Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 363 of 425
Found at i:112086197 original size:27 final size:27
Alignment explanation
Indices: 112086024--112086189 Score: 260
Period size: 27 Copynumber: 6.1 Consensus size: 27
112086014 ACATCTTAAC
* * *
112086024 GGTAAAATGGTAATTTTATAATTCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
112086051 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
112086078 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
* * * *
112086105 GATAAAATAGTGATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
112086132 GGTAAAATGGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTGTAAATCGAG
*
112086159 GGTAAAATGGTAATTCTGTAAATCGGG
1 GGTAAAATGGTAATTCTGTAAATCGAG
112086186 GGTA
1 GGTA
112086190 CTTTGGTATT
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (27 bp):
GGTAAAATGGTAATTCTGTAAATCGAG
Found at i:112086212 original size:81 final size:79
Alignment explanation
Indices: 112086026--112086216 Score: 265
Period size: 81 Copynumber: 2.3 Consensus size: 79
112086016 ATCTTAACGG
*
112086026 TAAAATGGTAATTTTATAATTCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAA
1 TAAAATGGT-ATTTT-TAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAA
112086091 TTCTGTAAATCGAGGA
64 TTCTGTAAATCGAGGA
*
112086107 TAAAATAGTGATTTTGTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAA
1 TAAAATGGT-ATTTT-TAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAA
* *
112086172 TTCTGTAAATCGGGGG
64 TTCTGTAAATCGAGGA
***
112086188 TACTTTGGTATTTTTACAAGTCGAGGGTA
1 TAAAATGGTATTTTTA-AA-TCGAGGGTA
112086217 TTTCAGTAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
79 2 0.02
80 7 0.07
81 89 0.91
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.33
Consensus pattern (79 bp):
TAAAATGGTATTTTTAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATT
CTGTAAATCGAGGA
Found at i:112086215 original size:27 final size:26
Alignment explanation
Indices: 112086125--112086335 Score: 140
Period size: 27 Copynumber: 7.8 Consensus size: 26
112086115 TGATTTTGTA
***
112086125 AATCGAGGGTAAAATGGTAATTCTGTA-
1 AATCGAGGGTATTTTGGTAATT-T-TAC
***
112086152 AATCGAGGGTAAAATGGTAATTCTGTA-
1 AATCGAGGGTATTTTGGTAATT-T-TAC
* * *
112086179 AATCGGGGGTACTTTGGTATTTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
** *
112086205 AAGTCGAGGGTATTTCAGTAATTTCAC
1 AA-TCGAGGGTATTTTGGTAATTTTAC
112086232 AAATC-AGAGGTATTTTGGTAATTTTAC
1 -AATCGAG-GGTATTTTGGTAATTTTAC
* *
112086259 AAACTAAGGGTATTTTGGTAATTTTAC
1 AATC-GAGGGTATTTTGGTAATTTTAC
* * * *
112086286 AAACTGGGGGTGTTTTGGTAATTTTAT
1 AATC-GAGGGTATTTTGGTAATTTTAC
*
112086313 AGGTCGAGGGTATTTTGGTAATT
1 A-ATCGAGGGTATTTTGGTAATT
112086336 CTACCCTACA
Statistics
Matches: 154, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.01
26 8 0.05
27 139 0.90
28 5 0.03
ACGTcount: A:0.29, C:0.08, G:0.25, T:0.37
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:112086236 original size:54 final size:54
Alignment explanation
Indices: 112086178--112086327 Score: 160
Period size: 54 Copynumber: 2.8 Consensus size: 54
112086168 GTAATTCTGT
* *
112086178 AAATCGGGGGTACTTTGGTATTTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
1 AAATCGGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
* * * * ** *
112086232 AAATCAGAGGTATTTTGGTAATTTTACAA-ACTAAGGGTATTTTGGTAATTTTAC
1 AAATCGGGGGTATTTTGGTAATTTTACAAGTC-GAGGGTATTTCAGTAATTTCAC
* * *
112086286 AAA-CTGGGGGTGTTTTGGTAATTTTATAGGTCGAGGGTATTT
1 AAATC-GGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTT
112086328 TGGTAATTCT
Statistics
Matches: 77, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
53 2 0.03
54 74 0.96
55 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (54 bp):
AAATCGGGGGTATTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCAC
Found at i:112086354 original size:27 final size:27
Alignment explanation
Indices: 112086330--112086400 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
112086320 GGGTATTTTG
112086330 GTAATTCTACCCTACAGGGGCATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* * *
112086357 GTACTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGCATTTCA
* *
112086384 GTAATGCTAGCCTACAG
1 GTAATTCTACCCTACAG
112086401 ATATGAGATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGCATTTCA
Found at i:112086715 original size:54 final size:54
Alignment explanation
Indices: 112086632--112086741 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
112086622 CCACAAAGCG
*
112086632 AAAGAGATCAGCCAAGAAGGGTACTTTTACTCTTATCATGGTTTTCTCTATTTA
1 AAAGAGATCAGCCAAGAAGGGTACCTTTACTCTTATCATGGTTTTCTCTATTTA
112086686 AAAGAGATCAGCCAAGAAGGGTACCTTTACTCTTATCATGGTTTTCTCTATTTA
1 AAAGAGATCAGCCAAGAAGGGTACCTTTACTCTTATCATGGTTTTCTCTATTTA
112086740 AA
1 AA
112086742 GCCAGCTTCG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (54 bp):
AAAGAGATCAGCCAAGAAGGGTACCTTTACTCTTATCATGGTTTTCTCTATTTA
Found at i:112087331 original size:30 final size:30
Alignment explanation
Indices: 112087276--112087333 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
112087266 GCTGCGCACT
112087276 TTGATCCTACTATCACTATCACACTTCACG
1 TTGATCCTACTATCACTATCACACTTCACG
112087306 TTGATCCTACTATCACTATCACACTTCA
1 TTGATCCTACTATCACTATCACACTTCA
112087334 ATTAGAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.33, G:0.05, T:0.34
Consensus pattern (30 bp):
TTGATCCTACTATCACTATCACACTTCACG
Found at i:112088351 original size:6 final size:6
Alignment explanation
Indices: 112088321--112088507 Score: 116
Period size: 6 Copynumber: 30.3 Consensus size: 6
112088311 AAGAAACATT
* * *
112088321 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGGTG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * * *
112088371 AT-AGA ATCAAA ATCAAA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* * * *
112088419 TTCAGGTA A-CAGA ATCAGA ATCAGA ACCAGA ATCAAA ATTAGGTA A-CAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* *
112088469 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATTAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
112088508 GTGAATGCAA
Statistics
Matches: 141, Mismatches: 23, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
5 11 0.08
6 111 0.79
7 12 0.09
8 7 0.05
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:112088385 original size:31 final size:31
Alignment explanation
Indices: 112088342--112088507 Score: 143
Period size: 31 Copynumber: 5.5 Consensus size: 31
112088332 AATCAAAATG
* *
112088342 AGAATCAGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
112088373 AGAATCAAAATCAAAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
112088404 AGAATCAGAATCAG--T----TTCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
112088429 AGAATCAGAATCAGAACCAGAATCA--AAATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-C
*
112088459 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAC
*
112088491 AGAATCAGAATTAGAAT
1 AGAATCAGAATCAGAAT
112088508 GTGAATGCAA
Statistics
Matches: 105, Mismatches: 18, Indels: 24
0.71 0.12 0.16
Matches are distributed among these distances:
25 22 0.21
29 3 0.03
30 3 0.03
31 72 0.69
32 3 0.03
33 2 0.02
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:112088409 original size:25 final size:26
Alignment explanation
Indices: 112088381--112088444 Score: 96
Period size: 25 Copynumber: 2.5 Consensus size: 26
112088371 ATAGAATCAA
*
112088381 AATCAAAATCAGAATT-AGGTAACAG
1 AATCAGAATCAGAATTCAGGTAACAG
*
112088406 AATCAGAATCAG-TTTCAGGTAACAG
1 AATCAGAATCAGAATTCAGGTAACAG
112088431 AATCAGAATCAGAA
1 AATCAGAATCAGAA
112088445 CCAGAATCAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (26 bp):
AATCAGAATCAGAATTCAGGTAACAG
Found at i:112088444 original size:37 final size:37
Alignment explanation
Indices: 112088403--112088485 Score: 114
Period size: 37 Copynumber: 2.2 Consensus size: 37
112088393 AATTAGGTAA
**
112088403 CAGAATCAGAATC-AGTTTCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATT-AGGTAACAGAATCAGAAT
*
112088440 CAGAACCAGAATCAAAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATTAGGTAACAGAATCAGAAT
*
112088477 CAGTATCAG
1 CAGAATCAG
112088486 GTAACAGAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 37 0.93
38 3 0.08
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAAAATTAGGTAACAGAATCAGAAT
Found at i:112088474 original size:25 final size:25
Alignment explanation
Indices: 112088440--112088501 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
112088430 GAATCAGAAT
* *
112088440 CAGAACCAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
**
112088465 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
112088490 CAGAATCAGAAT
1 CAGAATCAGAAT
112088502 TAGAATGTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.48, C:0.16, G:0.18, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:112088486 original size:62 final size:62
Alignment explanation
Indices: 112088321--112088506 Score: 226
Period size: 62 Copynumber: 3.1 Consensus size: 62
112088311 AAGAAACATT
* * *
112088321 ATCAGAACTAGAATCAAAATGA-G-AATCAGAATCAGAATCAGAATCAGGT----G-AT-AGA
1 ATCAGAACCAGAATCAAAATTAGGTAA-CAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
* * * * *
112088376 ATCAAAATCAAAATCAGAATTAGGTAACAGAATCAGAATCAGTTTCAGGTAACAGAATCAGA
1 ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
112088438 ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
1 ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
*
112088500 ATTAGAA
1 ATCAGAA
112088507 TGTGAATGCA
Statistics
Matches: 109, Mismatches: 14, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
55 16 0.15
56 22 0.20
57 2 0.02
60 1 0.01
61 2 0.02
62 66 0.61
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (62 bp):
ATCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGA
Found at i:112088780 original size:27 final size:26
Alignment explanation
Indices: 112088732--112088783 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
112088722 GCGAGGCTGC
*
112088732 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
112088758 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
112088784 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:112089050 original size:27 final size:27
Alignment explanation
Indices: 112089020--112089212 Score: 251
Period size: 27 Copynumber: 7.1 Consensus size: 27
112089010 ACATCCTAGC
*
112089020 GGTAAAATGGTAATTTTATAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* *
112089047 GGTAAAATGTTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
** *
112089074 GGTAAAACAGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
*
112089101 GGTAAAATGGTAATTTTGTAAATTGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* * *
112089128 GATAAAATAGTGATTTTGTAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
** *
112089155 GGTAAAATAATAATTTTGTATATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
* *
112089182 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTTTGTAAATCGAG
112089209 GGTA
1 GGTA
112089213 CTTTGGTAAT
Statistics
Matches: 143, Mismatches: 23, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (27 bp):
GGTAAAATGGTAATTTTGTAAATCGAG
Found at i:112089225 original size:81 final size:81
Alignment explanation
Indices: 112089020--112089212 Score: 278
Period size: 81 Copynumber: 2.4 Consensus size: 81
112089010 ACATCCTAGC
* * *
112089020 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGTTAATTCTGTAAATCGAGGGTAAAACAGT
1 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAAT
112089085 AATTCTGTAAATCGAG
66 AATTCTGTAAATCGAG
* * * * * *
112089101 GGTAAAATGGTAATTTTGTAAATTGAGGATAAAATAGTGATTTTGTAAATCGAGGGTAAAATAAT
1 GGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAAT
* *
112089166 AATTTTGTATATCGAG
66 AATTCTGTAAATCGAG
*
112089182 GGTAAAATGGTAATTCTATAAATCGAGGGTA
1 GGTAAAATGGTAATTTTATAAATCGAGGGTA
112089213 CTTTGGTAAT
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 97 1.00
ACGTcount: A:0.39, C:0.05, G:0.23, T:0.33
Consensus pattern (81 bp):
GGTAAAATGGTAATTTTATAAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAAT
AATTCTGTAAATCGAG
Found at i:112089237 original size:27 final size:25
Alignment explanation
Indices: 112089189--112089304 Score: 79
Period size: 27 Copynumber: 4.3 Consensus size: 25
112089179 GAGGGTAAAA
* * *
112089189 TGGTAATTCTATAAATCGAGGGTACTT
1 TGGTAATTTTACAAAT-AAGGGTA-TT
*
112089216 TGGTAATTTTACAAGTTAAGGGTATT
1 TGGTAATTTTACAA-ATAAGGGTATT
* * *
112089242 TCAGTAATTTCACAAATCAGAGGTATTT
1 T-GGTAATTTTACAAATAAG-GGTA-TT
**
112089270 TGGTAATTTTACAAACTTGGGGTATTT
1 TGGTAATTTTACAAA-TAAGGGTA-TT
112089297 TGGTAATT
1 TGGTAATT
112089305 CTACCCTACA
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
26 6 0.08
27 60 0.83
28 6 0.08
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (25 bp):
TGGTAATTTTACAAATAAGGGTATT
Found at i:112089318 original size:27 final size:27
Alignment explanation
Indices: 112089288--112089369 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
112089278 TTACAAACTT
**
112089288 GGGGTATTTTGGTAATTCTACCCTACA
1 GGGGTATTTCAGTAATTCTACCCTACA
* *
112089315 GGGGCATTTCAGTACTTCTACCCTACA
1 GGGGTATTTCAGTAATTCTACCCTACA
* * * *
112089342 AGGGTATTTCAATAATGCTAGCCTACA
1 GGGGTATTTCAGTAATTCTACCCTACA
112089369 G
1 G
112089370 ATATGAGATT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTCTACCCTACA
Found at i:112090318 original size:71 final size:71
Alignment explanation
Indices: 112090101--112090321 Score: 336
Period size: 71 Copynumber: 3.1 Consensus size: 71
112090091 GTGTTACAGC
* * * ** * *
112090101 ATCGGTAGAAGTGCAGGGGATGCTGAACTTTGGCTACTAACTTGACTTGTTTCAATAGATGTCTT
1 ATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCTGTAGAAGTCCT
112090166 CAAGGT
66 CAAGGT
* *
112090172 ATCGGTAGAAGTGCTGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTT-TGGTAGAAGTCC
1 ATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCT-GTAGAAGTCC
112090236 TCAAGGT
65 TCAAGGT
*
112090243 ATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTGACTTGACTTGTTTCTGTAGAAGTCCT
1 ATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCTGTAGAAGTCCT
112090308 CAAGGT
66 CAAGGT
112090314 ATCGATAG
1 ATCGATAG
112090322 TAGTCTCAGG
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
71 137 0.99
72 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (71 bp):
ATCGATAGAAGTGCAGGAGATGCTGAACTTTAGCTACTAACTTGACTTGTTTCTGTAGAAGTCCT
CAAGGT
Found at i:112092986 original size:47 final size:47
Alignment explanation
Indices: 112092918--112093018 Score: 193
Period size: 47 Copynumber: 2.1 Consensus size: 47
112092908 CATCAAAAGT
*
112092918 TATATATTGACAAATAATAACTTAAGTACACTTCTAAAAAAAATACA
1 TATATACTGACAAATAATAACTTAAGTACACTTCTAAAAAAAATACA
112092965 TATATACTGACAAATAATAACTTAAGTACACTTCTAAAAAAAATACA
1 TATATACTGACAAATAATAACTTAAGTACACTTCTAAAAAAAATACA
112093012 TATATAC
1 TATATAC
112093019 ATCATTTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.30
Consensus pattern (47 bp):
TATATACTGACAAATAATAACTTAAGTACACTTCTAAAAAAAATACA
Found at i:112093059 original size:38 final size:38
Alignment explanation
Indices: 112093017--112093092 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
112093007 ATACATATAT
112093017 ACATCATTTAATGGATATGAAAATAAATAAAAAATTAA
1 ACATCATTTAATGGATATGAAAATAAATAAAAAATTAA
112093055 ACATCATTTAATGGATATGAAAATAAATAAAAAATTAA
1 ACATCATTTAATGGATATGAAAATAAATAAAAAATTAA
112093093 TTTTTTTATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.58, C:0.05, G:0.08, T:0.29
Consensus pattern (38 bp):
ACATCATTTAATGGATATGAAAATAAATAAAAAATTAA
Found at i:112093250 original size:19 final size:19
Alignment explanation
Indices: 112093222--112093275 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
112093212 TAAATAAATA
112093222 AAAATTTTAATTTTTGTAT
1 AAAATTTTAATTTTTGTAT
* *
112093241 AAATTTTTAAATTTTTTTAT
1 AAAATTTT-AATTTTTGTAT
112093261 AAAATTTT-ATTTTTG
1 AAAATTTTAATTTTTG
112093276 AAATTGCTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 17 0.57
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (19 bp):
AAAATTTTAATTTTTGTAT
Found at i:112105378 original size:13 final size:12
Alignment explanation
Indices: 112105352--112105395 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
112105342 CAAACAACGT
112105352 AAAAATAGCACA
1 AAAAATAGCACA
*
112105364 AAAAATAGCACC
1 AAAAATAGCACA
*
112105376 AAACA-A-CACA
1 AAAAATAGCACA
112105386 AAAAATAGCA
1 AAAAATAGCA
112105396 TCACCAACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 17 0.65
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAATAGCACA
Found at i:112105381 original size:33 final size:32
Alignment explanation
Indices: 112105321--112105382 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
112105311 AAACAACACT
*
112105321 AAAATAGCAACAAAACAACACCAAACAACGTA
1 AAAATAGCAACAAAAAAACACCAAACAACGTA
112105353 AAAATAGC-ACAAAAAATAGCACCAAACAAC
1 AAAATAGCAACAAAAAA-A-CACCAAACAAC
112105383 ACAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 7 0.26
32 9 0.33
33 11 0.41
ACGTcount: A:0.63, C:0.24, G:0.06, T:0.06
Consensus pattern (32 bp):
AAAATAGCAACAAAAAAACACCAAACAACGTA
Found at i:112105389 original size:33 final size:31
Alignment explanation
Indices: 112105311--112105395 Score: 98
Period size: 32 Copynumber: 2.6 Consensus size: 31
112105301 CTAAGTATAA
* *
112105311 AAACAACACTAAAATAGCAACAAAACAACACC
1 AAACAACACAAAAATAGC-ACAAAAAAACACC
**
112105343 AAACAACGTAAAAATAGCACAAAAAATAGCACC
1 AAACAACACAAAAATAGCACAAAAAA-A-CACC
112105376 AAACAACACAAAAAATAGCA
1 AAACAACAC-AAAAATAGCA
112105396 TCACCAACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
31 7 0.16
32 16 0.36
33 11 0.25
34 10 0.23
ACGTcount: A:0.64, C:0.24, G:0.06, T:0.07
Consensus pattern (31 bp):
AAACAACACAAAAATAGCACAAAAAAACACC
Found at i:112105404 original size:24 final size:22
Alignment explanation
Indices: 112105360--112105423 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 22
112105350 GTAAAAATAG
112105360 CACAAAAAATAGCACCAAACAA
1 CACAAAAAATAGCACCAAACAA
*
112105382 CACAAAAAATAGCATCACCAACAA
1 CACAAAAAATAGCA-C-CAAACAA
* *
112105406 CAC-CAAAATAACACCAAA
1 CACAAAAAATAGCACCAAA
112105424 AACCTGCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 3 0.08
22 15 0.42
23 9 0.25
24 9 0.25
ACGTcount: A:0.61, C:0.30, G:0.03, T:0.06
Consensus pattern (22 bp):
CACAAAAAATAGCACCAAACAA
Found at i:112105410 original size:34 final size:31
Alignment explanation
Indices: 112105311--112105412 Score: 105
Period size: 34 Copynumber: 3.1 Consensus size: 31
112105301 CTAAGTATAA
*
112105311 AAACAACACTAAAATAGCAACAAAACAACACC
1 AAACAACACAAAAATAGC-ACAAAACAACACC
** *
112105343 AAACAACGTAAAAATAGCACAAAAAATAGCACC
1 AAACAACACAAAAATAGCACAAAACA-A-CACC
*
112105376 AAACAACACAAAAAATAGCATCACCAACAACACC
1 AAACAACAC-AAAAATAGCA-CA-AAACAACACC
112105410 AAA
1 AAA
112105413 ATAACACCAA
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
31 7 0.12
32 16 0.28
33 11 0.19
34 17 0.30
35 3 0.05
36 3 0.05
ACGTcount: A:0.62, C:0.26, G:0.05, T:0.07
Consensus pattern (31 bp):
AAACAACACAAAAATAGCACAAAACAACACC
Found at i:112106994 original size:18 final size:18
Alignment explanation
Indices: 112106971--112107006 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
112106961 GAAGTTAGAC
112106971 AAATTAAACCAGGTGCTT
1 AAATTAAACCAGGTGCTT
112106989 AAATTAAACCAGGTGCTT
1 AAATTAAACCAGGTGCTT
112107007 TAGCCAACTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
AAATTAAACCAGGTGCTT
Found at i:112108430 original size:14 final size:15
Alignment explanation
Indices: 112108407--112108435 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
112108397 AAAAATCTAC
112108407 AGAACAAAAAGAAAA
1 AGAACAAAAAGAAAA
112108422 AGAAC-AAAAGAAAA
1 AGAACAAAAAGAAAA
112108436 GAGCTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (15 bp):
AGAACAAAAAGAAAA
Found at i:112109593 original size:20 final size:19
Alignment explanation
Indices: 112109547--112109593 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
112109537 TTACAAAAAT
112109547 GAACTA-AAAAAAAAAGAA
1 GAACTAGAAAAAAAAAGAA
*
112109565 GAACAAGAAAAAAGAAAGAA
1 GAACTAGAAAAAA-AAAGAA
112109585 -ATACTAGAA
1 GA-ACTAGAA
112109594 TCTTCACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 5 0.21
19 7 0.29
20 12 0.50
ACGTcount: A:0.72, C:0.06, G:0.15, T:0.06
Consensus pattern (19 bp):
GAACTAGAAAAAAAAAGAA
Found at i:112111607 original size:19 final size:19
Alignment explanation
Indices: 112111585--112111630 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
112111575 TTATAACAAC
112111585 TCAACTCAAATAACCATCA
1 TCAACTCAAATAACCATCA
112111604 TCAACTCAAATAACCATCA
1 TCAACTCAAATAACCATCA
112111623 TCAACTCA
1 TCAACTCA
112111631 CCTCAATGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (19 bp):
TCAACTCAAATAACCATCA
Found at i:112111635 original size:24 final size:23
Alignment explanation
Indices: 112111581--112111636 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 23
112111571 TCAATTATAA
112111581 CAACTCAACTCAAATAACCATCAT
1 CAACTC-ACTCAAATAACCATCAT
112111605 C-A---ACTCAAATAACCATCAT
1 CAACTCACTCAAATAACCATCAT
112111624 CAACTCACCTCAA
1 CAACTCA-CTCAA
112111637 TGCCACATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
19 18 0.67
20 1 0.04
23 2 0.07
24 6 0.22
ACGTcount: A:0.45, C:0.36, G:0.00, T:0.20
Consensus pattern (23 bp):
CAACTCACTCAAATAACCATCAT
Found at i:112112348 original size:35 final size:35
Alignment explanation
Indices: 112112301--112112370 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
112112291 TAATTTTCTC
*
112112301 ATCTTTCTACTAACTTTTTACTTATATACTTTGAT
1 ATCTTTCCACTAACTTTTTACTTATATACTTTGAT
112112336 ATCTTTCCACTAACTTTTTACTTATATACTTTGAT
1 ATCTTTCCACTAACTTTTTACTTATATACTTTGAT
112112371 TAGTATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.19, G:0.03, T:0.53
Consensus pattern (35 bp):
ATCTTTCCACTAACTTTTTACTTATATACTTTGAT
Found at i:112114359 original size:22 final size:22
Alignment explanation
Indices: 112114319--112114368 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
112114309 TTTGGTTTTG
*
112114319 TTTTAACATAATTTTTAATATA
1 TTTTAACATAATTTATAATATA
*
112114341 TTTTAA-ATAATTTAATAATTTA
1 TTTTAACATAATTT-ATAATATA
112114363 TATTTA
1 T-TTTA
112114369 TGTAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 13 0.54
23 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTAACATAATTTATAATATA
Found at i:112114447 original size:65 final size:65
Alignment explanation
Indices: 112114324--112114451 Score: 186
Period size: 65 Copynumber: 2.0 Consensus size: 65
112114314 TTTTGTTTTA
* * * *
112114324 ACATAATTTTTAATATATTTTAAATAATTTAATAATTTATATTTATGTAAAAATATTAAAAAATT
1 ACATAAATTTTAATATATTTTAAATAATTTAACAATTAATATTTATGTAAAAAGATTAAAAAATT
**
112114389 ACATAAATTTTAATATATTTTAAATAATTTTAACAATTAATATTTAT-TTTAAAGATTAAAAAA
1 ACATAAATTTTAATATATTTTAAATAA-TTTAACAATTAATATTTATGTAAAAAGATTAAAAAA
112114452 ATAGAATTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
65 39 0.70
66 17 0.30
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (65 bp):
ACATAAATTTTAATATATTTTAAATAATTTAACAATTAATATTTATGTAAAAAGATTAAAAAATT
Found at i:112114475 original size:65 final size:66
Alignment explanation
Indices: 112114326--112114483 Score: 162
Period size: 65 Copynumber: 2.4 Consensus size: 66
112114316 TTGTTTTAAC
* * * * * *
112114326 ATAATTTTTAATATATTTTAAATAA-TTTAATAATTTATATTTATGTAAAAATATTAAAAAATTA
1 ATAAATTTTAAAATATTTTAAATAATTTTAACAATTAATATTTATGTAAAAAGATTAAAAAAATA
*
112114390 C
66 A
* **
112114391 ATAAATTTTAATATATTTTAAATAATTTTAACAATTAATATTTAT-TTTAAAGATTAAAAAAATA
1 ATAAATTTTAAAATATTTTAAATAATTTTAACAATTAATATTTATGTAAAAAGATTAAAAAAATA
112114455 GA
66 -A
*
112114457 AT-TATTGTTAAAAT-TTTTAAAATAATT
1 ATAAATT-TTAAAATATTTT-AAATAATT
112114484 GATGCTATTT
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
65 46 0.58
66 33 0.42
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (66 bp):
ATAAATTTTAAAATATTTTAAATAATTTTAACAATTAATATTTATGTAAAAAGATTAAAAAAATA
A
Found at i:112129691 original size:19 final size:19
Alignment explanation
Indices: 112129655--112129691 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
112129645 TAATTAGGCT
* *
112129655 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
112129674 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
112129692 GAAAAAAGGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:112130312 original size:2 final size:2
Alignment explanation
Indices: 112130305--112130335 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
112130295 TTATTAACTA
112130305 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
112130336 AGATATAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:112131341 original size:13 final size:13
Alignment explanation
Indices: 112131323--112131348 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
112131313 ATTTGATTGG
112131323 AATATGAATTAAA
1 AATATGAATTAAA
112131336 AATATGAATTAAA
1 AATATGAATTAAA
112131349 TAAAAGTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (13 bp):
AATATGAATTAAA
Found at i:112132103 original size:57 final size:58
Alignment explanation
Indices: 112132038--112132150 Score: 165
Period size: 57 Copynumber: 2.0 Consensus size: 58
112132028 TTTTCAGGTC
* * * *
112132038 ATTTTCATTTTGGAGAAAACCACATTCATTTCTAGATGATTTC-ATTTCTCCATTTTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTTTT
* *
112132095 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGCTTCCTATTTCTCCATTT
1 ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTT
112132151 CACCATTTCT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 37 0.76
58 12 0.24
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.45
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCCTATTTCTCCATTTTT
Found at i:112134617 original size:26 final size:26
Alignment explanation
Indices: 112134584--112134691 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
112134574 TGATACAAAT
112134584 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
112134610 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112134636 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112134662 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112134688 TGAT
1 TGAT
112134692 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112136210 original size:26 final size:26
Alignment explanation
Indices: 112136181--112136233 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
112136171 TTTACAGTTT
112136181 TACCCCTAGGAGATAAATT-ACTGAAA
1 TACCCCTAGG-GATAAATTGACTGAAA
* *
112136207 TACCCCTAGGGTTAAATTGACTTAAA
1 TACCCCTAGGGATAAATTGACTGAAA
112136233 T
1 T
112136234 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACTGAAA
Found at i:112140358 original size:26 final size:26
Alignment explanation
Indices: 112140325--112140432 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
112140315 TGATACAAAT
112140325 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
112140351 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112140377 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
112140403 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112140429 TGAT
1 TGAT
112140433 GGGAATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112141948 original size:25 final size:25
Alignment explanation
Indices: 112141920--112141970 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
112141910 TTTACAGTTT
112141920 TACCCTAGGAGATAAATT-ACTGAAA
1 TACCCTAGG-GATAAATTGACTGAAA
* *
112141945 TACCCTAGGGTTAAATTGACTTAAA
1 TACCCTAGGGATAAATTGACTGAAA
112141970 T
1 T
112141971 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (25 bp):
TACCCTAGGGATAAATTGACTGAAA
Found at i:112144592 original size:44 final size:47
Alignment explanation
Indices: 112144476--112144596 Score: 212
Period size: 47 Copynumber: 2.6 Consensus size: 47
112144466 ATCCATAAGT
*
112144476 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACATCTCAC
112144523 GAACTCGGACTCAACTCAACGAGTTCGGAT-ACTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACATCTCAC
112144569 -AACT-GGACTCAACTCAACGAGTTCGGAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAT
112144597 TGCATCCATA
Statistics
Matches: 73, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
44 24 0.33
45 4 0.05
46 15 0.21
47 30 0.41
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGACTAGTTACATCTCAC
Found at i:112144633 original size:42 final size:44
Alignment explanation
Indices: 112144423--112144638 Score: 182
Period size: 45 Copynumber: 4.9 Consensus size: 44
112144413 TGTAACCCGC
* * * *
112144423 CCATAAGCGAACTCGGACTCAACTCAACGAGCTGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG-ATTAGCAT
*
112144468 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAT---TAG---CAT
*
112144518 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGATACTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAT--TAG---CAT
*
112144564 -C-TCA-C-AACT-GGACTCAACTCAACGAGTTCGGATT-GCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATTAGCAT
*
112144602 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCGGAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGAT
112144639 GCCCAAATAT
Statistics
Matches: 150, Mismatches: 10, Indels: 25
0.81 0.05 0.14
Matches are distributed among these distances:
38 3 0.02
39 1 0.01
40 2 0.01
41 1 0.01
42 28 0.19
44 25 0.17
45 37 0.25
46 15 0.10
47 32 0.21
48 2 0.01
49 1 0.01
50 3 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATTAGCAT
Found at i:112147411 original size:15 final size:15
Alignment explanation
Indices: 112147363--112147411 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
112147353 TAAAGATAAC
112147363 AAGAAAACC-GAATA
1 AAGAAAACCAGAATA
* *
112147377 AAGAAATCCA-AATT
1 AAGAAAACCAGAATA
*
112147391 AAGAAACCCAGAATA
1 AAGAAAACCAGAATA
112147406 AAGAAA
1 AAGAAA
112147412 TCCAAGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 20 0.69
15 9 0.31
ACGTcount: A:0.63, C:0.14, G:0.12, T:0.10
Consensus pattern (15 bp):
AAGAAAACCAGAATA
Found at i:112150531 original size:45 final size:46
Alignment explanation
Indices: 112150368--112150629 Score: 227
Period size: 45 Copynumber: 5.8 Consensus size: 46
112150358 TGTAACCCGC
* ** *
112150368 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * * *
112150414 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCAT
*
112150464 -C-TCA-CGAACTCGGACTCAACTCAACGAGTT-GAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * *** * *
112150506 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * *
112150551 ACATTCA-CGAACTCGGACTCAACTCAACGAGTTCG-GCATTCGCAT
1 CCA-TAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
*
112150596 CCATAAGTGAACTC-GACTCAACTCAACGAGTTCG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCG
112150630 GATGCCCTAT
Statistics
Matches: 171, Mismatches: 32, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
41 2 0.01
42 4 0.02
43 2 0.01
44 26 0.15
45 66 0.39
46 37 0.22
47 25 0.15
48 2 0.01
49 2 0.01
50 3 0.02
51 2 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:112150603 original size:90 final size:90
Alignment explanation
Indices: 112150375--112150634 Score: 434
Period size: 90 Copynumber: 2.9 Consensus size: 90
112150365 CGCCCATAAG
* *
112150375 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATCCATAAGTGAACTC-GACTCAACTCA
112150440 ACGAGTTCGGATGCCTAGTTACATCTCA
64 ACGAGTTCGGATG-CTAGTTACATCTCA
*
112150468 CGAACTCGGACTCAACTCAACGAGTT-GAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCG-GCATTCGCATCCATAAGTGAACTC-GACTCAACTCA
112150532 ACGAGTTCGGATGCTAGTTACAT-TCA
64 ACGAGTTCGGATGCTAGTTACATCTCA
112150558 CGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
1 CGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
112150623 GAGTTCGGATGC
66 GAGTTCGGATGC
112150635 CCTATCCTAA
Statistics
Matches: 160, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
89 25 0.16
90 52 0.32
91 12 0.08
92 46 0.29
93 25 0.16
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (90 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCATAAGTGAACTCGACTCAACTCAAC
GAGTTCGGATGCTAGTTACATCTCA
Found at i:112153095 original size:30 final size:30
Alignment explanation
Indices: 112153054--112153113 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
112153044 CATGACACAT
* * *
112153054 GGGCGTGTGACATGCCCGTGTTTAATACAC
1 GGGCCTGTGACATACCCGTGTGTAATACAC
112153084 GGGCCTGTGACATACCCGTGTGTAATACAC
1 GGGCCTGTGACATACCCGTGTGTAATACAC
112153114 AGACGTGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.25, G:0.28, T:0.25
Consensus pattern (30 bp):
GGGCCTGTGACATACCCGTGTGTAATACAC
Found at i:112155087 original size:18 final size:19
Alignment explanation
Indices: 112155066--112155105 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
112155056 GTGGAAATAG
*
112155066 AAATAAAAATAAAA-GGAA
1 AAATAAAAACAAAAGGGAA
112155084 AAATAAAAACAAAAGGGAA
1 AAATAAAAACAAAAGGGAA
112155103 AAA
1 AAA
112155106 ACAACTAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.07
Consensus pattern (19 bp):
AAATAAAAACAAAAGGGAA
Found at i:112163597 original size:35 final size:35
Alignment explanation
Indices: 112163570--112163735 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
112163560 CATGGCAAAG
*
112163570 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
112163605 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
112163640 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
112163680 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
112163715 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
112163736 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:112163689 original size:75 final size:75
Alignment explanation
Indices: 112163570--112163740 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
112163560 CATGGCAAAG
** *
112163570 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
112163629 CCATACTGAGC
65 CCATACCGAGC
112163640 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
112163705 CATACCGAGT
66 CATACCGAGC
**
112163715 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
112163741 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:112164202 original size:270 final size:270
Alignment explanation
Indices: 112163721--112164260 Score: 1062
Period size: 270 Copynumber: 2.0 Consensus size: 270
112163711 GAGTTGAAAA
112163721 ATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTGTGAATCATGGCATTGAGCAACGA
1 ATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTGTGAATCATGGCATTGAGCAACGA
*
112163786 CGTACTCAATTTCGTAAGCCGTTTCCTAATTTGATTATAAGAAATAAAATAGAAGTGATCCAAAT
66 CGTACTCAATTTCGTAAGCCGTTTCCTAATTTGATTATAAGAAATAAAAGAGAAGTGATCCAAAT
112163851 GGAAGAGATTGAGTAGTTGTTACTGTTGAGCTCAACTATGTGAATTATTATAACAATGGTTGTGA
131 GGAAGAGATTGAGTAGTTGTTACTGTTGAGCTCAACTATGTGAATTATTATAACAATGGTTGTGA
112163916 ATCGCAGGAAACTTTAGTAAGTGTTTTGGTATTGTTTGGAAATATTATGTTTGGTAAGCATTACT
196 ATCGCAGGAAACTTTAGTAAGTGTTTTGGTATTGTTTGGAAATATTATGTTTGGTAAGCATTACT
112163981 TTTAACCTAT
261 TTTAACCTAT
*
112163991 ATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTGTGAATCGTGGCATTGAGCAACGA
1 ATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTGTGAATCATGGCATTGAGCAACGA
112164056 CGTACTCAATTTCGTAAGCCGTTTCCTAATTTGATTATAAGAAATAAAAGAGAAGTGATCCAAAT
66 CGTACTCAATTTCGTAAGCCGTTTCCTAATTTGATTATAAGAAATAAAAGAGAAGTGATCCAAAT
112164121 GGAAGAGATTGAGTAGTTGTTACTGTTGAGCTCAACTATGTGAATTATTATAACAATGGTTGTGA
131 GGAAGAGATTGAGTAGTTGTTACTGTTGAGCTCAACTATGTGAATTATTATAACAATGGTTGTGA
112164186 ATCGCAGGAAACTTTAGTAAGTGTTTTGGTATTGTTTGGAAATATTATGTTTGGTAAGCATTACT
196 ATCGCAGGAAACTTTAGTAAGTGTTTTGGTATTGTTTGGAAATATTATGTTTGGTAAGCATTACT
112164251 TTTAACCTAT
261 TTTAACCTAT
112164261 GAACTTACTA
Statistics
Matches: 268, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
270 268 1.00
ACGTcount: A:0.32, C:0.11, G:0.22, T:0.35
Consensus pattern (270 bp):
ATGTAGGTATGGTATTTCAATGAGGAAAACCATACTGAGTTGTGAATCATGGCATTGAGCAACGA
CGTACTCAATTTCGTAAGCCGTTTCCTAATTTGATTATAAGAAATAAAAGAGAAGTGATCCAAAT
GGAAGAGATTGAGTAGTTGTTACTGTTGAGCTCAACTATGTGAATTATTATAACAATGGTTGTGA
ATCGCAGGAAACTTTAGTAAGTGTTTTGGTATTGTTTGGAAATATTATGTTTGGTAAGCATTACT
TTTAACCTAT
Found at i:112171358 original size:35 final size:35
Alignment explanation
Indices: 112171331--112171496 Score: 172
Period size: 35 Copynumber: 4.6 Consensus size: 35
112171321 CATGGCAAAG
*
112171331 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
112171366 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
*
112171401 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGC
** * * * *
112171441 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGC
**
112171476 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
112171497 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGC
Found at i:112171450 original size:75 final size:75
Alignment explanation
Indices: 112171331--112171501 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
112171321 CATGGCAAAG
** *
112171331 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
112171390 CCATACTGAGC
65 CCATACCGAGC
112171401 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
112171466 CATACCGAGT
66 CATACCGAGC
**
112171476 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
112171502 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:112184737 original size:13 final size:13
Alignment explanation
Indices: 112184719--112184743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
112184709 GGAAGGCAAC
112184719 ACGGCCGTGTGAT
1 ACGGCCGTGTGAT
112184732 ACGGCCGTGTGA
1 ACGGCCGTGTGA
112184744 AAATAGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGCCGTGTGAT
Found at i:112185021 original size:6 final size:6
Alignment explanation
Indices: 112185010--112185050 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
112185000 TAAACACCTA
*
112185010 TTATTT TTATTT ATT-TTT TTA-TT TTATTT TTATCT TTATTT
1 TTATTT TTATTT -TTATTT TTATTT TTATTT TTATTT TTATTT
112185051 ATATGTTGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
5 7 0.23
6 21 0.70
7 2 0.07
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:112185030 original size:12 final size:12
Alignment explanation
Indices: 112185008--112185050 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
112184998 CATAAACACC
112185008 TATTATTTTTATT
1 TATT-TTTTTATT
112185021 TATTTTTTTATTT
1 TATTTTTTTA-TT
* *
112185034 TATTTTTATCTT
1 TATTTTTTTATT
112185046 TATTT
1 TATTT
112185051 ATATGTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 13 0.48
13 14 0.52
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTTTTATT
Found at i:112190290 original size:28 final size:27
Alignment explanation
Indices: 112190203--112190292 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
112190193 GTGACAGAGT
*
112190203 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
*** *
112190232 CACCAGAACAGAT-ATACATGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
112190259 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
112190287 CACCAG
1 CACCAG
112190293 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:112190449 original size:28 final size:28
Alignment explanation
Indices: 112190398--112190462 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
112190388 AAATTAACCC
* *
112190398 TAGGGGTATAAAGGTCATTCTGCATACA
1 TAGGGGTATAAAGCTAATTCTGCATACA
* *
112190426 TAGGGGTATAATGCTAATTTTGCATACA
1 TAGGGGTATAAAGCTAATTCTGCATACA
*
112190454 TAGAGGTAT
1 TAGGGGTAT
112190463 TCTAGTAGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGCTAATTCTGCATACA
Found at i:112190590 original size:27 final size:27
Alignment explanation
Indices: 112190554--112190612 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
112190544 TACCGAATTG
112190554 GGCCCGTTGGCCCATTAACCCAGTTTT
1 GGCCCGTTGGCCCATTAACCCAGTTTT
112190581 GGCCCGTTGGCCCATTAACCCAGTTTT
1 GGCCCGTTGGCCCATTAACCCAGTTTT
112190608 GGCCC
1 GGCCC
112190613 ATTAAGCCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.14, C:0.36, G:0.24, T:0.27
Consensus pattern (27 bp):
GGCCCGTTGGCCCATTAACCCAGTTTT
Found at i:112201657 original size:19 final size:19
Alignment explanation
Indices: 112201621--112201659 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
112201611 TTTTCATCAT
* *
112201621 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
112201640 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
112201659 A
1 A
112201660 TAATTAAAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:112202358 original size:28 final size:28
Alignment explanation
Indices: 112202311--112202375 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
112202301 AAATTAACCC
* * *
112202311 TAGGGGTATAAAGGTCATTTTGTATACA
1 TAGGGGTATAAAGCTAATTTTGCATACA
*
112202339 TAGGGGTATAATGCTAATTTTGCATACA
1 TAGGGGTATAAAGCTAATTTTGCATACA
112202367 TAGGGGTAT
1 TAGGGGTAT
112202376 TCTAGTAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAAGCTAATTTTGCATACA
Found at i:112205701 original size:15 final size:15
Alignment explanation
Indices: 112205681--112205709 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
112205671 TAAGAATTTT
112205681 TCCCTTTTTATTGAC
1 TCCCTTTTTATTGAC
112205696 TCCCTTTTTATTGA
1 TCCCTTTTTATTGA
112205710 GACTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.24, G:0.07, T:0.55
Consensus pattern (15 bp):
TCCCTTTTTATTGAC
Found at i:112206637 original size:30 final size:30
Alignment explanation
Indices: 112206602--112206658 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
112206592 AGGCACTTCT
112206602 ACACGGGTA-ATCCACACGCCCGTGTGTGAC
1 ACACGGGTAGA-CCACACGCCCGTGTGTGAC
*
112206632 ACACGGGTAGACCACACGCCCTTGTGT
1 ACACGGGTAGACCACACGCCCGTGTGT
112206659 CATGGCCGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.33, G:0.26, T:0.18
Consensus pattern (30 bp):
ACACGGGTAGACCACACGCCCGTGTGTGAC
Found at i:112211032 original size:40 final size:40
Alignment explanation
Indices: 112210986--112211102 Score: 108
Period size: 40 Copynumber: 2.9 Consensus size: 40
112210976 GGCGTTTGGA
* *
112210986 TAAAAAATGACACTATAGATTAAGCATTAGCAGCGCTATT
1 TAAAAAACGACACTATAGATCAAGCATTAGCAGCGCTATT
* * * * * *
112211026 TGAAAAACGCCGCTATAGGTCAAGCATTAGCGGCGCTTTT
1 TAAAAAACGACACTATAGATCAAGCATTAGCAGCGCTATT
* * * * * *
112211066 TAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCT
1 TAAAAAACGACACTATAGATCAAGCATTAGCAGCGCT
112211103 TTTTTTAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.24
Consensus pattern (40 bp):
TAAAAAACGACACTATAGATCAAGCATTAGCAGCGCTATT
Found at i:112211103 original size:40 final size:40
Alignment explanation
Indices: 112211010--112211106 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
112211000 ATAGATTAAG
* * * *
112211010 CATTAGCAGCGCTATTTGAAAAACGCCGCTATAGGTCAAG
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCAAC
*
112211050 CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCGAC
1 CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCAAC
112211090 CATTAGCGGCGCTTTTT
1 CATTAGCGGCGCTTTTT
112211107 TTAAAATGCC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTAAAAAACGCCGCTATAGGTCAAC
Found at i:112211219 original size:40 final size:40
Alignment explanation
Indices: 112211163--112211267 Score: 138
Period size: 40 Copynumber: 2.6 Consensus size: 40
112211153 AACTTTAGTG
* * *
112211163 GCATTAACGGCGCTTTTTGAAAAACGCCGCGATAGATTAA
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCGATAGATCAA
* * *
112211203 GCATTTGCGGCTCTTTTTGAAAAACGCCGCTATAGATCAA
1 GCATTAGCGGCACTTTTTGAAAAACGCCGCGATAGATCAA
* *
112211243 GCATTAGCGACACTTTCTGAAAAAC
1 GCATTAGCGGCACTTTTTGAAAAAC
112211268 ATCGTATAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 56 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (40 bp):
GCATTAGCGGCACTTTTTGAAAAACGCCGCGATAGATCAA
Found at i:112211412 original size:40 final size:40
Alignment explanation
Indices: 112211367--112211466 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
112211357 GCATTAGGGA
* *
112211367 TGCTTTTTGAAAAACACCGCTATAGATTGAGCATTAGCAG
1 TGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCAG
* * *
112211407 TGCTTTTTTAAAAATGCCGCTATAGATCGAGCATTAGCGG
1 TGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCAG
112211447 TGCTTTTTGAAAAACGCCGC
1 TGCTTTTTGAAAAACGCCGC
112211467 AAAAAACATT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
TGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGCAG
Found at i:112211460 original size:194 final size:193
Alignment explanation
Indices: 112210998--112211466 Score: 613
Period size: 194 Copynumber: 2.4 Consensus size: 193
112210988 AAAAATGACA
* * *
112210998 CTATAGATTAAGCATTAGCAGCGCTATTTGAAAAACGCCGCTATAGGTCAAGCATTAGCGGCGCT
1 CTATAGATTAAGCATTAGCAG-GCTTTTTTAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCT
* * * *
112211063 TTTTAAAAAACGCCGCTATAGGTCGACCATTAGCGGCGCTTTTTTTAAAATGCCACAAAAAGTTA
65 TTTTGAAAAACACCGCTATAGGTCGACCATTAGCGGCGCTTTTTTAAAAATGCCACAAAAAATTA
** *
112211128 AGCACAACGTCATCGTTTTATGTTGAACTTTAGTGGCATTAACGGCGCTTTTTGAAAAACGCCG
130 AGCACAACACCATCGTTTTATGTTGAACTTTAGTGGCATTAACGGCGCTTTTTGAAAAACACCG
* * * *
112211192 CGATAGATTAAGCATTTGC-GGCTCTTTTTGAAAAACGCCGCTATAGATCAAGCATTAGCGACAC
1 CTATAGATTAAGCATTAGCAGGCT-TTTTT-AAAAACGCCGCTATAGATCAAGCATTAGCGGCGC
* * *
112211256 TTTCTGAAAAACATCG-TATAGGTTGACCATTAGCGGCG-TTTTTTCAAAAATGCCACAAAAAAA
64 TTTTTGAAAAACACCGCTATAGGTCGACCATTAGCGGCGCTTTTTT-AAAAATGCCAC-AAAAAA
* * * *
112211319 TTAAGTACAACACCGTCGTTTTATGTTGAACTTTAGTGGCATT-AGGGATGCTTTTTGAAAAACA
127 TTAAGCACAACACCATCGTTTTATGTTGAACTTTAGTGGCATTAACGG-CGCTTTTTGAAAAACA
112211383 CCG
191 CCG
* * * *
112211386 CTATAGATTGAGCATTAGCAGTGCTTTTTTAAAAATGCCGCTATAGATCGAGCATTAGCGGTGCT
1 CTATAGATTAAGCATTAGCAG-GCTTTTTTAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCT
*
112211451 TTTTGAAAAACGCCGC
65 TTTTGAAAAACACCGC
112211467 AAAAAACATT
Statistics
Matches: 235, Mismatches: 32, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
192 9 0.04
193 38 0.16
194 179 0.76
195 6 0.03
196 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (193 bp):
CTATAGATTAAGCATTAGCAGGCTTTTTTAAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTT
TTTGAAAAACACCGCTATAGGTCGACCATTAGCGGCGCTTTTTTAAAAATGCCACAAAAAATTAA
GCACAACACCATCGTTTTATGTTGAACTTTAGTGGCATTAACGGCGCTTTTTGAAAAACACCG
Found at i:112211862 original size:22 final size:21
Alignment explanation
Indices: 112211837--112211888 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
112211827 ACTATTTTAA
112211837 GGTTTATGGATTATGGATTAT
1 GGTTTATGGATTATGGATTAT
* *
112211858 GGGTTTAGGGATTATGGTTTAT
1 -GGTTTATGGATTATGGATTAT
112211880 GGTTTATGG
1 GGTTTATGG
112211889 TTTAAGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (21 bp):
GGTTTATGGATTATGGATTAT
Found at i:112211864 original size:29 final size:28
Alignment explanation
Indices: 112211832--112211895 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
112211822 AAGTTACTAT
*
112211832 TTTAAGGTTTATGGATTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGATTAT-GG
* * *
112211861 TTTAGGGATTATGGTTTATGGTTTATGG
1 TTTAAGGATTATGGATTATGGATTATGG
112211889 TTTAAGG
1 TTTAAGG
112211896 GTTGAGATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (28 bp):
TTTAAGGATTATGGATTATGGATTATGG
Found at i:112211889 original size:7 final size:7
Alignment explanation
Indices: 112211769--112211892 Score: 72
Period size: 7 Copynumber: 17.4 Consensus size: 7
112211759 TTAATTATCA
112211769 TTATGGT
1 TTATGGT
*
112211776 TTAAGGT
1 TTATGGT
*
112211783 TTATGAT
1 TTATGGT
*
112211790 TTAGGGT
1 TTATGGT
* *
112211797 ATATAGT
1 TTATGGT
*
112211804 TTAGGGT
1 TTATGGT
*
112211811 TTAAGGT
1 TTATGGT
**
112211818 TTAAAAGT
1 TT-ATGGT
112211826 TACTAT--T
1 T--TATGGT
*
112211833 TTAAGGT
1 TTATGGT
*
112211840 TTATGGA
1 TTATGGT
*
112211847 TTATGGA
1 TTATGGT
112211854 TTATGGGT
1 TTAT-GGT
* *
112211862 TTAGGGA
1 TTATGGT
112211869 TTATGGT
1 TTATGGT
112211876 TTATGGT
1 TTATGGT
112211883 TTATGGT
1 TTATGGT
112211890 TTA
1 TTA
112211893 AGGGTTGAGA
Statistics
Matches: 89, Mismatches: 22, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
5 2 0.02
7 75 0.84
8 10 0.11
9 1 0.01
10 1 0.01
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.48
Consensus pattern (7 bp):
TTATGGT
Found at i:112212473 original size:40 final size:41
Alignment explanation
Indices: 112212415--112212493 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 41
112212405 TAAAAAAAAT
* * * *
112212415 CAAGCATTAGCGGTGTTTATAAT-AAAAACGCCGCAAAAGG
1 CAAGCAATAGCAGCGTTTATAATAAAAAAAGCCGCAAAAGG
*
112212455 CAAGCAATAGCAGCGTTTATGATAAAAAAAGCCGCAAAA
1 CAAGCAATAGCAGCGTTTATAATAAAAAAAGCCGCAAAA
112212494 AATTAATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 19 0.58
41 14 0.42
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (41 bp):
CAAGCAATAGCAGCGTTTATAATAAAAAAAGCCGCAAAAGG
Found at i:112212715 original size:18 final size:18
Alignment explanation
Indices: 112212664--112212717 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
112212654 CTCTTCCTCC
*
112212664 ATTCCCTTTTCTTTCCCA
1 ATTCCCTTTTCTTTCTCA
*
112212682 ATTTCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
112212700 ATTCCCTTTTCTTTCTCA
1 ATTCCCTTTTCTTTCTCA
112212718 GCCTTTCTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.11, C:0.33, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTCCCTTTTCTTTCTCA
Found at i:112215051 original size:15 final size:16
Alignment explanation
Indices: 112215031--112215061 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
112215021 GTTTTTGTCT
112215031 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
112215046 TATATATGATCTAAAA
1 TATATATGATCTAAAA
112215062 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:112217047 original size:43 final size:43
Alignment explanation
Indices: 112216986--112217098 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
112216976 ATAATTTTTT
* * *
112216986 TAAAGGTCATGATCTTTAGTGGCGTTTGT-GAGAAAAGCGTCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGA-AAAAGCGCCGC
* * * *
112217029 TAAAGGTCATGTTTTTTAGCGGTGTTTGTGGAAAAAGTGCCGT
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
*
112217072 TAAAGGTCATGTTCTATAGCGGCGTTT
1 TAAAGGTCATGTTCTTTAGCGGCGTTT
112217099 TTTTCATAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 57 0.97
44 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.29, T:0.35
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGAAAAAGCGCCGC
Found at i:112217156 original size:12 final size:14
Alignment explanation
Indices: 112217121--112217159 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
112217111 CCACAAAATG
112217121 TTAGCGGCGTTGTCT
1 TTAGCGGCGTT-TCT
112217136 TTAGCGGCGTTT-T
1 TTAGCGGCGTTTCT
112217149 TT-GCGGCGTTT
1 TTAGCGGCGTTT
112217160 GTAAAAGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 9 0.38
13 3 0.12
14 1 0.04
15 11 0.46
ACGTcount: A:0.05, C:0.18, G:0.33, T:0.44
Consensus pattern (14 bp):
TTAGCGGCGTTTCT
Found at i:112225113 original size:16 final size:16
Alignment explanation
Indices: 112225088--112225122 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
112225078 GATGCTCGTA
112225088 ACATTATTAACAATTT
1 ACATTATTAACAATTT
*
112225104 ACATTGTTAACAATTT
1 ACATTATTAACAATTT
112225120 ACA
1 ACA
112225123 ATAACCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (16 bp):
ACATTATTAACAATTT
Found at i:112226500 original size:17 final size:17
Alignment explanation
Indices: 112226481--112226514 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
112226471 AAAAAAATCT
112226481 AAATTTACAAAATATATA
1 AAATTT-CAAAATATATA
*
112226499 AAATTTTAAAATATAT
1 AAATTTCAAAATATAT
112226515 TTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATTTCAAAATATATA
Found at i:112227292 original size:12 final size:12
Alignment explanation
Indices: 112227258--112227299 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
112227248 CTGCAGGTAA
*
112227258 TATTTTCCATTT
1 TATTTTCCGTTT
* *
112227270 TCTTTT-AGTTT
1 TATTTTCCGTTT
112227281 TATTTTCCGTTT
1 TATTTTCCGTTT
112227293 TATTTTC
1 TATTTTC
112227300 TTTGATTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 8 0.33
12 16 0.67
ACGTcount: A:0.12, C:0.14, G:0.05, T:0.69
Consensus pattern (12 bp):
TATTTTCCGTTT
Found at i:112228433 original size:15 final size:15
Alignment explanation
Indices: 112228415--112228463 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
112228405 CAAGATTAAT
*
112228415 ATGTGCAACATCAAC
1 ATGTGCAACATGAAC
* * *
112228430 ATGTACAACATGGAT
1 ATGTGCAACATGAAC
112228445 ATGTGCAACATGAAC
1 ATGTGCAACATGAAC
112228460 ATGT
1 ATGT
112228464 ACAGGATTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (15 bp):
ATGTGCAACATGAAC
Found at i:112228433 original size:30 final size:30
Alignment explanation
Indices: 112228397--112228466 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
112228387 AATGAAGAGT
* * *
112228397 AACATGTCCAAGATTAATATGTGCAACATC
1 AACATGTACAACATGAATATGTGCAACATC
* *
112228427 AACATGTACAACATGGATATGTGCAACATG
1 AACATGTACAACATGAATATGTGCAACATC
112228457 AACATGTACA
1 AACATGTACA
112228467 GGATTGACAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (30 bp):
AACATGTACAACATGAATATGTGCAACATC
Found at i:112236868 original size:5 final size:6
Alignment explanation
Indices: 112236850--112236874 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
112236840 AAATCTAAGA
112236850 TTATTT TTATTT TTATTT TTATTT T
1 TTATTT TTATTT TTATTT TTATTT T
112236875 CTGAAGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTATTT
Found at i:112238205 original size:22 final size:22
Alignment explanation
Indices: 112238180--112238221 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
112238170 AATATAGAAA
*
112238180 ATATAAATTAATATATTATATT
1 ATATAAATAAATATATTATATT
* *
112238202 ATATTAATAAATGTATTATA
1 ATATAAATAAATATATTATA
112238222 CATATAATTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATATAAATAAATATATTATATT
Found at i:112239526 original size:6 final size:6
Alignment explanation
Indices: 112239511--112239545 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
112239501 TTGTATTACA
* *
112239511 AACTAT AACTAC AACTAC AACTAG AACTAC AACTA
1 AACTAC AACTAC AACTAC AACTAC AACTAC AACTA
112239546 GATTTGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (6 bp):
AACTAC
Found at i:112239538 original size:18 final size:18
Alignment explanation
Indices: 112239511--112239545 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
112239501 TTGTATTACA
*
112239511 AACTATAACTACAACTAC
1 AACTAGAACTACAACTAC
112239529 AACTAGAACTACAACTA
1 AACTAGAACTACAACTA
112239546 GATTTGGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.26, G:0.03, T:0.20
Consensus pattern (18 bp):
AACTAGAACTACAACTAC
Found at i:112241406 original size:22 final size:24
Alignment explanation
Indices: 112241364--112241407 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
112241354 TAGCTAAGTT
112241364 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
112241388 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
112241408 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:112241844 original size:2 final size:2
Alignment explanation
Indices: 112241837--112241871 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
112241827 TTATTTACTT
112241837 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
112241872 ATAACTATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:112242427 original size:15 final size:16
Alignment explanation
Indices: 112242409--112242441 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
112242399 ATTACAATTG
112242409 TACAAATATA-ATTTT
1 TACAAATATATATTTT
*
112242424 TACACATATATATTTT
1 TACAAATATATATTTT
112242440 TA
1 TA
112242442 TTACTATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (16 bp):
TACAAATATATATTTT
Found at i:112242483 original size:5 final size:5
Alignment explanation
Indices: 112242475--112242522 Score: 55
Period size: 5 Copynumber: 9.6 Consensus size: 5
112242465 AATTTATTTC
*
112242475 ATAAT ATAAT ATAAT ATAATT ATAAT ATAAT -CAAT -TAAT AATAAT ATA
1 ATAAT ATAAT ATAAT ATAA-T ATAAT ATAAT ATAAT ATAAT -ATAAT ATA
112242523 TAATATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 6 0.16
5 23 0.61
6 9 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:112242499 original size:21 final size:23
Alignment explanation
Indices: 112242475--112242533 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 23
112242465 AATTTATTTC
112242475 ATAATATAATATAAT-ATAAT-T
1 ATAATATAATATAATAATAATAT
112242496 ATAATATAATCAATTAATAATAATAT
1 ATAATATAAT--A-TAATAATAATAT
112242522 ATAATAT-ATATA
1 ATAATATAATATA
112242534 CCCAAGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
21 10 0.30
22 2 0.06
23 2 0.06
24 4 0.12
25 7 0.21
26 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAATATAATATAATAATAATAT
Found at i:112242532 original size:11 final size:11
Alignment explanation
Indices: 112242478--112242533 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
112242468 TTATTTCATA
112242478 ATATAATATA-
1 ATATAATATAT
112242488 ATATAAT-TAT
1 ATATAATATAT
112242498 AATATAATCA-AT
1 -ATATAAT-ATAT
112242510 -TAATAATA-AT
1 AT-ATAATATAT
112242520 ATATAATATAT
1 ATATAATATAT
112242531 ATA
1 ATA
112242534 CCCAAGAAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
9 2 0.05
10 17 0.44
11 18 0.46
12 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (11 bp):
ATATAATATAT
Found at i:112243053 original size:89 final size:89
Alignment explanation
Indices: 112242902--112243081 Score: 351
Period size: 89 Copynumber: 2.0 Consensus size: 89
112242892 AATCTAGAAC
112242902 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTAAGTAGAAA
1 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTAAGTAGAAA
112242967 CCTTAGCCTTTACTAACACTACTG
66 CCTTAGCCTTTACTAACACTACTG
*
112242991 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTGAGTAGAAA
1 AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTAAGTAGAAA
112243056 CCTTAGCCTTTACTAACACTACTG
66 CCTTAGCCTTTACTAACACTACTG
112243080 AA
1 AA
112243082 TCTTTTCCAT
Statistics
Matches: 90, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.30
Consensus pattern (89 bp):
AAAATCTATTTGGAGAACCTATATATGTATAAATACACATAGTATGATTCAAACCTAAGTAGAAA
CCTTAGCCTTTACTAACACTACTG
Found at i:112244823 original size:3 final size:3
Alignment explanation
Indices: 112244815--112244844 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
112244805 CTGTTTTCAT
*
112244815 GAA GAA GAA GAA GAA GAA GAA GAT GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
112244845 TGATGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:112248859 original size:26 final size:25
Alignment explanation
Indices: 112248815--112248868 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 25
112248805 ACAAATAAAT
112248815 AAATGAATAAATAAAGAAAGAAACA
1 AAATGAATAAATAAAGAAAGAAACA
*
112248840 AAATGAAATAAA-AAAGGAAAGAAAGA
1 AAATG-AATAAATAAA-GAAAGAAACA
112248866 AAA
1 AAA
112248869 GACAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.31
26 18 0.69
ACGTcount: A:0.74, C:0.02, G:0.15, T:0.09
Consensus pattern (25 bp):
AAATGAATAAATAAAGAAAGAAACA
Found at i:112248875 original size:21 final size:20
Alignment explanation
Indices: 112248850--112248902 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 20
112248840 AAATGAAATA
112248850 AAAAAGGAAAGAAAGAAAAG
1 AAAAAGGAAAGAAAGAAAAG
*
112248870 ACAAA--AAA-AAA-AAAAG
1 AAAAAGGAAAGAAAGAAAAG
112248886 AAAAAGGAAAGAAAGAA
1 AAAAAGGAAAGAAAGAA
112248903 TGGAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
16 9 0.33
17 3 0.11
18 6 0.22
19 3 0.11
20 6 0.22
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (20 bp):
AAAAAGGAAAGAAAGAAAAG
Found at i:112248878 original size:26 final size:25
Alignment explanation
Indices: 112248815--112248888 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
112248805 ACAAATAAAT
* *
112248815 AAATGAATAAATAAAGAAAGAAACA
1 AAATGAAAAAAAAAAGAAAGAAACA
* *
112248840 AAATGAAATAAAAAAGGAAAGAAAGA
1 AAATGAAA-AAAAAAAGAAAGAAACA
*
112248866 AAA-GACAAAAAAAAAAAAAGAAA
1 AAATGA-AAAAAAAAAGAAAGAAA
112248889 AAGGAAAGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 22 0.54
26 19 0.46
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.07
Consensus pattern (25 bp):
AAATGAAAAAAAAAAGAAAGAAACA
Found at i:112249595 original size:30 final size:30
Alignment explanation
Indices: 112249561--112249630 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
112249551 GCACTTTGAC
112249561 ATTGAATTGAATTAAAGGTTGATTGAATGG
1 ATTGAATTGAATTAAAGGTTGATTGAATGG
*
112249591 ATTGAATTGAATTAAAGGTTGATTGGATGG
1 ATTGAATTGAATTAAAGGTTGATTGAATGG
112249621 ATTGAATTGA
1 ATTGAATTGA
112249631 TATATATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.27, T:0.37
Consensus pattern (30 bp):
ATTGAATTGAATTAAAGGTTGATTGAATGG
Found at i:112251989 original size:26 final size:26
Alignment explanation
Indices: 112251960--112252017 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
112251950 CCCGATATAT
112251960 GGCTCTTCGTCAGCTTCCCAATTAAA
1 GGCTCTTCGTCAGCTTCCCAATTAAA
* * ** *
112251986 GGCTCTTTGTGAGCTTCCTGATTAAT
1 GGCTCTTCGTCAGCTTCCCAATTAAA
112252012 GGCTCT
1 GGCTCT
112252018 CCAGAGCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (26 bp):
GGCTCTTCGTCAGCTTCCCAATTAAA
Found at i:112252095 original size:25 final size:25
Alignment explanation
Indices: 112251971--112252098 Score: 84
Period size: 25 Copynumber: 5.2 Consensus size: 25
112251961 GCTCTTCGTC
** *
112251971 AGCTTCCCAATTAAAGGCTCTTTGTG
1 AGCTTCCTGATTAATGGCTCTTTG-G
***
112251997 AGCTTCCTGATTAATGGCTCTCCAG
1 AGCTTCCTGATTAATGGCTCTTTGG
* * *
112252022 AGCTTCCCGA-T-ATAGCTCGCTT-G
1 AGCTTCCTGATTAATGGCTC-TTTGG
* * *
112252045 AACTTCCTGA-TATATGGCTATCTGG
1 AGCTTCCTGATTA-ATGGCTCTTTGG
*
112252070 AGCTTCCTAATTAATGGCTCTTTGG
1 AGCTTCCTGATTAATGGCTCTTTGG
112252095 AGCT
1 AGCT
112252099 ACCCGTTATT
Statistics
Matches: 76, Mismatches: 21, Indels: 11
0.70 0.19 0.10
Matches are distributed among these distances:
23 16 0.21
24 2 0.03
25 38 0.50
26 20 0.26
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.34
Consensus pattern (25 bp):
AGCTTCCTGATTAATGGCTCTTTGG
Found at i:112252143 original size:24 final size:25
Alignment explanation
Indices: 112252116--112252174 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
112252106 ATTGGCTCGC
112252116 ATAAGCTTCCCAAT-TATAGCTCT-T
1 ATAAGCTTCCCAATATATAGC-CTAT
* * *
112252140 ATAAGTTTTCCATTATATAGCCTAT
1 ATAAGCTTCCCAATATATAGCCTAT
112252165 ATAAGCTTCC
1 ATAAGCTTCC
112252175 TGTTACATGG
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 13 0.46
25 15 0.54
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (25 bp):
ATAAGCTTCCCAATATATAGCCTAT
Found at i:112253467 original size:17 final size:18
Alignment explanation
Indices: 112253431--112253470 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
112253421 CTAGATTCTT
112253431 ACACGCCCGTGTAAGCCC
1 ACACGCCCGTGTAAGCCC
* *
112253449 ACACGCCCTTGT-GGCCC
1 ACACGCCCGTGTAAGCCC
112253466 ACACG
1 ACACG
112253471 ACCCATTTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.20, C:0.45, G:0.23, T:0.12
Consensus pattern (18 bp):
ACACGCCCGTGTAAGCCC
Found at i:112266023 original size:19 final size:20
Alignment explanation
Indices: 112266001--112266039 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
112265991 ATGAATAATT
112266001 ATATAATAATATAAT-ATAC
1 ATATAATAATATAATCATAC
* *
112266020 ATATCATAATTTAATCATAC
1 ATATAATAATATAATCATAC
112266040 TGTCCCTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (20 bp):
ATATAATAATATAATCATAC
Found at i:112269796 original size:30 final size:30
Alignment explanation
Indices: 112269760--112269817 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
112269750 CTGGGCATTT
* *
112269760 CCACACGGGCTAGCCACATGCCCGTGTGAA
1 CCACACGGGCTAGCCACACGCCCATGTGAA
*
112269790 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACGGGCTAGCCACACGCCCATGTG
112269818 GTAGCCGATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.40, G:0.28, T:0.12
Consensus pattern (30 bp):
CCACACGGGCTAGCCACACGCCCATGTGAA
Found at i:112273120 original size:357 final size:356
Alignment explanation
Indices: 112272466--112273181 Score: 1396
Period size: 357 Copynumber: 2.0 Consensus size: 356
112272456 ATGGTAAGGT
112272466 TGAGGTAAGCCAAAATAACCAAGATTTGATCAGTAAGGAATATAAACCTCGTGTACCATATCCAA
1 TGAGGTAAGCCAAAATAACCAAGATTTGATCAGTAAGGAATATAAACCTCGTGTACCATATCCAA
*
112272531 ATGCGACAAGGAAAGACCACACAAATGAACAATTCGATAAATTCCTTAAACTATTGAAAAATTAC
66 ATGCGACAAGGAAAGACCACACAAATGAACAATTCGATAAATTCCTTAAACTATTAAAAAATTAC
112272596 ATATTAACTTACCGTTTATTGAATCTCTTTTGCAGATGCCAAATTCCGTTAAAATTTTAAAGGAG
131 ATATTAACTTACCGTTTATTGAATCTCTTTTGCAGATGCCAAATTCCGTTAAAATTTTAAAGGAG
* *
112272661 GTTTTAGCAAATAAGAAGAAGTTAGATGATTTGTCGCACGTGGAACTAAATGCAGTGTGCTTAGC
196 CTTTTAGCAAATAAGAAGAAGTTAGATGATTTGTCGCACGTGGAACTAAATGCAATGTGCTTAGC
112272726 CATTTTGCAGAATAAACTACCCAACAAATTGAAAGATCTAGGGAGTTTTACTATTCCTTGTTTAA
261 CATTTTGCAGAATAAACTACCCAACAAATTGAAAGATCTAGGGAGTTTTACTATTCCTTGTTTAA
112272791 TTCGTAGTTTAAGTGTTAATAATGCTTTCGC
326 TTCGTAGTTTAAGTGTTAATAATGCTTTCGC
112272822 TGAGGTAAGCCAAAATAACCAAGATTTGATCAGTAAGGAATATAAACCTCGTGTACCATATCCAA
1 TGAGGTAAGCCAAAATAACCAAGATTTGATCAGTAAGGAATATAAACCTCGTGTACCATATCCAA
112272887 ATGCGACAAGGAAAGACCACACAAATGAACAATTCGATAAATTCCTTAAACTATTAAAAAAATTA
66 ATGCGACAAGGAAAGACCACACAAATGAACAATTCGATAAATTCCTTAAACTATT-AAAAAATTA
112272952 CATATTAACTTACCGTTTATTGAATCTCTTTTGCAGATGCCAAATTCCGTTAAAATTTTAAAGGA
130 CATATTAACTTACCGTTTATTGAATCTCTTTTGCAGATGCCAAATTCCGTTAAAATTTTAAAGGA
112273017 GCTTTTAGCAAATAAGAAGAAGTTAGATGATTTGTCGCACGTGGAACTAAATGCAATGTGCTTAG
195 GCTTTTAGCAAATAAGAAGAAGTTAGATGATTTGTCGCACGTGGAACTAAATGCAATGTGCTTAG
112273082 CCATTTTGCAGAATAAACTACCCAACAAATTGAAAGATCTAGGGAGTTTTACTATTCCTTGTTTA
260 CCATTTTGCAGAATAAACTACCCAACAAATTGAAAGATCTAGGGAGTTTTACTATTCCTTGTTTA
112273147 ATTCGTAGTTTAAGTGTTAATAATGCTTTCGC
325 ATTCGTAGTTTAAGTGTTAATAATGCTTTCGC
112273179 TGA
1 TGA
112273182 TTTAGGGGCT
Statistics
Matches: 356, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
356 120 0.34
357 236 0.66
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (356 bp):
TGAGGTAAGCCAAAATAACCAAGATTTGATCAGTAAGGAATATAAACCTCGTGTACCATATCCAA
ATGCGACAAGGAAAGACCACACAAATGAACAATTCGATAAATTCCTTAAACTATTAAAAAATTAC
ATATTAACTTACCGTTTATTGAATCTCTTTTGCAGATGCCAAATTCCGTTAAAATTTTAAAGGAG
CTTTTAGCAAATAAGAAGAAGTTAGATGATTTGTCGCACGTGGAACTAAATGCAATGTGCTTAGC
CATTTTGCAGAATAAACTACCCAACAAATTGAAAGATCTAGGGAGTTTTACTATTCCTTGTTTAA
TTCGTAGTTTAAGTGTTAATAATGCTTTCGC
Found at i:112274205 original size:30 final size:30
Alignment explanation
Indices: 112274169--112274241 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
112274159 TAACCCACAT
*
112274169 GGCCTGGATACACGGGTGTGTGGAGCATAC
1 GGCCTGGACACACGGGTGTGTGGAGCATAC
* *
112274199 GGCCTGGCCACACTGGTGTGTGGAGCATAC
1 GGCCTGGACACACGGGTGTGTGGAGCATAC
*
112274229 GGCCTGGCCACAC
1 GGCCTGGACACAC
112274242 CGGCATGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.18, C:0.27, G:0.37, T:0.18
Consensus pattern (30 bp):
GGCCTGGACACACGGGTGTGTGGAGCATAC
Found at i:112274251 original size:30 final size:30
Alignment explanation
Indices: 112274187--112274251 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
112274177 TACACGGGTG
* **
112274187 TGTGGAGCATACGGCCTGGCCACACTGGTG
1 TGTGGAGCATACGGCCTGGCCACACCGGCA
112274217 TGTGGAGCATACGGCCTGGCCACACCGGCA
1 TGTGGAGCATACGGCCTGGCCACACCGGCA
112274247 TGTGG
1 TGTGG
112274252 GATCTCTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.28, G:0.37, T:0.18
Consensus pattern (30 bp):
TGTGGAGCATACGGCCTGGCCACACCGGCA
Found at i:112274597 original size:22 final size:21
Alignment explanation
Indices: 112274560--112274711 Score: 74
Period size: 20 Copynumber: 7.5 Consensus size: 21
112274550 ATCACCCCAA
*
112274560 TTTT-ATTTTATTTTATTTAT
1 TTTTAATTTTATATTATTTAT
112274580 TTTTAATTGTTATATTATTTAT
1 TTTTAATT-TTATATTATTTAT
*
112274602 TTTT-ATTTTACTA--ATTAAT
1 TTTTAATTTTA-TATTATTTAT
* * *
112274621 TAATTAA-TTTATTATTCTTATAC
1 T-TTTAATTTTA-TATTATT-TAT
* * * *
112274644 TTATATTTTTA-ATTTTTTAA
1 TTTTAATTTTATATTATTTAT
* *
112274664 TTTTAATTTTTTA-TATATAT
1 TTTTAATTTTATATTATTTAT
112274684 TTATT-ATTTT-TATT-TTTAT
1 TT-TTAATTTTATATTATTTAT
112274703 TTTT-ATTTT
1 TTTTAATTTT
112274712 GCTATATCTA
Statistics
Matches: 101, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
18 7 0.07
19 14 0.14
20 37 0.37
21 17 0.17
22 20 0.20
23 6 0.06
ACGTcount: A:0.27, C:0.02, G:0.01, T:0.70
Consensus pattern (21 bp):
TTTTAATTTTATATTATTTAT
Found at i:112274667 original size:14 final size:14
Alignment explanation
Indices: 112274650--112274676 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112274640 ATACTTATAT
112274650 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
112274664 TTTTAATTTTTTA
1 TTTTAATTTTTTA
112274677 TATATATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:112274681 original size:32 final size:32
Alignment explanation
Indices: 112274645--112274706 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
112274635 TTCTTATACT
*
112274645 TATATTTTTAATT-TTTTAATTTTAATTTTTTA
1 TATATATTT-ATTATTTTAATTTTAATTTTTTA
* *
112274677 TATATATTTATTATTTTTATTTTTATTTTT
1 TATATATTTATTATTTTAATTTTAATTTTT
112274707 ATTTTGCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 3 0.12
32 23 0.88
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (32 bp):
TATATATTTATTATTTTAATTTTAATTTTTTA
Found at i:112274705 original size:5 final size:6
Alignment explanation
Indices: 112274647--112274711 Score: 58
Period size: 6 Copynumber: 10.0 Consensus size: 6
112274637 CTTATACTTA
* * *
112274647 TATTTT TAATTTTT TAATTTT AATTTTT TATATA TATTTAT TATTTT TATTTT
1 TATTTT T-A-TTTT T-ATTTT TA-TTTT TATTTT TATTT-T TATTTT TATTTT
112274700 TATTTT TATTTT
1 TATTTT TATTTT
112274712 GCTATATCTA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
6 27 0.55
7 15 0.31
8 7 0.14
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TATTTT
Found at i:112274718 original size:39 final size:40
Alignment explanation
Indices: 112274639--112274724 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
112274629 TTATTATTCT
* *
112274639 TATACTTATATTTTTAATTTTTTAATTTTAATTTTTTATA
1 TATATTTATATTTTTAATTTTTTAATTTTAATTTTCTATA
*
112274679 TATATTTATTATTTTT-A-TTTTT-ATTTTTATTTTGCTATA
1 TATATTTA-TATTTTTAATTTTTTAATTTTAATTTT-CTATA
*
112274718 TCTATTT
1 TATATTT
112274725 TTTCCTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 10 0.25
39 15 0.38
40 8 0.20
41 7 0.17
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (40 bp):
TATATTTATATTTTTAATTTTTTAATTTTAATTTTCTATA
Found at i:112274763 original size:3 final size:3
Alignment explanation
Indices: 112274755--112274801 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
112274745 ATCATTGAGT
112274755 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
112274802 GTTGTTGTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:112274806 original size:3 final size:3
Alignment explanation
Indices: 112274800--112274831 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
112274790 ATTATTATTA
112274800 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
112274832 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.31, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:112278662 original size:10 final size:10
Alignment explanation
Indices: 112278649--112278697 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
112278639 TTTATTTTCG
112278649 TTTATCTTTA
1 TTTATCTTTA
112278659 TTTATCTTTA
1 TTTATCTTTA
*
112278669 ATTATCTTTA
1 TTTATCTTTA
*
112278679 ATTAT-TTGTA
1 TTTATCTT-TA
112278689 TTTATCTTT
1 TTTATCTTT
112278698 TAGAATTTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:112281838 original size:50 final size:50
Alignment explanation
Indices: 112281765--112281864 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
112281755 CTATGTATAA
*
112281765 CTATGCTAAACCTTCTTTAACAGGAACTGAGTCAAGTATAGTTAGACCTG
1 CTATGATAAACCTTCTTTAACAGGAACTGAGTCAAGTATAGTTAGACCTG
112281815 CTATGATAAACCTTCTTTAACAGGAACTGAGTCAAGTATAGTTAGACCTG
1 CTATGATAAACCTTCTTTAACAGGAACTGAGTCAAGTATAGTTAGACCTG
112281865 ATATTGCTGC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (50 bp):
CTATGATAAACCTTCTTTAACAGGAACTGAGTCAAGTATAGTTAGACCTG
Found at i:112292401 original size:24 final size:23
Alignment explanation
Indices: 112292361--112292405 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
112292351 TCACATATAC
112292361 TCATAATTCAACTCAATTCAATTT
1 TCATAATTCAACTCAA-TCAATTT
*
112292385 TCATATTTCAA-TACAATCAAT
1 TCATAATTCAACT-CAATCAAT
112292406 ATCCAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (23 bp):
TCATAATTCAACTCAATCAATTT
Found at i:112292870 original size:10 final size:10
Alignment explanation
Indices: 112292855--112292879 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
112292845 AAATTTCCCT
112292855 TTTCTTTTTC
1 TTTCTTTTTC
112292865 TTTCTTTTTC
1 TTTCTTTTTC
112292875 TTTCT
1 TTTCT
112292880 CCCCTATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTCTTTTTC
Done.