATTACCAAATTAC
* * *
21338538 CCTCTAGTTTGTAAAATTACCAAAATAC
1 CCTCGA-TTTATAAAATTACCAAATTAC
* * *
21338566 CACT-GGTTTGTGAAATTACCGAAA-TAC
1 C-CTCGATTTATAAAATTACC-AAATTAC
* * *
21338593 CCTCAATTTGTAAAATTACCAAAATAC
1 CCTCGATTTATAAAATTACCAAATTAC
*
21338620 ACCT-GA-TTACAAAATTAC
1 -CCTCGATTTATAAAATTAC
21338638 AGAAATGCCC
Statistics
Matches: 238, Mismatches: 43, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
26 18 0.08
27 211 0.89
28 7 0.03
29 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (27 bp):
CCTCGATTTATAAAATTACCAAATTAC
Found at i:21338405 original size:54 final size:54
Alignment explanation
Indices: 21338347--21338505 Score: 230
Period size: 54 Copynumber: 2.9 Consensus size: 54
21338337 ATTACCAAAG
21338347 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
* * * * *
21338401 TACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACT-ATTT
* * *
21338455 TACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTA
21338506 AAATACCCTT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 88 0.98
55 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAAATTACTATTT
Found at i:21338440 original size:81 final size:81
Alignment explanation
Indices: 21338323--21338514 Score: 242
Period size: 81 Copynumber: 2.4 Consensus size: 81
21338313 ACTAAAATGT
* * * * *
21338323 CCTCAATTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 CCTCGATTTATAAAATTACCAAAGTACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTAC
21338388 AAAATTA-CTATTTTAC
66 AAAATTATC-ATTTTAC
*** *
21338404 CCTCGATTTATAAAATTACCATTTTACCCTCAATTTATAGAATTATCATTTTACCCTCAATTTAC
1 CCTCGATTTATAAAATTACCAAAGTACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTAC
* *
21338469 AGAATTATCGTTTTAC
66 AAAATTATCATTTTAC
* * *
21338485 CCTCGATTTACAAAATTACTAAAATACCCT
1 CCTCGATTTATAAAATTACCAAAGTACCCT
21338515 TGGTTTACAA
Statistics
Matches: 94, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
81 93 0.99
82 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (81 bp):
CCTCGATTTATAAAATTACCAAAGTACCCTCAATTTATAGAATTACCATTTTACCCTCAATTTAC
AAAATTATCATTTTAC
Found at i:21338513 original size:54 final size:54
Alignment explanation
Indices: 21338334--21338514 Score: 211
Period size: 54 Copynumber: 3.4 Consensus size: 54
21338324 CTCAATTTGT
* *
21338334 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
1 AAAATTACTAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
** * * * *
21338388 AAAATTACTATTTTACCCTCGATTTATAAAATTACCATTTTACCCTCAATTTAT
1 AAAATTACTAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
* ** * * *
21338442 AGAATTA-TCATTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACT-AAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
*
21338496 AAAATTACTAAAATACCCT
1 AAAATTACTAAATTACCCT
21338515 TGGTTTACAA
Statistics
Matches: 105, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 103 0.98
55 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.06, T:0.38
Consensus pattern (54 bp):
AAAATTACTAAATTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAC
Found at i:21338554 original size:54 final size:55
Alignment explanation
Indices: 21338496--21338733 Score: 179
Period size: 54 Copynumber: 4.4 Consensus size: 55
21338486 CTCGATTTAC
*
21338496 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CC-TCTAGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTC-AGTTTGT
*** * *
21338550 AAAATTACCAAAATACCAC-TGGTTTGTGAAATTACCGAAATACCC-TCAATTTGT
1 AAAATTACCAAAATACC-CTTGGTTTACAAAATTACCAAAATACCCTTCAGTTTGT
* * * * *
21338604 AAAATTACCAAAATACACC-T-GATTACAAAATTA-CAGAAATGCCCTTGACTTTCT
1 AAAATTACCAAAATAC-CCTTGGTTTACAAAATTACCA-AAATACCCTTCAGTTTGT
* ** ** *
21338658 AAAAATTA-TAGAAATACTATTGGTTTACAAAATTACTGAAATACCCTT-GGTTTGT
1 -AAAATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCTTCAGTTTGT
* * *
21338713 AGATTTACCAAAACACCCTTG
1 AAAATTACCAAAATACCCTTG
21338734 TAGGATGAAA
Statistics
Matches: 142, Mismatches: 31, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
52 1 0.01
53 16 0.11
54 79 0.56
55 25 0.18
56 21 0.15
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (55 bp):
AAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTCAGTTTGT
Found at i:21338698 original size:27 final size:27
Alignment explanation
Indices: 21338659--21338710 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
21338649 TGACTTTCTA
*
21338659 AAAATTATAGAAATACTATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
21338686 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
21338711 GTAGATTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:21338828 original size:27 final size:26
Alignment explanation
Indices: 21338751--21338828 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
21338741 AAATGACTAA
* *
21338751 AATACCCCTAATAGGTAAAAAGACCGT
1 AATACCCCTTAT-GGTAAAATGACCGT
* *
21338778 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCT-TATGGTAAAATGACCGT
21338805 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCT-TATGGTAAAATGAC
21338829 GAATATGCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 1 0.02
27 38 0.93
28 2 0.05
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (26 bp):
AATACCCCTTATGGTAAAATGACCGT
Found at i:21339676 original size:25 final size:25
Alignment explanation
Indices: 21339638--21339707 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
21339628 AGGAAGTGCT
* *
21339638 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
21339663 AAAAGGGCTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
21339688 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
21339708 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:21339720 original size:24 final size:24
Alignment explanation
Indices: 21339637--21339732 Score: 86
Period size: 25 Copynumber: 3.9 Consensus size: 24
21339627 GAGGAAGTGC
*
21339637 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTATGCCCCAGTTTA-T
* * *
21339662 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTATGCCCCAGTTTAT
* *
21339686 CAAAAAGGGCTTTGCCCCAG-TTAT
1 -TAAAAGGGCTATGCCCCAGTTTAT
*
21339710 TAAAAGAGGCTAGGCCTCCAGTT
1 TAAAAG-GGCTATGCC-CCAGTT
21339733 ATATGATAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
23 5 0.09
24 11 0.19
25 41 0.71
26 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
TAAAAGGGCTATGCCCCAGTTTAT
Found at i:21339976 original size:31 final size:31
Alignment explanation
Indices: 21339927--21340009 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
21339917 CGTTTACAGT
21339927 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21339957 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
21339988 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
21340010 TCGAGACTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:21341893 original size:21 final size:21
Alignment explanation
Indices: 21341867--21341924 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
21341857 GTGAAGGGTA
21341867 GCACATGGCCGTGTGACAGAG
1 GCACATGGCCGTGTGACAGAG
* *
21341888 GCACATGCCCGTGTGGTGCAGAG
1 GCACATGGCCGTGT-G-ACAGAG
21341911 GCAC--GGCCGTGTGA
1 GCACATGGCCGTGTGA
21341925 TCAGGCTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
20 1 0.03
21 20 0.65
22 1 0.03
23 9 0.29
ACGTcount: A:0.19, C:0.26, G:0.40, T:0.16
Consensus pattern (21 bp):
GCACATGGCCGTGTGACAGAG
Found at i:21345987 original size:3 final size:3
Alignment explanation
Indices: 21345981--21346009 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
21345971 ATATCAAAAC
21345981 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21346010 TAAATGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21348508 original size:43 final size:44
Alignment explanation
Indices: 21348430--21348522 Score: 127
Period size: 43 Copynumber: 2.1 Consensus size: 44
21348420 TTTAGGGAGA
* * *
21348430 CAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTT
1 CAAGGTCTGTAAATTTCAACCTATTACCCTACTGCTTA-GGGGTT
*
21348475 -AAGGTCTGTAAATTT-AACCTGTTACCCTACTGCTTAGGGGTT
1 CAAGGTCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTT
21348517 CAAGGT
1 CAAGGT
21348523 TTGGTGAATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
42 6 0.14
43 24 0.56
44 13 0.30
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (44 bp):
CAAGGTCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGTT
Found at i:21350868 original size:4 final size:4
Alignment explanation
Indices: 21350859--21350886 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
21350849 AAATGATGTA
21350859 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
21350887 GGTCTCTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:21362001 original size:16 final size:16
Alignment explanation
Indices: 21361980--21362011 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21361970 ATCAAGAATG
21361980 TTATTAAATTATATTT
1 TTATTAAATTATATTT
*
21361996 TTATTAAGTTATATTT
1 TTATTAAATTATATTT
21362012 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTATTAAATTATATTT
Found at i:21364503 original size:28 final size:28
Alignment explanation
Indices: 21364464--21364518 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
21364454 TAGAAAATAG
* * *
21364464 GGGAAGTCTGCCAAGGACTCTCTTAAGA
1 GGGAAATCTGCCAAGGAATATCTTAAGA
21364492 GGGAAATCTGCCAAGGAATATCTTAAG
1 GGGAAATCTGCCAAGGAATATCTTAAG
21364519 TGGAATGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.22
Consensus pattern (28 bp):
GGGAAATCTGCCAAGGAATATCTTAAGA
Found at i:21375907 original size:15 final size:16
Alignment explanation
Indices: 21375866--21375912 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 16
21375856 AAGAAATACT
*
21375866 CAACAAAACAATGTTG
1 CAACAAAAGAATGTTG
**
21375882 C-ACAAGTGAAT-TTG
1 CAACAAAAGAATGTTG
21375896 CAACAAAAGAATGTTG
1 CAACAAAAGAATGTTG
21375912 C
1 C
21375913 TCAAGTTGCT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
14 4 0.17
15 15 0.62
16 5 0.21
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (16 bp):
CAACAAAAGAATGTTG
Found at i:21382475 original size:22 final size:21
Alignment explanation
Indices: 21382449--21382490 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21382439 ATTAAATTTC
21382449 CAAGATTACAAGATCATATCTT
1 CAAGATTAC-AGATCATATCTT
* *
21382471 CAAGATTGCATATCATATCT
1 CAAGATTACAGATCATATCT
21382491 AAGATTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
CAAGATTACAGATCATATCTT
Found at i:21382484 original size:16 final size:16
Alignment explanation
Indices: 21382463--21382513 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
21382453 ATTACAAGAT
21382463 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
21382479 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
21382498 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
21382514 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:21382496 original size:19 final size:21
Alignment explanation
Indices: 21382461--21382503 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
21382451 AGATTACAAG
21382461 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
21382482 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
21382501 ATC
1 ATC
21382504 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:21383255 original size:206 final size:206
Alignment explanation
Indices: 21382901--21383834 Score: 1521
Period size: 206 Copynumber: 4.5 Consensus size: 206
21382891 ATCTATTTTT
* *
21382901 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGCGAAAACCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* * * * *
21382966 ACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTC
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA
* * *
21383031 TAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCCTCCGTCGAATATGGAGACGCCAAACTAC
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
21383096 GATTTGTTCTC
196 GATTTGTTCTC
* *
21383107 TGACAATACAGAGATGCCAAATCATCTTAGATTTGTTTCATCGTAAGCAGGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
*
21383172 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA
* * * *
21383237 TAAACATCTGAAGGTTAGATCTGCTATTTGTCTGCTGTCCGTTGAATATGGAGACGCCAAACTTT
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
21383302 GATTTGTTCTC
196 GATTTGTTCTC
*
21383313 TAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
* *
21383378 GCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGAATGCCAAATCATCTTGGATCTGCTTCAGTA
66 GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA
*
21383443 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACACCAAACTTC
131 TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
*
21383508 AATTTGTTCTC
196 GATTTGTTCTC
21383519 TGTACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATC
1 TG-ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATC
* *
21383584 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCACCTTGGATCTACTTCAGT
65 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGT
* * ** * * *
21383649 ATAAACATATAAAGGCCAGATCTACTATGTGTCTGCTCTCTGTTGAATATGGAGACGCCAAACTT
130 ATAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTT
21383714 CGATTTGTTCTC
195 CGATTTGTTCTC
* *
21383726 TGACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCAGT-GTAAAC-CGTGAAAGCCAAATC
1 TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCA-TCGTAAGCACGTGAAAGCCAAATC
* *
21383789 AGCTATATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCTAAATC
65 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATC
21383835 TGCTATCTTC
Statistics
Matches: 681, Mismatches: 45, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
205 59 0.09
206 428 0.63
207 194 0.28
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCACGTGAAAGCCAAATCA
GCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCAGTA
TAAACATCTGAAGGTTAGATCTGCTATGTGTCTGCTCTCCGTCGAATATGGAGACGCCAAACTTC
GATTTGTTCTC
Found at i:21383852 original size:44 final size:44
Alignment explanation
Indices: 21383794--21384099 Score: 180
Period size: 44 Copynumber: 7.0 Consensus size: 44
21383784 AAATCAGCTA
* * * *
21383794 TATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCTAAATCTGC
1 TATCTTCGACTTGTTCCCTATAAACACAAGGATGCTAAATCTGC
* * * *
21383838 TATCTTCAACTTGTTCCCTATAAACACAGGGATGC--CATGCTGA
1 TATCTTCGACTTGTTCCCTATAAACACAAGGATGCTAAAT-CTGC
* * * * * *
21383881 AATCTTCGA-TCTGCTTCGCTGTAAGCAC-AGGAATGTTAGATCTGC
1 TATCTTCGACT-TG-TTCCCTATAAACACAAGG-ATGCTAAATCTGC
* * * *
21383926 AATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 TATCTTCGACTTGTTCCCTATAAACACAAGGATGCTAAATCTGC
* * * * *
21383970 TATCTTCAACTTGTTCACTATAAACACAGGGATGC--CATGCTGA
1 TATCTTCGACTTGTTCCCTATAAACACAAGGATGCTAAAT-CTGC
* * * * * *
21384013 AATCTTCGA-TCTGTTTCACTATAAGCA-TAGGAAT-ATCAGATCTGC
1 TATCTTCGACT-TG-TTCCCTATAAACACAAGG-ATGCT-AAATCTGC
* * *
21384058 TATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
1 TATCTTCGACTTGTTCCCTATAAACACAAGGATGCTAAATCT
21384100 TGTTTCTTTG
Statistics
Matches: 198, Mismatches: 46, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
42 6 0.03
43 28 0.14
44 127 0.64
45 31 0.16
46 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
TATCTTCGACTTGTTCCCTATAAACACAAGGATGCTAAATCTGC
Found at i:21383909 original size:88 final size:87
Alignment explanation
Indices: 21383795--21383962 Score: 241
Period size: 88 Copynumber: 1.9 Consensus size: 87
21383785 AATCAGCTAT
* *
21383795 ATCTTCGATTTGTTCCTTGTAAGCACAAGG-ATGCTAAATCTGCTATCTTCAACTTGTTCCCTAT
1 ATCTTCGATCTGTTCCTTGTAAGCAC-AGGAATGCTAAATCTGCAATCTTCAACTTGTTCCCTAT
21383859 AAACACAGGGATGCCATGCTGAA
65 AAACACAGGGATGCCATGCTGAA
* * * *
21383882 ATCTTCGATCTGCTTCGC-TGTAAGCACAGGAATGTTAGATCTGCAATCTTCGATTTGTTCCCTA
1 ATCTTCGATCTG-TTC-CTTGTAAGCACAGGAATGCTAAATCTGCAATCTTCAACTTGTTCCCTA
21383946 TAAACACAGGGATGCCA
64 TAAACACAGGGATGCCA
21383963 AATCTGCTAT
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
87 14 0.19
88 57 0.79
89 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (87 bp):
ATCTTCGATCTGTTCCTTGTAAGCACAGGAATGCTAAATCTGCAATCTTCAACTTGTTCCCTATA
AACACAGGGATGCCATGCTGAA
Found at i:21383960 original size:132 final size:132
Alignment explanation
Indices: 21383795--21384099 Score: 493
Period size: 132 Copynumber: 2.3 Consensus size: 132
21383785 AATCAGCTAT
* * * * * *
21383795 ATCTTCGATTTGTTCCTTGTAAGCACAAGGATGCTAAATCTGCTATCTTCAACTTGTTCCCTATA
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCACTATA
* * * *
21383860 AACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCGCTGTAAGCACAGGAATGTTAGATCTG
66 AACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATATCAGATCTG
21383925 CA
131 CA
21383927 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCACTATA
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCACTATA
* *
21383992 AACACAGGGATGCCATGCTGAAATCTTCGATCTGTTTCACTATAAGCATAGGAATATCAGATCTG
66 AACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATATCAGATCTG
*
21384057 CT
131 CA
21384059 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
1 ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCT
21384100 TGTTTCTTTG
Statistics
Matches: 160, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 160 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (132 bp):
ATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTTCACTATA
AACACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTATAAGCACAGGAATATCAGATCTG
CA
Found at i:21383998 original size:88 final size:84
Alignment explanation
Indices: 21383832--21384087 Score: 217
Period size: 88 Copynumber: 2.9 Consensus size: 84
21383822 AGGATGCTAA
* * * **
21383832 ATCTGCTATCTTCAACTTGTTCCCTATAAACACAGGGATGCC-ATGCTGAAATCTTCGATCTGCT
1 ATCTGCAATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAT-CTGCTATCTTCGAT-TG-T
* * * *
21383896 TCGCTGTAAGCACAGGAATGTTAG
63 TCACTATAAACACAGGAATG--AC
*
21383920 ATCTGCAATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAACTTGTT
1 ATCTGCAATCTTCGATTTGTTCCCTATAAACACAGGGATGCC-AATCTGCTATCTTCGA-TTGTT
* *
21383985 CACTATAAACACAGGGATGCC
64 CACTATAAACACAGGAATGAC
* * * * * * **
21384006 ATGCTGAAATCTTCGATCTGTTTCACTATAAGCATAGGAATATCAGATCTGCTATCTTCGATTTG
1 AT-CTGCAATCTTCGATTTG-TTCCCTATAAACACAGGGATGCCA-ATCTGCTATCTTCGA-TTG
*
21384071 TTCCCTATAAACACAGG
62 TTCACTATAAACACAGG
21384088 GATGCCAAAT
Statistics
Matches: 139, Mismatches: 23, Indels: 12
0.80 0.13 0.07
Matches are distributed among these distances:
86 2 0.01
87 16 0.12
88 106 0.76
89 12 0.09
90 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (84 bp):
ATCTGCAATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAATCTGCTATCTTCGATTGTTCA
CTATAAACACAGGAATGAC
Found at i:21384970 original size:14 final size:15
Alignment explanation
Indices: 21384951--21384986 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
21384941 TTGGCCACTC
21384951 CATTTTTCT-TTTTT
1 CATTTTTCTCTTTTT
21384965 CATTTTTCTCTTTTT
1 CATTTTTCTCTTTTT
*
21384980 TATTTTT
1 CATTTTT
21384987 ATTGTCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (15 bp):
CATTTTTCTCTTTTT
Found at i:21390631 original size:22 final size:21
Alignment explanation
Indices: 21390601--21390666 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
21390591 TATAAATTAA
21390601 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
21390623 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
21390644 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
21390663 ATCT
1 ATCT
21390667 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:21390660 original size:14 final size:15
Alignment explanation
Indices: 21390640--21391471 Score: 433
Period size: 19 Copynumber: 46.5 Consensus size: 15
21390630 AGATTGCATA
21390640 TCATATCTAAGATTG
1 TCATATCTAAGATTG
21390655 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390674 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390691 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390710 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390727 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390746 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390763 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390782 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390799 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390818 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390835 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390854 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390871 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390890 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390907 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390926 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390943 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390962 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21390979 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21390998 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391015 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391034 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391051 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391070 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391087 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391106 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391123 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391142 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391159 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391178 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391195 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391214 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391231 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391250 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391267 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391286 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391303 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391322 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391339 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391358 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391375 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391394 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391411 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391430 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
21391447 CATATCATATCTAAGATTG
1 ----TCATATCTAAGATTG
21391466 -CATATC
1 TCATATC
21391472 CTTAAAGATT
Statistics
Matches: 769, Mismatches: 0, Indels: 93
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.01
17 374 0.49
19 389 0.51
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:21390682 original size:36 final size:36
Alignment explanation
Indices: 21390618--21391465 Score: 1660
Period size: 36 Copynumber: 23.4 Consensus size: 36
21390608 AGATTACAAG
21390618 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG--TATCATATCTAAGATTGCAT
21390658 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390694 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390730 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390766 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390802 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390838 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390874 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390910 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390946 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21390982 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391018 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391054 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391090 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391126 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391162 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391198 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391234 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391270 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391306 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391342 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391378 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391414 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
21391450 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
21391466 CATATCCTTA
Statistics
Matches: 808, Mismatches: 0, Indels: 4
1.00 0.00 0.00
Matches are distributed among these distances:
36 792 0.98
38 7 0.01
39 1 0.00
40 8 0.01
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (36 bp):
ATCATATCTAAGATTGTATCATATCTAAGATTGCAT
Found at i:21401530 original size:19 final size:19
Alignment explanation
Indices: 21401508--21401547 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21401498 GACTTGAAGA
*
21401508 TTTATATATATATAAATAG
1 TTTACATATATATAAATAG
* *
21401527 TTTACATTTGTATAAATAG
1 TTTACATATATATAAATAG
21401546 TT
1 TT
21401548 AAGAGTATTT
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:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (19 bp):
TTTACATATATATAAATAG
Found at i:21403399 original size:3 final size:3
Alignment explanation
Indices: 21403391--21403489 Score: 198
Period size: 3 Copynumber: 33.0 Consensus size: 3
21403381 ATTCAAACAC
21403391 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21403439 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21403487 TAT
1 TAT
21403490 NTACTCATCT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21403521 original size:17 final size:17
Alignment explanation
Indices: 21403499--21403543 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
21403489 TNTACTCATC
21403499 TATTTATATTTC-TTAT
1 TATTTATATTTCATTAT
21403515 GTATTTATATTTTCATTAT
1 -TATTTATA-TTTCATTAT
21403534 TA-TTATATTT
1 TATTTATATTT
21403544 TAGATATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 3 0.12
17 13 0.50
18 6 0.23
19 4 0.15
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTTATATTTCATTAT
Found at i:21403588 original size:26 final size:26
Alignment explanation
Indices: 21403532--21403589 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
21403522 TATTTTCATT
21403532 ATTA-TTATATTTTAGATATTATATC
1 ATTATTTATATTTTAGATATTATATC
*
21403557 -TATATTTATA-TTTAGGTATTAATATC
1 AT-TATTTATATTTTAGATATT-ATATC
21403583 ATTATTT
1 ATTATTT
21403590 TACTATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
24 1 0.04
25 11 0.39
26 15 0.54
27 1 0.04
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.57
Consensus pattern (26 bp):
ATTATTTATATTTTAGATATTATATC
Done.