Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 132 of 373
Found at i:43596327 original size:143 final size:143
Alignment explanation
Indices: 43596155--43596418 Score: 501
Period size: 143 Copynumber: 1.8 Consensus size: 143
43596145 TATATACACT
43596155 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
1 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
* *
43596220 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACAT
43596285 CGGCCATTAGGCC
131 CGGCCATTAGGCC
43596298 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
1 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
*
43596363 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATTCACAT
43596419 CACAATTATC
Statistics
Matches: 118, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 118 1.00
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (143 bp):
TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACATTCACATTCATCACAT
CGGCCATTAGGCC
Found at i:43596329 original size:96 final size:96
Alignment explanation
Indices: 43596155--43596418 Score: 437
Period size: 96 Copynumber: 2.8 Consensus size: 96
43596145 TATATACACT
* *
43596155 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATA
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATA
*
43596218 CACTTTCACATTCATCACATCGGCTATTAGGCC
64 CACTTTCACATTCATCACATCGGCCATTAGGCC
43596251 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
* *
43596316 CTTTCACATTCATCACATTGGCCATTCGGCC
66 CTTTCACATTCATCACATCGGCCATTAGGCC
43596347 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
43596412 --TTCACAT
66 CTTTCACAT
43596419 CACAATTATC
Statistics
Matches: 161, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
94 52 0.32
96 109 0.68
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (96 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:43596386 original size:47 final size:47
Alignment explanation
Indices: 43596155--43596418 Score: 429
Period size: 47 Copynumber: 5.5 Consensus size: 47
43596145 TATATACACT
* *
43596155 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
43596204 TTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
43596251 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
43596298 TTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCC
1 TTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
43596347 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* *
43596394 TTATCACATATATATACATTCACAT
1 TTATCACATATATACACTTTCACAT
43596419 CACAATTATC
Statistics
Matches: 203, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
47 151 0.74
49 52 0.26
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:43604815 original size:46 final size:45
Alignment explanation
Indices: 43604743--43604914 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 45
43604733 AACCCGCCCC
* *
43604743 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGAGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* * * *
43604789 TAAGAGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGAGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCATCCA
*** *
43604835 TGTCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGA-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCATCCA
* *
43604882 TAAGTGAACTCGGACTCAACTCAACGACTTCGG
1 TAAGAGAACTCGGACTCAACTCAACGAGTTCGG
43604915 ATGCTCAACC
Statistics
Matches: 102, Mismatches: 19, Indels: 10
0.78 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 65 0.64
47 34 0.33
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (45 bp):
TAAGAGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCATCCA
Found at i:43604857 original size:93 final size:93
Alignment explanation
Indices: 43604748--43604918 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
43604738 GCCCCTAAGT
* *
43604748 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGAGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
*
43604813 CGAGTTCGGATGCCTAGTTACATGTCAC
66 CGACTTCGGATGCCTAGTTACATGTCAC
* *
43604841 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
43604906 CGACTTCGGATGC
66 CGACTTCGGATGC
43604919 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
CGACTTCGGATGCCTAGTTACATGTCAC
Found at i:43605370 original size:30 final size:30
Alignment explanation
Indices: 43605336--43605395 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43605326 ATTTAATACG
43605336 AACTTTGAAAAAATTACACTTTTGCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
*** *
43605366 AACTTTTTCATAATTACACTTTTGCCCCTA
1 AACTTTGAAAAAATTACACTTTTGCCCCTA
43605396 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTGAAAAAATTACACTTTTGCCCCTA
Found at i:43607946 original size:25 final size:25
Alignment explanation
Indices: 43607918--43607965 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
43607908 TTATAATATG
** *
43607918 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
43607943 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
43607966 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:43608028 original size:11 final size:11
Alignment explanation
Indices: 43608012--43608049 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
43608002 ACATGAATTG
43608012 ACATGATATGC
1 ACATGATATGC
43608023 ACATGATATG-
1 ACATGATATGC
*
43608033 -TATGATATGC
1 ACATGATATGC
43608043 ACATGAT
1 ACATGAT
43608050 GTATTCATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 8 0.35
11 15 0.65
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:43608148 original size:25 final size:25
Alignment explanation
Indices: 43608096--43608189 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
43608086 GAGGAAGTGC
43608096 AAAAGGGCTTTGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
43608120 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
43608145 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
43608170 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
43608190 ATTAAAAGAG
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
24 17 0.26
25 49 0.74
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:43608213 original size:50 final size:50
Alignment explanation
Indices: 43608096--43608214 Score: 127
Period size: 49 Copynumber: 2.4 Consensus size: 50
43608086 GAGGAAGTGC
** * *
43608096 AAAAGGGCTTTGCCCCAG-TTACCGAAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTAGGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTTACCG
** **
43608145 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTACCCCAG-TTA-TT
1 AAAAGGGCTAGGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTTACCG
43608193 AAAAGAGGCTAGGCCTCCAGTT
1 AAAAG-GGCTAGGCC-CCAGTT
43608215 ATATATTAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
48 5 0.08
49 28 0.46
50 28 0.46
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTAGGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTTACCG
Found at i:43608460 original size:30 final size:31
Alignment explanation
Indices: 43608420--43608515 Score: 149
Period size: 31 Copynumber: 3.1 Consensus size: 31
43608410 AAGGCTTTGA
43608420 CCCAGTGATATGAATAATG-AAAGACTTCGG
1 CCCAGTGATATGAATAATGAAAAGACTTCGG
* *
43608450 CCCAGAGATATGAATAATGAAAAGTCTTCGG
1 CCCAGTGATATGAATAATGAAAAGACTTCGG
* *
43608481 CCCAGTGATATGAATAATGCAAAGGCTTCGG
1 CCCAGTGATATGAATAATGAAAAGACTTCGG
43608512 CCCA
1 CCCA
43608516 TTATATGCTG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 18 0.30
31 42 0.70
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (31 bp):
CCCAGTGATATGAATAATGAAAAGACTTCGG
Found at i:43609343 original size:43 final size:43
Alignment explanation
Indices: 43609296--43609401 Score: 131
Period size: 43 Copynumber: 2.5 Consensus size: 43
43609286 TCCCATATAT
* * * *
43609296 GGTCTTACATGTTATCACATATTGATTCCTCTGTCCCAGACAG
1 GGTCTTACATGTAATCACACATTGATGCCACTGTCCCAGACAG
* * *
43609339 GGTCTTACATGTAATCTCACATTGATGCCAGTGTCCCAGACAT
1 GGTCTTACATGTAATCACACATTGATGCCACTGTCCCAGACAG
* *
43609382 GGTCTTACACGAAATCACAC
1 GGTCTTACATGTAATCACAC
43609402 CTCGGAAGTC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAATCACACATTGATGCCACTGTCCCAGACAG
Found at i:43615633 original size:22 final size:26
Alignment explanation
Indices: 43615594--43615642 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 26
43615584 TATTAAGTAC
43615594 AATAATATATGACATATATAAA-AAT
1 AATAATATATGACATATATAAAGAAT
43615619 AATAATA-AT-AC-TATATAAAGAAT
1 AATAATATATGACATATATAAAGAAT
43615642 A
1 A
43615643 TACACATGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
23 6 0.26
24 2 0.09
25 7 0.30
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
AATAATATATGACATATATAAAGAAT
Found at i:43629416 original size:27 final size:27
Alignment explanation
Indices: 43629385--43629562 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
43629375 TGAATTGTAC
43629385 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43629412 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43629438 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43629466 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
43629494 AGCACTAAGTGTGCGGTTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43629521 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43629548 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43629563 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43629526 original size:82 final size:81
Alignment explanation
Indices: 43629386--43629541 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43629376 GAATTGTACA
* *
43629386 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
43629451 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
43629467 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGGTTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAGT
*
43629531 GTGCGAGTTGA
64 GTGCGAATTGA
43629542 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43629553 original size:82 final size:81
Alignment explanation
Indices: 43629382--43629562 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
43629372 GATTGAATTG
* *
43629382 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
43629447 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
43629463 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGGTTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43629527 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
43629545 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
43629563 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:43637477 original size:27 final size:27
Alignment explanation
Indices: 43637446--43637623 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
43637436 TGAATTGTAC
*
43637446 AGCACTAAGTGTGAGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43637473 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43637499 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43637527 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
43637555 AGCACTAAGTGTGCGATTTGACTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * * *
43637582 AGCACTAAGTGTGCGAGTTGATTTTAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43637609 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43637624 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43637560 original size:82 final size:81
Alignment explanation
Indices: 43637447--43637602 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43637437 GAATTGTACA
* *
43637447 GCACTAAGTGTGAGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGAGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43637511 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
43637528 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
1 GCACTAAGTGTGAGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
43637593 TGCGAGTTGA
65 TGCGAATTGA
43637603 TTTTATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.21
82 51 0.77
83 1 0.02
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGAGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:43639675 original size:40 final size:40
Alignment explanation
Indices: 43639477--43639694 Score: 271
Period size: 40 Copynumber: 5.5 Consensus size: 40
43639467 TGGATGATAA
* * *
43639477 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
43639517 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43639557 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43639597 CTGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** * * * *
43639637 CCAAGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43639677 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43639695 TACTTGGCTT
Statistics
Matches: 158, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.09
40 143 0.91
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43646023 original size:44 final size:42
Alignment explanation
Indices: 43645960--43646054 Score: 129
Period size: 44 Copynumber: 2.2 Consensus size: 42
43645950 ATGTGCATTC
*
43645960 GTGTAAGACCACGTCTGGGACGTTGCCAT-GGACTTATGATTTAT
1 GTGTAAGACCACGTCTGGGACATTGCCATCGGA-TT-TGATTT-T
* *
43646004 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTTT
1 GTGTAAGACCACGTCTGGGACATTGCCATCGGATTTGATTTT
43646046 GTGTAAGAC
1 GTGTAAGAC
43646055 TCTATCTGGG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
42 10 0.21
43 6 0.13
44 29 0.62
45 2 0.04
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
GTGTAAGACCACGTCTGGGACATTGCCATCGGATTTGATTTT
Found at i:43646063 original size:42 final size:43
Alignment explanation
Indices: 43645960--43646086 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 43
43645950 ATGTGCATTC
* * *
43645960 GTGTAAGACCACGTCTGGGAC-GTTGCCATGGACT-TATGATTTAT
1 GTGTAAGACCAC-TCTGGGACAG-TGGCATCGA-TATTTGATTTAT
*
43646004 GTGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGATTT-T
1 GTGTAAGACCAC-TCTGGGACAGTGGCATCGATATTTGATTTAT
43646046 GTGTAAGACTCTA-TCTGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGAC-C-ACTCTGGGACAGTGGCATCGATATTTGATT
43646087 ACATGCAAGA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
42 28 0.38
43 17 0.23
44 28 0.38
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (43 bp):
GTGTAAGACCACTCTGGGACAGTGGCATCGATATTTGATTTAT
Found at i:43646082 original size:43 final size:42
Alignment explanation
Indices: 43645960--43646086 Score: 127
Period size: 44 Copynumber: 2.9 Consensus size: 42
43645950 ATGTGCATTC
* *
43645960 GTGTAAGACCACGTCTGGGAC-GTTGCCAT-GGACTTATGATTTAT
1 GTGTAAGACCAC-TCTGGGACAG-TGGCATCGTA-TT-TGATTTAT
*
43646004 GTGTAAGACCACGTCTGGGACATTGGCATCGTATTTGATTT-T
1 GTGTAAGACCAC-TCTGGGACAGTGGCATCGTATTTGATTTAT
43646046 GTGTAAGACTCTA-TCTGGGACAGTGGCATCGATATTTGATT
1 GTGTAAGAC-C-ACTCTGGGACAGTGGCATCG-TATTTGATT
43646087 ACATGCAAGA
Statistics
Matches: 74, Mismatches: 4, Indels: 11
0.83 0.04 0.12
Matches are distributed among these distances:
42 27 0.36
43 16 0.22
44 29 0.39
45 2 0.03
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (42 bp):
GTGTAAGACCACTCTGGGACAGTGGCATCGTATTTGATTTAT
Found at i:43646097 original size:43 final size:42
Alignment explanation
Indices: 43646017--43646097 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
43646007 TAAGACCACG
* *** *
43646017 TCTGGGACATTGGCATCGTATTTGATTTTGTGTAAGACTCTA
1 TCTGGGACAGTGGCATCGTATTTGATTACATGCAAGACTCTA
43646059 TCTGGGACAGTGGCATCGATATTTGATTACATGCAAGAC
1 TCTGGGACAGTGGCATCG-TATTTGATTACATGCAAGAC
43646098 CACGTCTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
42 17 0.52
43 16 0.48
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
TCTGGGACAGTGGCATCGTATTTGATTACATGCAAGACTCTA
Found at i:43646304 original size:67 final size:67
Alignment explanation
Indices: 43646222--43646357 Score: 272
Period size: 67 Copynumber: 2.0 Consensus size: 67
43646212 CCGATTCTAG
43646222 TACGTTTGAAATGTATACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
1 TACGTTTGAAATGTATACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
43646287 TA
66 TA
43646289 TACGTTTGAAATGTATACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
1 TACGTTTGAAATGTATACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
43646354 TA
66 TA
43646356 TA
1 TA
43646358 AGTATGAGAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 69 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.35
Consensus pattern (67 bp):
TACGTTTGAAATGTATACTATGTTTGAGAGCAAAGGTAAGTATATGTACAAGTGATGATATGTGA
TA
Found at i:43646925 original size:10 final size:10
Alignment explanation
Indices: 43646885--43646931 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
43646875 TATTGAATAA
*
43646885 TATGCTTTGG
1 TATGATTTGG
43646895 TATGATTTTGG
1 TATGA-TTTGG
*
43646906 TTTAGATTTGG
1 TAT-GATTTGG
43646917 TATGATTTGG
1 TATGATTTGG
43646927 T-TGAT
1 TATGAT
43646932 AAATTGAGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 4 0.12
10 12 0.38
11 14 0.44
12 2 0.06
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:43652652 original size:56 final size:56
Alignment explanation
Indices: 43652592--43652726 Score: 234
Period size: 56 Copynumber: 2.4 Consensus size: 56
43652582 TCCTCGACAG
* * *
43652592 GGTCTTACTCACACACATATATCGAAGTCACATATCGATGCCAACGTATTTAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACAAATCGATGCCAACGTATTAAACGT
43652648 GGTCTTACTCGCACACATATATCGAAGTCACAAATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTCACAAATCGATGCCAACGTATTAAACGT
*
43652704 GGTCTTACTCGCACACTTATATC
1 GGTCTTACTCGCACACATATATC
43652727 AATGCCATGG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTCACAAATCGATGCCAACGTATTAAACGT
Found at i:43654957 original size:16 final size:16
Alignment explanation
Indices: 43654936--43654967 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43654926 CCCACATTTG
43654936 GGCTTTTCACCTTTTC
1 GGCTTTTCACCTTTTC
*
43654952 GGCTTTTCAGCTTTTC
1 GGCTTTTCACCTTTTC
43654968 AGCCTTTGCC
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:0.06, C:0.28, G:0.16, T:0.50
Consensus pattern (16 bp):
GGCTTTTCACCTTTTC
Found at i:43662918 original size:56 final size:57
Alignment explanation
Indices: 43662847--43662983 Score: 179
Period size: 56 Copynumber: 2.4 Consensus size: 57
43662837 TCCTAGACAG
* *** *
43662847 GGTCTTACTCACACACATATATCGA-AGTCAAATATTGGTGCCAACGTATAAAACAT
1 GGTCTTACTCGCACACATATATCGAGAGTCAAATATCAATGCCAACATATAAAACAT
* * *
43662903 GGTCTTACTCGCACACATATATC-AGAGTCACATATCAATGCCAACATATTAAACGT
1 GGTCTTACTCGCACACATATATCGAGAGTCAAATATCAATGCCAACATATAAAACAT
*
43662959 GGTCTTACTCGAACACATATATCGA
1 GGTCTTACTCGCACACATATATCGA
43662984 TGCCACGGTC
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
55 1 0.01
56 68 0.97
57 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (57 bp):
GGTCTTACTCGCACACATATATCGAGAGTCAAATATCAATGCCAACATATAAAACAT
Found at i:43662995 original size:31 final size:31
Alignment explanation
Indices: 43662959--43663030 Score: 117
Period size: 31 Copynumber: 2.3 Consensus size: 31
43662949 TATTAAACGT
43662959 GGTCTTACTCGAACACATATATCGATGCCAC
1 GGTCTTACTCGAACACATATATCGATGCCAC
* *
43662990 GGTCTTACTTGCACACATATATCGATGCCAC
1 GGTCTTACTCGAACACATATATCGATGCCAC
*
43663021 TGTCTTACTC
1 GGTCTTACTC
43663031 CCACATCACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (31 bp):
GGTCTTACTCGAACACATATATCGATGCCAC
Found at i:43663166 original size:29 final size:29
Alignment explanation
Indices: 43663128--43663187 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
43663118 GTCAAAACAA
43663128 ACTTGTAAACATAGTTCCCAAGTATAAAC
1 ACTTGTAAACATAGTTCCCAAGTATAAAC
43663157 ACTTGTAAACATAGTTCCCAAGTATAAAC
1 ACTTGTAAACATAGTTCCCAAGTATAAAC
43663186 AC
1 AC
43663188 ATTCAACTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.42, C:0.22, G:0.10, T:0.27
Consensus pattern (29 bp):
ACTTGTAAACATAGTTCCCAAGTATAAAC
Found at i:43666416 original size:40 final size:40
Alignment explanation
Indices: 43666326--43666543 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
43666316 AAACCAAGTA
* * *
43666326 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCACACAAATG
* *
43666365 CCTTCGGGACTTAGCCCGGTTATAATAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* *
43666405 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
*
43666445 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
* * * *
43666485 GCTTCGGGGCTTAGCCTGGA-ATTAGTCACT-AGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCA-CACAAATG
43666525 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43666544 TTATCATCCG
Statistics
Matches: 157, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
Found at i:43666458 original size:80 final size:79
Alignment explanation
Indices: 43666326--43666547 Score: 304
Period size: 80 Copynumber: 2.8 Consensus size: 79
43666316 AAACCAAGTA
* *
43666326 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAA
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAA
43666390 TAACTCACACAAATG
65 TAACTCACACAAATG
* * *
43666405 CCTTCGAGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAA
*
43666470 TAACTCGCACAAATG
65 TAACTCACACAAATG
* * * *
43666485 GCTTCGGGGCTTAGCCTGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
43666548 CATCCGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
79 14 0.11
80 113 0.89
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAAT
AACTCACACAAATG
Found at i:43674704 original size:40 final size:40
Alignment explanation
Indices: 43674602--43674815 Score: 296
Period size: 39 Copynumber: 5.5 Consensus size: 40
43674592 AAACCAAGTA
* * *
43674602 CCTTCGGGATTTAG-CCGGATATAGCT-ACTTGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
43674641 CCTT-GGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43674680 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43674720 CCTT-GGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43674759 CCTTCGGGGCTTAG-CCGGA-ATAGTCACTAGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43674797 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43674816 TTATCATCCG
Statistics
Matches: 158, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
38 38 0.24
39 75 0.47
40 45 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43674732 original size:79 final size:77
Alignment explanation
Indices: 43674602--43674819 Score: 312
Period size: 79 Copynumber: 2.8 Consensus size: 77
43674592 AAACCAAGTA
* * *
43674602 CCTTCGGGATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTGGGACTTAGCCCGGTTATAGTA
1 CCTTCGGGACTTAGCCGGATATAG-TACTAGCACAAATGCCTTGGGACTTAGCCCGGTTATAGTA
43674667 ACTCGCACAAATG
65 ACTCGCACAAATG
* * *
43674680 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATGCCTTGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAG-CCGGATATAGT-ACTAGCACAAATGCCTTGGGACTTAGCCCGGTTATAGT
43674745 AACTCGCACAAATG
64 AACTCGCACAAATG
* *
43674759 CCTTCGGGGCTTAGCCGGA-ATAGTCACTAGCACAAATTCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCGGATATAGT-ACTAGCACAAATGCCTT-GGGACTTAGCCCGGTTAT
43674820 CATCCGAATA
Statistics
Matches: 126, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
77 20 0.16
78 35 0.28
79 71 0.56
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (77 bp):
CCTTCGGGACTTAGCCGGATATAGTACTAGCACAAATGCCTTGGGACTTAGCCCGGTTATAGTAA
CTCGCACAAATG
Found at i:43682953 original size:40 final size:40
Alignment explanation
Indices: 43682883--43683139 Score: 385
Period size: 40 Copynumber: 6.5 Consensus size: 40
43682873 AAACCAAGTA
* *
43682883 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
43682922 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43682962 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
43683002 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
43683042 CCTTCAGGACTTAGCCCGGATATAGTAACTCGGACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
43683082 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43683122 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
43683140 ATTACGATCC
Statistics
Matches: 199, Mismatches: 16, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
39 14 0.07
40 185 0.93
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43688546 original size:40 final size:40
Alignment explanation
Indices: 43688497--43688606 Score: 166
Period size: 40 Copynumber: 2.8 Consensus size: 40
43688487 TAACGAAAAA
* *
43688497 TCGGTTATATATGGCACTTAGTGTGTGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
*
43688537 TCGGCTATATATGGCACTTAGTGTACGATTCGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
* * *
43688577 TTGTCTATATATGGAACTTAGTGTGCGATT
1 TCGGCTATATATGGCACTTAGTGTGCGATT
43688607 TAAGATAGAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (40 bp):
TCGGCTATATATGGCACTTAGTGTGCGATTCGACATAGCT
Found at i:43699680 original size:39 final size:38
Alignment explanation
Indices: 43699624--43699748 Score: 178
Period size: 39 Copynumber: 3.2 Consensus size: 38
43699614 TTCAGTGATG
43699624 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGAC-TAGGGTCCGCAGGCTATGTGCTGGAAT
*
43699663 TATATCCGGACTCAGGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACT-AGGGTCCGCAGGCTATGTGCTGGAAT
* * *
43699702 TATATCCGGACATAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGAC-TAGGGTCCGCAGGCTATGTGCTGGAAT
*
43699741 TATGTCCG
1 TATATCCG
43699749 AGCTAAAGTC
Statistics
Matches: 78, Mismatches: 6, Indels: 4
0.89 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 76 0.97
40 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (38 bp):
TATATCCGGACTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:43699763 original size:39 final size:38
Alignment explanation
Indices: 43699624--43699767 Score: 173
Period size: 39 Copynumber: 3.7 Consensus size: 38
43699614 TTCAGTGATG
*
43699624 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGAC-TAAGGTCCGCAGGCTATGTGCTGGAAT
* *
43699663 TATATCCGGACTCAGGGTCCGCAGGCTATATGCTGGAAT
1 TATATCCGGACT-AAGGTCCGCAGGCTATGTGCTGGAAT
* *
43699702 TATATCCGGACATAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGAC-TAAGGTCCGCAGGCTATGTGCTGGAAT
* *
43699741 TATGTCC-GAGCTAAAGTCCCGCAGGCT
1 TATATCCGGA-CTAAGGT-CCGCAGGCT
43699768 TCGAGTTGGT
Statistics
Matches: 94, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
38 8 0.09
39 85 0.90
40 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (38 bp):
TATATCCGGACTAAGGTCCGCAGGCTATGTGCTGGAAT
Found at i:43699783 original size:78 final size:78
Alignment explanation
Indices: 43699624--43699767 Score: 193
Period size: 78 Copynumber: 1.8 Consensus size: 78
43699614 TTCAGTGATG
* * * * **
43699624 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGGACTCAGGGTCCGCAGGC
1 TATATCCGGACATAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTCAAAGTCCGCAGGC
43699689 TATATGCTGGAAT
66 TATATGCTGGAAT
*
43699702 TATATCCGGACATAAGGTCCGCAGGCTACGTGCTGGAAATATGTCC-GAGCT-AAAGTCCCGCAG
1 TATATCCGGACATAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGA-CTCAAAGT-CCGCAG
43699765 GCT
64 GCT
43699768 TCGAGTTGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
77 5 0.09
78 52 0.91
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (78 bp):
TATATCCGGACATAAGGTCCGCAGGCTACGTGCTGGAAATATATCCGGACTCAAAGTCCGCAGGC
TATATGCTGGAAT
Found at i:43706502 original size:39 final size:39
Alignment explanation
Indices: 43706448--43706573 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
43706438 TTCAGTGATG
*
43706448 TATATCCGGACTTAGGGTCCGCAGGCTATGTACTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
43706487 TATATTCGGACTTAGGGTCCGCAAGCTATGTGCTCGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
43706526 TATATCCGGACTTAAGGTCCACAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
43706565 TATGTCCGG
1 TATATCCGG
43706574 GCTAAAGTCC
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:43713460 original size:27 final size:28
Alignment explanation
Indices: 43713422--43713483 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
43713412 AAAAATAAAA
* *
43713422 AAAATAAAATGTAATATAATATA-ATAT
1 AAAATAAAATGTAAAACAATATATATAT
*
43713449 AAAATAACATGTAAAACAATATATATAT
1 AAAATAAAATGTAAAACAATATATATAT
43713477 -AAATAAA
1 AAAATAAA
43713484 TAATAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 26 0.87
28 4 0.13
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAATAAAATGTAAAACAATATATATAT
Found at i:43713490 original size:27 final size:27
Alignment explanation
Indices: 43713402--43713479 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
43713392 ATGATATACG
*
43713402 TAACATATAAAA-AA-ATAA-AAAAAA
1 TAACATATAAAACAATATAATATAAAA
* * * *
43713426 TAAAATGTAATATAATATAATATAAAA
1 TAACATATAAAACAATATAATATAAAA
*
43713453 TAACATGTAAAACAATATATATATAAA
1 TAACATATAAAACAATATA-ATATAAA
43713480 TAAATAATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
24 9 0.21
25 2 0.05
26 4 0.09
27 21 0.49
28 7 0.16
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.27
Consensus pattern (27 bp):
TAACATATAAAACAATATAATATAAAA
Found at i:43713502 original size:30 final size:30
Alignment explanation
Indices: 43713466--43713529 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
43713456 CATGTAAAAC
43713466 AATATATAT-ATAAATA-AATAATAAATATAT
1 AATATATATGA-AAATATAATAATAAATA-AT
* *
43713496 AATATATGTGAAAATATAATAATATATAAT
1 AATATATATGAAAATATAATAATAAATAAT
43713526 AATA
1 AATA
43713530 ATTTGAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
AATATATATGAAAATATAATAATAAATAAT
Found at i:43715422 original size:83 final size:83
Alignment explanation
Indices: 43715266--43715617 Score: 614
Period size: 83 Copynumber: 4.2 Consensus size: 83
43715256 TTCGATTTGT
* * *
43715266 AAGGATGTCAAATCATCTTGAGTCTGTTTGAGAACATTTAAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
* *
43715331 TTTTTTCCTTGTATGCAC
66 TTTGTTCCTTGTAAGCAC
* *
43715349 AATGATGCCAAACCATCTTGAGTCTGTTTGAAAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
*
43715414 TTTGTTCCTCGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
43715432 AATGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
43715497 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
*
43715515 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGTAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
43715580 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
43715598 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
43715618 GATCTGCTTC
Statistics
Matches: 257, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 257 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:43716018 original size:119 final size:119
Alignment explanation
Indices: 43715541--43716015 Score: 790
Period size: 119 Copynumber: 4.0 Consensus size: 119
43715531 CTTGAGTCTG
* * * *
43715541 TTTGAGAACATTTGAGAGTCATATCTG-TAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATG
1 TTTGAGAACATCTGAGAGTCAAATCTGCT-ATGTCCTCGATTTGTTCCTTGTAAACACAAGAATG
* * *
43715605 CCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAAGTTAGATCTGTTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
43715660 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
43715725 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
*
43715779 TTTGAGAACATTTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
43715844 CAAATCATCTTGGATCTGCTTCAGTATAAACATTTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
43715898 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
43715963 CAAATCATCTTGTATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTAT
43716016 CTTCGATTTG
Statistics
Matches: 335, Mismatches: 20, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
119 334 1.00
120 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:43716055 original size:44 final size:44
Alignment explanation
Indices: 43716007--43716186 Score: 150
Period size: 44 Copynumber: 4.1 Consensus size: 44
43715997 TGAAGGTTAG
* *
43716007 ATCTGCTATCTTCGATTTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
* *
43716051 ATCTGCTATCTTTAA-CTTTTTCCCTATAAACACAGGGATGCC--
1 ATCTGCTATCTTCAATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
43716093 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCATAGGAATGTCAG
1 AT-CTGCTATCTTCAATCTG-TTCCCTATAAACACAGGGATGCCAA
* ** * *
43716139 ATCTACTATCTTTGATCTATTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
43716183 ATCT
1 ATCT
43716187 TGTTTCTTTG
Statistics
Matches: 104, Mismatches: 26, Indels: 12
0.73 0.18 0.08
Matches are distributed among these distances:
42 2 0.02
43 11 0.11
44 78 0.75
45 11 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATCTGCTATCTTCAATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:43717084 original size:20 final size:18
Alignment explanation
Indices: 43717058--43717100 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 18
43717048 CCTCTCCATC
43717058 TTTTTCTTTTTTCTCTTTT
1 TTTTTCTTTTTT-TCTTTT
43717077 TCTTTTCTTTTTTTCTTTT
1 T-TTTTCTTTTTTTCTTTT
43717096 TTTTT
1 TTTTT
43717101 TTGAAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 4 0.17
19 8 0.35
20 11 0.48
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTTTT
Found at i:43717100 original size:13 final size:13
Alignment explanation
Indices: 43717058--43717102 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
43717048 CCTCTCCATC
43717058 TTTTTCTTTTTTCT
1 TTTTTCTTTTTT-T
*
43717072 CTTTTTCTTTTCTT
1 -TTTTTCTTTTTTT
43717086 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
43717099 TTTT
1 TTTT
43717103 GAAATAGAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 16 0.57
14 1 0.04
15 11 0.39
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:43717102 original size:20 final size:20
Alignment explanation
Indices: 43717058--43717101 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
43717048 CCTCTCCATC
43717058 TTTTTCTTTTTTCTCTTTTT
1 TTTTTCTTTTTTCTCTTTTT
*
43717078 CTTTTCTTTTTT-TCTTTTT
1 TTTTTCTTTTTTCTCTTTTT
43717097 TTTTT
1 TTTTT
43717102 TGAAATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (20 bp):
TTTTTCTTTTTTCTCTTTTT
Found at i:43720490 original size:40 final size:40
Alignment explanation
Indices: 43720328--43720483 Score: 226
Period size: 40 Copynumber: 3.9 Consensus size: 40
43720318 TATTCGGATG
43720328 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
43720368 A-ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
43720408 A-AATCCAGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
43720448 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
43720484 AGCTATATCC
Statistics
Matches: 103, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 100 0.97
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:43728308 original size:39 final size:39
Alignment explanation
Indices: 43728177--43728357 Score: 238
Period size: 40 Copynumber: 4.6 Consensus size: 39
43728167 TTTGGTATTC
* * ** *
43728177 GGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATTCCG
1 GGCTAAGTCCCGAAG-GCATTTGTGCGAGTTACT-ATACCG
*
43728217 GGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-CCG
*
43728257 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCG
* *
43728296 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACAATAACCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-ACCG
43728336 GGCTAAGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
43728358 AGCTAGTGGC
Statistics
Matches: 127, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 37 0.29
40 88 0.69
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATACCG
Found at i:43728390 original size:79 final size:80
Alignment explanation
Indices: 43728177--43728380 Score: 281
Period size: 79 Copynumber: 2.6 Consensus size: 80
43728167 TTTGGTATTC
43728177 GGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATTCCGGGCTAAGTCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCTATA-TCCGGGCTAAGTCCCGAAGGCATTTGT
* * *
43728240 GCGAGCTACTATATCCG
64 GCAAGCTACAATAACCG
* * ***
43728257 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
*
43728321 AAGTTACAATAACCG
66 AAGCTACAATAACCG
43728336 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAA
43728381 ACTCTGAAGG
Statistics
Matches: 107, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 76 0.71
80 28 0.26
81 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
AAGCTACAATAACCG
Found at i:43730388 original size:39 final size:40
Alignment explanation
Indices: 43730273--43730454 Score: 173
Period size: 39 Copynumber: 4.7 Consensus size: 40
43730263 TTGAATGATG
* * *
43730273 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
43730312 ATCCGGACTAAGAT-CCGAAGGCATTTGTGC-AGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43730352 TCCGGGCTAAG-CCCGATGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
43730391 TCCGGG-TAAGTCCCGAAGGCAATTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
43730429 AACCGGGCTATGT-CTGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43730455 AACGAGTAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
38 20 0.17
39 67 0.56
40 24 0.20
41 8 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:43748720 original size:40 final size:40
Alignment explanation
Indices: 43748650--43748867 Score: 280
Period size: 40 Copynumber: 5.5 Consensus size: 40
43748640 AAGCCAAGTA
* * * *
43748650 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
43748689 CCTTCGGGACATAGCCAGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43748729 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
43748769 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
43748809 CCTTCGGAACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
43748849 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
43748868 TTATCATCCA
Statistics
Matches: 159, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 13 0.08
40 146 0.92
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:43750154 original size:11 final size:10
Alignment explanation
Indices: 43750124--43750162 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
43750114 ACATGAGAGC
43750124 CTTTCTTTTT
1 CTTTCTTTTT
*
43750134 TTTTCTTTTT
1 CTTTCTTTTT
43750144 CTTTCTCTTTT
1 CTTTCT-TTTT
43750155 CTTT-TTTT
1 CTTTCTTTT
43750163 CATCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:43750805 original size:12 final size:12
Alignment explanation
Indices: 43750788--43750818 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43750778 GAAGTCTAAG
43750788 AACATAAAAATA
1 AACATAAAAATA
43750800 AACATAAAAATA
1 AACATAAAAATA
*
43750812 AAAATAA
1 AACATAA
43750819 GATAAACAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (12 bp):
AACATAAAAATA
Found at i:43754070 original size:34 final size:34
Alignment explanation
Indices: 43754032--43754128 Score: 124
Period size: 34 Copynumber: 2.9 Consensus size: 34
43754022 TCTGATTCTA
43754032 TACTGAATTGGGCTAAGGCCCACACTGATACTGC
1 TACTGAATTGGGCTAAGGCCCACACTGATACTGC
* *
43754066 TACTGTAA-TGGGCTAAAGCCCACACTGATATTGC
1 TACTG-AATTGGGCTAAGGCCCACACTGATACTGC
** * *
43754100 TACTGGTTTGGGCTTAGGCCCAGACTGAT
1 TACTGAATTGGGCTAAGGCCCACACTGAT
43754129 CAACACTATA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
34 52 0.96
35 2 0.04
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (34 bp):
TACTGAATTGGGCTAAGGCCCACACTGATACTGC
Found at i:43755623 original size:196 final size:195
Alignment explanation
Indices: 43755290--43755680 Score: 710
Period size: 196 Copynumber: 2.0 Consensus size: 195
43755280 CTGGTACTGT
*
43755290 AGGTCGTGGGTCGGTAACAGAACAACTCAGGTCTAATGGGGCTGAGATCTTTAGGGTATCGCTGG
1 AGGTCGTGGGTCGGTAACAGAACAACTCAGGTCTAATGGGGCTGAGATCTTTAGGGTATCACTGG
43755355 GGCTGTCCCTAATGTGGCTGAATATTGGATTGAGGCCACAGAGAGGACCATGGATGATCTCGACT
66 GGCTGTCCCTAATGTGGCTGAATATTGGATTGAGGCCACAGAGAGGACCATGGATGATCTCGACT
43755420 ACACCCTAAAGCAGAAACTGAAAGGTGCAGTGTCGTTGTTGCAAGATGAAGCCTATCAGTGGTGG
131 ACACCCTAAAGCAGAAACTGAAAGGTGCAGTGTCGTTGTTGCAAGATGAAGCCTATCAGTGGTGG
* *
43755485 AGGTCGTGGGTCGGTAACGGAGCAACTCAGGTCTAATGGGGCTGAGATCTTTAAGGGTATCACTG
1 AGGTCGTGGGTCGGTAACAGAACAACTCAGGTCTAATGGGGCTGAGATCTTT-AGGGTATCACTG
* *
43755550 GGGTTGTCCCTAATGTGGCTGAATATTGGATTGAGGCCACAGAGAGGATCATGGATGATCTCGAC
65 GGGCTGTCCCTAATGTGGCTGAATATTGGATTGAGGCCACAGAGAGGACCATGGATGATCTCGAC
* *
43755615 TGCACCCTAGAGCAGAAACTGAAAGGTGCAGTGTCGTTGTTGCAAGATGAAGCCTATCAGTGGTG
130 TACACCCTAAAGCAGAAACTGAAAGGTGCAGTGTCGTTGTTGCAAGATGAAGCCTATCAGTGGTG
43755680 G
195 G
43755681 CTTACTGTAA
Statistics
Matches: 188, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
195 50 0.27
196 138 0.73
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (195 bp):
AGGTCGTGGGTCGGTAACAGAACAACTCAGGTCTAATGGGGCTGAGATCTTTAGGGTATCACTGG
GGCTGTCCCTAATGTGGCTGAATATTGGATTGAGGCCACAGAGAGGACCATGGATGATCTCGACT
ACACCCTAAAGCAGAAACTGAAAGGTGCAGTGTCGTTGTTGCAAGATGAAGCCTATCAGTGGTGG
Found at i:43757762 original size:40 final size:40
Alignment explanation
Indices: 43757664--43757926 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
43757654 TCCTCGTTCA
* * * * * *
43757664 AATGCCTTCGGGACATAGCCTGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
43757703 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
43757743 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
43757783 AATGCCTTCGGGACTTAACCCGAATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
43757823 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * * *
43757863 AAGGCCTT-AGGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
43757903 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43757927 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 151 0.77
41 8 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43765700 original size:40 final size:39
Alignment explanation
Indices: 43765602--43765824 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
43765592 TCCTCGTTCA
* * * * *
43765602 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
43765641 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
43765680 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
43765720 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* * * * * *
43765760 AAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
43765801 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
43765825 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:43765824 original size:120 final size:119
Alignment explanation
Indices: 43765602--43765824 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
43765592 TCCTCGTTCA
* * * *
43765602 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
43765667 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
43765721 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
43765785 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
43765825 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:43771294 original size:14 final size:12
Alignment explanation
Indices: 43771264--43771294 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
43771254 AGGGAGAAGA
43771264 GGAGAGATTTAG
1 GGAGAGATTTAG
43771276 GGAGAGATTTAG
1 GGAGAGATTTAG
*
43771288 GAAGAGA
1 GGAGAGA
43771295 ATTAAGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.42, T:0.19
Consensus pattern (12 bp):
GGAGAGATTTAG
Found at i:43773219 original size:50 final size:49
Alignment explanation
Indices: 43773110--43773284 Score: 219
Period size: 50 Copynumber: 3.5 Consensus size: 49
43773100 CTGGTACGAA
* *
43773110 TAGTAG-CTGCACTTAGTACTACACATGCGACCAATTATCCT-ATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTAT-CTGATACACG
**
43773158 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGATACACG
* * * * *
43773208 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGATACACG
43773259 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
43773285 TGCGACCTCA
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
48 6 0.05
49 26 0.23
50 44 0.40
51 35 0.32
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACG
Found at i:43773292 original size:101 final size:98
Alignment explanation
Indices: 43773110--43773292 Score: 249
Period size: 101 Copynumber: 1.8 Consensus size: 98
43773100 CTGGTACGAA
* * *
43773110 TAGTAGCTGCACTTAGTACTACACATGCGACCAATTATCCTATACACGTAGTAGCCTGCACTTAG
1 TAGTAGCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACATAGTAGCCTGCACTTAG
*
43773175 TACTACACACGTGACCTAACCATCTGATACACG
66 TACTACACACGCGACCTAACCATCTGATACACG
* * * * *
43773208 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAG-CTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGATACACATAGTAGCCTGCACT
*
43773273 TAGTACTACACATGCGACCT
63 TAGTACTACACACGCGACCT
43773293 CACAATAGAT
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
98 6 0.08
99 22 0.31
100 3 0.04
101 41 0.57
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (98 bp):
TAGTAGCTGCACTTAGTACTACACACGCGACCAATTATCCGATACACATAGTAGCCTGCACTTAG
TACTACACACGCGACCTAACCATCTGATACACG
Found at i:43779313 original size:79 final size:79
Alignment explanation
Indices: 43779202--43779424 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
43779192 GCTCCTCGTT
* * * *
43779202 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
43779266 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
43779282 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
43779345 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
43779360 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
43779422 GGA
63 GGA
43779425 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 46 0.37
79 56 0.44
80 23 0.18
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:43779319 original size:39 final size:40
Alignment explanation
Indices: 43779202--43779424 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
43779192 GCTCCTCGTT
* * *
43779202 CAAATGCCTTCGGGACATATCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
43779242 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43779282 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
43779321 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
43779360 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
43779401 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43779425 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:43782465 original size:22 final size:22
Alignment explanation
Indices: 43782419--43782465 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
43782409 AATCCCCACA
*
43782419 TAGAGTGTAGGGCTGGATAGAG
1 TAGAGTGTAGGGATGGATAGAG
*
43782441 TAGAGTGTAGAGGATGGTTAG-G
1 TAGAGTGTAG-GGATGGATAGAG
43782463 TAG
1 TAG
43782466 GATCTTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.28, C:0.02, G:0.45, T:0.26
Consensus pattern (22 bp):
TAGAGTGTAGGGATGGATAGAG
Found at i:43782573 original size:34 final size:34
Alignment explanation
Indices: 43782498--43782562 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
43782488 TCTATACTAA
* *
43782498 ATTGGGCTAAGGCCCATACTGGTACTGCTACCGT
1 ATTGGGCTAAGACCCATACTGATACTGCTACCGT
* *
43782532 AATGGGCTAAGACCCATACTGATATTGCTAC
1 ATTGGGCTAAGACCCATACTGATACTGCTAC
43782563 TGGTTTGGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (34 bp):
ATTGGGCTAAGACCCATACTGATACTGCTACCGT
Found at i:43789145 original size:16 final size:16
Alignment explanation
Indices: 43789124--43789154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43789114 TAAAAATTAT
*
43789124 TATTAATTAAATTTCC
1 TATTAATAAAATTTCC
43789140 TATTAATAAAATTTC
1 TATTAATAAAATTTC
43789155 AATATAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTAATAAAATTTCC
Found at i:43798274 original size:41 final size:42
Alignment explanation
Indices: 43798193--43798322 Score: 120
Period size: 41 Copynumber: 3.0 Consensus size: 42
43798183 CGTTTACTCG
** * ** *
43798193 ATGTCATAGTTCAACTATGGTCTTACACATCTTCATATATC-
1 ATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCA
43798234 ATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCACA
1 ATGTCATAGCCCAACTATGGTCTTACACGTAATCACATAT--CA
*
43798278 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATC
1 -AT-G-T--CATAGCCCAACTATGGTCTTACACGTAATCACATATC
43798323 TCACTAATGC
Statistics
Matches: 74, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
41 34 0.46
43 1 0.01
45 2 0.03
46 2 0.03
47 1 0.01
48 10 0.14
49 24 0.32
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (42 bp):
ATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCA
Found at i:43798291 original size:49 final size:47
Alignment explanation
Indices: 43798229--43798322 Score: 152
Period size: 49 Copynumber: 2.0 Consensus size: 47
43798219 ACATCTTCAT
*
43798229 ATATCATGTCATAGCCCAACTATGGTCTTACACGTAATCACATATCAC
1 ATATCATGCCATAGCCCAACTATGGTCTTACACG-AATCACATATCAC
*
43798277 ATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATC
1 ATATC-ATGCCATAGCCCAACTATGGTCTTACACGAATCACATATC
43798323 TCACTAATGC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
48 16 0.37
49 27 0.63
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (47 bp):
ATATCATGCCATAGCCCAACTATGGTCTTACACGAATCACATATCAC
Found at i:43798457 original size:31 final size:31
Alignment explanation
Indices: 43798422--43798570 Score: 181
Period size: 31 Copynumber: 4.8 Consensus size: 31
43798412 CTTGTCACTT
*
43798422 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
43798453 GTAGCTGGAGCTACCATTTTTAACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
43798484 GTAGTCGGAGCTACCACTTTTCACCGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
** *
43798515 GTAGCAAAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
43798546 GTAGTCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
43798571 TGTCATTTGT
Statistics
Matches: 97, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 97 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:43803602 original size:45 final size:45
Alignment explanation
Indices: 43803529--43803735 Score: 321
Period size: 45 Copynumber: 4.6 Consensus size: 45
43803519 TATTCTACGG
*
43803529 TACTATTCGGGCCTTTTGAGCCTAGCAGGCTATGATGTCGGTGAGA
1 TACTATTCGGGCC-TTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
* *
43803575 TACTATTTGGGCCTTTGAGCCTAGCAGGCTATGATGCTGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
43803620 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
* *
43803665 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
*
43803710 TGA-TA-TCGGG-CTTCGAGCCTAGCAGG
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGG
43803736 TGAAATGCCG
Statistics
Matches: 152, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
43 15 0.10
44 5 0.03
45 119 0.78
46 13 0.09
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGA
Found at i:43803683 original size:90 final size:90
Alignment explanation
Indices: 43803529--43803790 Score: 321
Period size: 90 Copynumber: 3.0 Consensus size: 90
43803519 TATTCTACGG
* *
43803529 TACTATTCGGGCCTTTTGAGCCTAGCAGGCTATGATGTCGGTGAGATACTATTTGGGCCTTTGAG
1 TACTATTCGGGCC-TTTGAGCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTTGAG
* * *
43803594 CCTAGCAGGCTATGATGCTGGTGAGA
65 CCTAGCAGGCTATAATGCCGGTGAAA
43803620 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTTGAGC
43803685 CTAGCAGGCTATAATGCCGGTGAAA
66 CTAGCAGGCTATAATGCCGGTGAAA
* *
43803710 TGA-TA-TCGGG-CTTCGAGCCTAGCAGG-TGA-AATGCCGGTG-GATGA--ATTCGGG--TTTA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCT-ATGATGCCGGTGAGAT-ACTATTCGGGCCTTT-
* *
43803765 AAACCTAGCAGGCTA-AATGCCGGTGA
62 GAGCCTAGCAGGCTATAATGCCGGTGA
43803791 TTTGATAAAA
Statistics
Matches: 158, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
83 14 0.09
84 13 0.08
85 7 0.04
86 3 0.02
87 11 0.07
88 16 0.10
89 5 0.03
90 75 0.47
91 14 0.09
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (90 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAGATACTATTCGGGCCTTTGAGC
CTAGCAGGCTATAATGCCGGTGAAA
Found at i:43806307 original size:19 final size:17
Alignment explanation
Indices: 43806283--43806317 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
43806273 ACCACCAATT
43806283 TTTTAATAATTCTTTTATC
1 TTTTAAT-ATT-TTTTATC
43806302 TTTTAATATTTTTTAT
1 TTTTAATATTTTTTAT
43806318 TAATGGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTAATATTTTTTATC
Found at i:43806448 original size:27 final size:27
Alignment explanation
Indices: 43806418--43806485 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
43806408 GGGAGTGGAG
* * *
43806418 CCTATCTGGTTGGCGCCATTGGTAACC
1 CCTATCTGATAGGCGCCACTGGTAACC
* *
43806445 CCTATCTGATAGGCGTCACTGGTGACC
1 CCTATCTGATAGGCGCCACTGGTAACC
*
43806472 CTTATCTGATAGGC
1 CCTATCTGATAGGC
43806486 AGCACCAATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.18, C:0.28, G:0.25, T:0.29
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACTGGTAACC
Found at i:43806599 original size:22 final size:20
Alignment explanation
Indices: 43806574--43806622 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
43806564 GAACGGAAGG
* *
43806574 AAGAAGATAGGGAGAAGAAAGA
1 AAGAAGA-AAGGAGAACAAA-A
43806596 AAGAACGAAAGGAGAACAAAA
1 AAGAA-GAAAGGAGAACAAAA
43806617 AAGAAG
1 AAGAAG
43806623 GATAATGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 6 0.25
22 15 0.62
23 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.31, T:0.02
Consensus pattern (20 bp):
AAGAAGAAAGGAGAACAAAA
Found at i:43809856 original size:18 final size:18
Alignment explanation
Indices: 43809816--43809858 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
43809806 TTTTTAACTA
43809816 ATAATTATAATTTAAATT
1 ATAATTATAATTTAAATT
* *
43809834 CTAATTAT-TTTTAAATGT
1 ATAATTATAATTTAAAT-T
43809852 ATAATTA
1 ATAATTA
43809859 CCACAACTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
ATAATTATAATTTAAATT
Found at i:43809877 original size:44 final size:42
Alignment explanation
Indices: 43809827--43809914 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 42
43809817 TAATTATAAT
43809827 TTAAATT-CTAATTATTTTTAAATGTATAA-TTACCACAACTTCTA
1 TTAAATTGC-AATTATTTTTAAA--TA-AATTTACCACAACTTCTA
*
43809871 TTAAATTGCAATTATTTTTAAATAAATTTATCACAACTTCTA
1 TTAAATTGCAATTATTTTTAAATAAATTTACCACAACTTCTA
43809913 TT
1 TT
43809915 TTATTTTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
41 2 0.05
42 18 0.44
44 20 0.49
45 1 0.02
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (42 bp):
TTAAATTGCAATTATTTTTAAATAAATTTACCACAACTTCTA
Found at i:43810235 original size:48 final size:48
Alignment explanation
Indices: 43810164--43810261 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
43810154 AAATTTGGAC
*
43810164 TTCGCAAGCGTGCTAAAACCTTCTTCATAATTGGCTTTGGAACCCAAT
1 TTCGCAAGCGTGCTAAAACCTTCTTCATAATTGACTTTGGAACCCAAT
43810212 TTCGCAAGCGTGCTAAAACCTTCTTCATAATTGACTTTGGAACCCAAT
1 TTCGCAAGCGTGCTAAAACCTTCTTCATAATTGACTTTGGAACCCAAT
43810260 TT
1 TT
43810262 TTACTCTGAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (48 bp):
TTCGCAAGCGTGCTAAAACCTTCTTCATAATTGACTTTGGAACCCAAT
Found at i:43812675 original size:39 final size:39
Alignment explanation
Indices: 43812631--43812756 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
43812621 TATGAGATTG
43812631 AAAATATCCGGACATGAGGTTCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTTCGCAGGCTATATGCTGGA
*
43812670 AAAATATCCGGACATGAGGTTCGAAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGGTTCGCAGGCTATATGCTGGA
** * * ** *
43812709 AAAATATTTGGACTTGAGGTCCGCAGGCTACGTGCTAGA
1 AAAATATCCGGACATGAGGTTCGCAGGCTATATGCTGGA
43812748 AAAATATCC
1 AAAATATCC
43812757 TAGTTAAAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (39 bp):
AAAATATCCGGACATGAGGTTCGCAGGCTATATGCTGGA
Found at i:43815602 original size:14 final size:14
Alignment explanation
Indices: 43815583--43815611 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43815573 GTGGTTCACG
43815583 GGTATGTCAAAGAT
1 GGTATGTCAAAGAT
43815597 GGTATGTCAAAGAT
1 GGTATGTCAAAGAT
43815611 G
1 G
43815612 AGAATAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.31, T:0.28
Consensus pattern (14 bp):
GGTATGTCAAAGAT
Found at i:43818558 original size:93 final size:93
Alignment explanation
Indices: 43818445--43818616 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
43818435 CGCCCATAAG
*
43818445 CGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
43818509 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* * *
43818538 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
43818603 ATGTGTTCGGATGC
66 ACGAGTTCGGATGC
43818617 TCAATCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43818611 original size:46 final size:46
Alignment explanation
Indices: 43818438--43818613 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
43818428 TGTAACCCGC
* * * *
43818438 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCACAT
*
43818484 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
43818534 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCTCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
* * *
43818577 CCATAAGTGAACTCGGACTCAACTCAATGTGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43818614 TGCTCAATCA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 58 0.54
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:43826088 original size:45 final size:46
Alignment explanation
Indices: 43825994--43826112 Score: 179
Period size: 45 Copynumber: 2.6 Consensus size: 46
43825984 CCCATAAACA
* *
43825994 AACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTG
43826040 AACTCGGACTCAACTCAACG-GTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
* *
43826085 AACTCGGACTCAACTCAATGTGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
43826113 TGCTCATCAT
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
44 2 0.03
45 39 0.57
46 27 0.40
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
Found at i:43841569 original size:93 final size:92
Alignment explanation
Indices: 43841458--43841628 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 92
43841448 CGCCCATAAG
*
43841458 CGAACTCGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43841522 ACGAGTTCGGATGCCTAGTTACATCTCA
65 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43841550 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43841615 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
43841629 TCAATCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
92 9 0.12
93 66 0.88
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (92 bp):
CGAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43841623 original size:46 final size:46
Alignment explanation
Indices: 43841451--43841625 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
43841441 TGTAACCCGC
* *
43841451 CCATAAGCGAACTC-GACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
43841496 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
43841546 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
43841589 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
43841626 TGCTCAATCA
Statistics
Matches: 110, Mismatches: 9, Indels: 21
0.79 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 17 0.15
46 47 0.43
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:43849120 original size:46 final size:46
Alignment explanation
Indices: 43849003--43849122 Score: 188
Period size: 46 Copynumber: 2.6 Consensus size: 46
43848993 CCCATAAACA
* *
43849003 AACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTG
43849049 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
* *
43849095 AACTCGGACTCAACTCAATGTGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
43849123 TGCTCAATCA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 2 0.03
46 67 0.97
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
Found at i:43855018 original size:43 final size:43
Alignment explanation
Indices: 43854966--43855163 Score: 324
Period size: 43 Copynumber: 4.6 Consensus size: 43
43854956 CCGGCATTAC
* * * *
43854966 GCCTACTAGGCATGAAGGCTCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
43855009 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
43855052 GCCTGCTATGCACGAAGGCCCGAATACATATCACTGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
43855095 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
43855138 GCTTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
43855164 TAATACCAAC
Statistics
Matches: 144, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 144 1.00
ACGTcount: A:0.30, C:0.31, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:43855221 original size:38 final size:38
Alignment explanation
Indices: 43855161--43855263 Score: 125
Period size: 38 Copynumber: 2.7 Consensus size: 38
43855151 GAAGGCCCGA
* * * *
43855161 ATATAATACCAACACTAGGCCTGCGGGATTTATCCCAG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCAG
* *
43855199 ATATAATACCAGCACAAAGCCTGCGAGATTTAACCCGG
1 ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCAG
** *
43855237 ATATTTTACCAGCACGAAGCCTGCGGG
1 ATATAATACCAGCACAAAGCCTGCGGG
43855264 TCTTTAAGCC
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 55 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACAAAGCCTGCGGGATTTAACCCAG
Found at i:43859200 original size:15 final size:17
Alignment explanation
Indices: 43859170--43859201 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
43859160 TTGATACTTG
43859170 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
43859187 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
43859202 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:43867664 original size:30 final size:30
Alignment explanation
Indices: 43867630--43867689 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
43867620 CTTTAATACG
*
43867630 AACTTTGGCAAAAATACATTTTTGCCCCTA
1 AACTTTGGCAAAAATACACTTTTGCCCCTA
* * * *
43867660 AACTTTTGCATAATTACACTTTTGTCCCTA
1 AACTTTGGCAAAAATACACTTTTGCCCCTA
43867690 GGCTCGGGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAAATACACTTTTGCCCCTA
Found at i:43876679 original size:56 final size:56
Alignment explanation
Indices: 43876607--43876830 Score: 299
Period size: 56 Copynumber: 4.0 Consensus size: 56
43876597 TCTTACACGT
*** * *
43876607 AATCACATATCGATGCCACTGTCCCAGACAG-GGTCTTACTCGCAGACATATATCGA
1 AATCACATATCGATGCCACTGTATTAAAC-GTGGTCTTACTCGCACACATATATCGA
* * *
43876663 AGTCACATATCGATGCCAAC-GTATTAAACGTAGTCTTACTCACACACATATATCGA
1 AATCACATATCGATGCC-ACTGTATTAAACGTGGTCTTACTCGCACACATATATCGA
*
43876719 AATCACATATCGATGCCAATGTATTAAACGTGGTCTTACTCGCACACATATATCGA
1 AATCACATATCGATGCCACTGTATTAAACGTGGTCTTACTCGCACACATATATCGA
* * * *
43876775 AATCACATATCGATGCCAATGTATTAAAGGTGGTCTTACTCACACACAAATATCGA
1 AATCACATATCGATGCCACTGTATTAAACGTGGTCTTACTCGCACACATATATCGA
43876831 TGCCATGGTC
Statistics
Matches: 150, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
55 2 0.01
56 146 0.97
57 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (56 bp):
AATCACATATCGATGCCACTGTATTAAACGTGGTCTTACTCGCACACATATATCGA
Found at i:43876811 original size:112 final size:112
Alignment explanation
Indices: 43876607--43876830 Score: 333
Period size: 112 Copynumber: 2.0 Consensus size: 112
43876597 TCTTACACGT
* * * * *
43876607 AATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACTCGCAGACATATATCGAAGTCACATA
1 AATCACATATCGATGCCAATGTACCAAACAGGGTCTTACTCGCACACATATATCGAAATCACATA
*
43876672 TCGATGCCAACGTATTAAACGTAGTCTTACTCACACACATATATCGA
66 TCGATGCCAACGTATTAAACGTAGTCTTACTCACACACAAATATCGA
**
43876719 AATCACATATCGATGCCAATGTATTAAAC-GTGGTCTTACTCGCACACATATATCGAAATCACAT
1 AATCACATATCGATGCCAATGTACCAAACAG-GGTCTTACTCGCACACATATATCGAAATCACAT
* * *
43876783 ATCGATGCCAATGTATTAAAGGTGGTCTTACTCACACACAAATATCGA
65 ATCGATGCCAACGTATTAAACGTAGTCTTACTCACACACAAATATCGA
43876831 TGCCATGGTC
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 99 0.99
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (112 bp):
AATCACATATCGATGCCAATGTACCAAACAGGGTCTTACTCGCACACATATATCGAAATCACATA
TCGATGCCAACGTATTAAACGTAGTCTTACTCACACACAAATATCGA
Found at i:43883332 original size:56 final size:56
Alignment explanation
Indices: 43883272--43883407 Score: 191
Period size: 56 Copynumber: 2.4 Consensus size: 56
43883262 CCCAGATAGA
* *
43883272 GTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAATGCATTAAACGTG
1 GTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACATG
** * * * *
43883328 GTCTTACTCATACACATATATCGGATTCACATATCGATGCCAACGTATTAAATATG
1 GTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACATG
*
43883384 GTCTTTCTCGCACACATATATCGA
1 GTCTTACTCGCACACATATATCGA
43883408 TGCCATGATC
Statistics
Matches: 68, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (56 bp):
GTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGCATTAAACATG
Found at i:43887869 original size:38 final size:38
Alignment explanation
Indices: 43887818--43887893 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
43887808 ACTTACATGC
43887818 ACTTACCCAAGTTAGCT-CAATGCTTAAGCCCTAAAATG
1 ACTTACCCAAGTTAGCTGC-ATGCTTAAGCCCTAAAATG
43887856 ACTTACCCAAGTTAGCTGCATGCTTAAGCCCTAAAATG
1 ACTTACCCAAGTTAGCTGCATGCTTAAGCCCTAAAATG
43887894 GTGTCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (38 bp):
ACTTACCCAAGTTAGCTGCATGCTTAAGCCCTAAAATG
Found at i:43889215 original size:31 final size:31
Alignment explanation
Indices: 43889167--43889252 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
43889157 TCAATCTCAG
43889167 CATAT-ACTGGGCTGAAGCCTTTACATTATT
1 CATATCACTGGGCTGAAGCCTTTACATTATT
* * *
43889197 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCTGAAGCCTTTACATTATT
43889228 CATATCACTGGGCTGAAGCCTTTAC
1 CATATCACTGGGCTGAAGCCTTTAC
43889253 TGTAAACGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 4 0.08
31 45 0.92
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (31 bp):
CATATCACTGGGCTGAAGCCTTTACATTATT
Found at i:43889484 original size:24 final size:24
Alignment explanation
Indices: 43889457--43889539 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
43889447 CTGGAAGCCT
*
43889457 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGAGGCAA
*
43889481 AGCCCTTTTTGATAAACTGAGGCAA
1 AGCCC-TTTTAATAAACTGAGGCAA
**
43889506 AGCCCTTTTCGGTAAACTG-GAGCAA
1 AGCCCTTTT-AATAAACTGAG-GCAA
43889531 AGCCCTTTT
1 AGCCCTTTT
43889540 GCACTTCCTC
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
23 1 0.02
24 15 0.29
25 36 0.69
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGAGGCAA
Found at i:43889498 original size:25 final size:25
Alignment explanation
Indices: 43889470--43889539 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
43889460 CTCTTTTAAT
*
43889470 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
43889495 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
43889520 AACTGGAGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
43889540 GCACTTCCTC
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:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:43889612 original size:20 final size:20
Alignment explanation
Indices: 43889587--43889643 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
43889577 TATATGAATT
43889587 TATCATGTGCATAT-ATTACA
1 TATCATGTGCATATCA-TACA
43889607 TATCATGTGCATATCATACA
1 TATCATGTGCATATCATACA
43889627 TATCATGTGCATATCAT
1 TATCATGTGCATATCAT
43889644 GTCAAATCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
TATCATGTGCATATCATACA
Found at i:43889621 original size:11 final size:11
Alignment explanation
Indices: 43889587--43889655 Score: 76
Period size: 11 Copynumber: 6.7 Consensus size: 11
43889577 TATATGAATT
43889587 TATCATGTGCA
1 TATCATGTGCA
*
43889598 TAT-AT-TACA
1 TATCATGTGCA
43889607 TATCATGTGCA
1 TATCATGTGCA
*
43889618 TATCA--TACA
1 TATCATGTGCA
43889627 TATCATGTGCA
1 TATCATGTGCA
43889638 TATCATGT-CA
1 TATCATGTGCA
*
43889648 AATCATGT
1 TATCATGT
43889656 ATATCAAAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
9 14 0.29
10 13 0.27
11 22 0.45
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:43892074 original size:47 final size:47
Alignment explanation
Indices: 43892024--43892335 Score: 446
Period size: 47 Copynumber: 6.6 Consensus size: 47
43892014 ATACATGAGC
* * *
43892024 TAAGGCCGAATGGCAAATGTCATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* *
43892071 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGC
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
43892118 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * *
43892165 TAAGACCGAATGGCCAATGTGATGAATGTGAACATGTATATGTGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * * *
43892212 TAAGGCCGAATGGCCAATGTGAAGAATATGAACATGCATATATGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
* * **
43892259 TAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATACATGTGA
1 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
*
43892306 TAAGGCAGAATGGCCAAA-GTGATGAATGTG
1 TAAGGCCGAATGG-CAAATGTGATGAATGTG
43892336 GATGTGTATA
Statistics
Matches: 246, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 243 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATATGTGTGA
Found at i:43892114 original size:23 final size:23
Alignment explanation
Indices: 43892088--43892161 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
43892078 GAATGGCAAA
43892088 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
43892111 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
43892135 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
43892158 TGTG
1 TGTG
43892162 TGATAAGACC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:43892138 original size:24 final size:24
Alignment explanation
Indices: 43892064--43892138 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
43892054 AACATGCATT
43892064 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
* * **
43892088 TGTGATG--AATG-TGAACAT-GCATT
1 TGTG-TGCTAAGGCCG-A-ATGGCAAA
43892111 TGTGTGCTAAGGCCGAATGGCAAA
1 TGTGTGCTAAGGCCGAATGGCAAA
43892135 TGTG
1 TGTG
43892139 ATGAATGTGA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 13 0.36
24 17 0.47
25 3 0.08
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (24 bp):
TGTGTGCTAAGGCCGAATGGCAAA
Found at i:43892398 original size:46 final size:46
Alignment explanation
Indices: 43892345--43892435 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
43892335 GGATGTGTAT
* * *
43892345 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
43892391 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
43892436 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:43900960 original size:31 final size:31
Alignment explanation
Indices: 43900912--43900997 Score: 138
Period size: 31 Copynumber: 2.8 Consensus size: 31
43900902 TCAATCTCAG
*
43900912 CATAT-ACTGGGCAGAAGCCTTTACATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
* *
43900942 CATGTCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTACATTATT
43900973 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
43900998 TGTAAACGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTATT
Found at i:43901243 original size:25 final size:25
Alignment explanation
Indices: 43901215--43901309 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
43901205 CTCTTTTAAT
* *
43901215 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
43901240 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
43901265 AACTGGGGCAAAACCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
43901290 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
43901310 GCACTTCATC
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 66 1.00
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:43901369 original size:11 final size:11
Alignment explanation
Indices: 43901353--43901401 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
43901343 TATATGAATT
43901353 TATCATGTGCA
1 TATCATGTGCA
*
43901364 TATCA--TACA
1 TATCATGTGCA
43901373 TATCATGTGCA
1 TATCATGTGCA
43901384 TATCATGT-CA
1 TATCATGTGCA
*
43901394 AATCATGT
1 TATCATGT
43901402 ATATCAAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 8 0.24
10 9 0.27
11 16 0.48
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (11 bp):
TATCATGTGCA
Found at i:43915939 original size:27 final size:27
Alignment explanation
Indices: 43915899--43916077 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
43915889 CTATGTTGTA
43915899 TAGCACTAAGTGTGCGATTTGACTATG
1 TAGCACTAAGTGTGCGATTTGACTATG
* ** *
43915926 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATTTGACTATG
* *
43915953 -ATGCACTAAGTGTGCGAATTGACCATG
1 TA-GCACTAAGTGTGCGATTTGACTATG
**
43915980 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TTTGACTATG
* *
43916008 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATTTGACTATG
* * * *
43916035 TAGCACTAAATGTGCGAGTTGATTATA
1 TAGCACTAAGTGTGCGATTTGACTATG
*
43916062 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
43916078 GACTCAATAT
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATTTGACTATG
Found at i:43916041 original size:82 final size:81
Alignment explanation
Indices: 43915901--43916056 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
43915891 ATGTTGTATA
* * *
43915901 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
43915966 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
43915982 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAAT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAAT
*
43916046 GTGCGAGTTGA
64 GTGCGAATTGA
43916057 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:43916068 original size:82 final size:81
Alignment explanation
Indices: 43915897--43916077 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
43915887 GACTATGTTG
* *
43915897 TATAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
*
43915962 GTGTGCGAATTGACCA
66 ATGTGCGAATTGACCA
*** ** *
43915978 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
43916042 AAATGTGCGAGTTGATTA
64 AAATGTGCGAATTGACCA
*
43916060 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
43916078 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
ATGTGCGAATTGACCA
Found at i:43924076 original size:27 final size:27
Alignment explanation
Indices: 43924045--43924222 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
43924035 TAAATTCTAC
43924045 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
43924072 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43924098 ATGCACTAAGTGTGCGAATTCACCATGT
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
43924126 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
43924154 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
43924181 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
43924208 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43924223 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:43924159 original size:82 final size:81
Alignment explanation
Indices: 43924046--43924196 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
43924036 AAATTCTACA
* *
43924046 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
43924110 TGCGAATTCACCATGTG
65 TGCGAATTCACCATGTG
** *
43924127 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
43924192 TGCGA
65 TGCGA
43924197 GTTGATTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.24
82 47 0.75
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTCACCATGTG
Found at i:43924213 original size:82 final size:81
Alignment explanation
Indices: 43924045--43924222 Score: 223
Period size: 82 Copynumber: 2.2 Consensus size: 81
43924035 TAAATTCTAC
* *
43924045 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
*
43924110 TGCGAATTCACCATGT
66 TGCGAATTCACCATAT
* ** *
43924126 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAG
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAG
* * **
43924190 TGTGCGAGTTGATTATAT
64 TGTGCGAATTCACCATAT
*
43924208 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
43924223 GACTCAATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 16 0.20
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTG
TGCGAATTCACCATAT
Found at i:43928515 original size:20 final size:20
Alignment explanation
Indices: 43928490--43928531 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
43928480 CTCTCAAAGC
43928490 AAACAACGACTTTCTACTCA
1 AAACAACGACTTTCTACTCA
**
43928510 AAACAATTACTTTCTACTCA
1 AAACAACGACTTTCTACTCA
43928530 AA
1 AA
43928532 GCATCGGCAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (20 bp):
AAACAACGACTTTCTACTCA
Found at i:43943880 original size:20 final size:20
Alignment explanation
Indices: 43943857--43943897 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43943847 CTGTTTGCTC
43943857 TTTTATTTTGTTTTTTGTTG
1 TTTTATTTTGTTTTTTGTTG
* *
43943877 TTTTTTTTTTTTTTTTGTTG
1 TTTTATTTTGTTTTTTGTTG
43943897 T
1 T
43943898 GATGAAGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.85
Consensus pattern (20 bp):
TTTTATTTTGTTTTTTGTTG
Found at i:43943882 original size:17 final size:17
Alignment explanation
Indices: 43943862--43943895 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43943852 TGCTCTTTTA
43943862 TTTTGTTTTTTGTTGTT
1 TTTTGTTTTTTGTTGTT
* *
43943879 TTTTTTTTTTTTTTGTT
1 TTTTGTTTTTTGTTGTT
43943896 GTGATGAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTGTTTTTTGTTGTT
Found at i:43944263 original size:17 final size:17
Alignment explanation
Indices: 43944234--43944266 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43944224 CTAATTATTC
43944234 TAAAAAAATAAATAAAA
1 TAAAAAAATAAATAAAA
43944251 TAAAATAAA-AAATAAA
1 TAAAA-AAATAAATAAA
43944267 CAAGCTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (17 bp):
TAAAAAAATAAATAAAA
Found at i:43948742 original size:40 final size:40
Alignment explanation
Indices: 43948687--43948941 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
43948677 TGGATGATAA
* * *
43948687 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
43948727 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43948767 CCGGGCTAAGT-CCGAA-GCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43948805 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43948845 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43948885 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43948924 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43948942 TACTTGGCTT
Statistics
Matches: 197, Mismatches: 14, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 46 0.23
39 25 0.13
40 126 0.64
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43948813 original size:78 final size:80
Alignment explanation
Indices: 43948687--43948941 Score: 351
Period size: 78 Copynumber: 3.2 Consensus size: 80
43948677 TGGATGATAA
* * *
43948687 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
*
43948751 GTGCGAGTTATTACAT
65 GTGCGAGTTACTACAT
43948767 CCGGGCTAAGT-CCGAA-GCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
43948830 TGCGAGTTACTATAT
66 TGCGAGTTACTACAT
* *
43948845 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* *
43948909 AGCGAG-TAGCTATAT
66 TGCGAGTTA-CTACAT
* *
43948924 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43948942 TACTTGGCTT
Statistics
Matches: 161, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
77 1 0.01
78 82 0.51
79 26 0.16
80 52 0.32
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTACAT
Done.