Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 182 of 325
Found at i:59134012 original size:23 final size:23
Alignment explanation
Indices: 59133954--59134096 Score: 180
Period size: 23 Copynumber: 6.1 Consensus size: 23
59133944 CCTTGCCTCT
*
59133954 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
59133977 TTCTTATAACTGGGGCATAAGCCC
1 TT-TAATAACTGGGGCATAAGCCC
**
59134001 TTTAATAACTGGGGTGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
59134024 TTTTGATAAC-AGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
59134047 TTTTGATAACTAGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
59134071 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
59134094 TTT
1 TTT
59134097 TTCACTTCCT
Statistics
Matches: 106, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
23 64 0.60
24 42 0.40
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:59134045 original size:70 final size:70
Alignment explanation
Indices: 59133965--59134097 Score: 214
Period size: 70 Copynumber: 1.9 Consensus size: 70
59133955 TTAATAACTG
* **
59133965 GGGCAAAAGCCCTTCTT-ATAACTGGGGCATAAGCCCTTTAATAACTGGGGTGTAAGCCCTTTTG
1 GGGCAAAAGCCCTT-TTGATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTG
59134029 ATAACA
65 ATAACA
*
59134035 GGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
1 GGGCAAAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTT
59134098 TCACTTCCTC
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
69 2 0.03
70 56 0.97
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (70 bp):
GGGCAAAAGCCCTTTTGATAACTAGGGCATAAGCCCTTTAATAACTGGGGCATAAGCCCTTTTGA
TAACA
Found at i:59134172 original size:20 final size:20
Alignment explanation
Indices: 59134147--59134213 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
59134137 TTATGAATAC
59134147 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59134167 ATCATGGGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59134187 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59134207 ACCATGT
1 ATCATGT
59134214 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.33, C:0.21, G:0.13, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59141119 original size:31 final size:31
Alignment explanation
Indices: 59141078--59141141 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
59141068 CCTTTTCATA
* *
59141078 TTTCATATTTCATAACACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
59141109 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
59141140 TT
1 TT
59141142 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:59141402 original size:23 final size:24
Alignment explanation
Indices: 59141354--59141499 Score: 208
Period size: 24 Copynumber: 6.2 Consensus size: 24
59141344 GGCCTTGCCT
* *
59141354 CTTTTAATAACTAGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
59141378 CTTTTTATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
59141401 C-TTTAATAACTGGGGCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
59141424 CTTTTGAGAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
59141448 CTTTTGATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
59141472 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
59141495 CTTTT
1 CTTTT
59141500 TCACTTCCTC
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
22 14 0.13
23 34 0.31
24 62 0.56
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:59141483 original size:47 final size:48
Alignment explanation
Indices: 59141354--59141499 Score: 208
Period size: 46 Copynumber: 3.1 Consensus size: 48
59141344 GGCCTTGCCT
* * *
59141354 CTTTTAATAACTAGGGCAAAAGCCCTTTTTATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
* * *
59141401 C-TTTAATAACTGGGGCGTAAGCCCTTTTGAGAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
*
59141448 CTTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
59141495 CTTTT
1 CTTTT
59141500 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
46 35 0.40
47 32 0.36
48 21 0.24
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (48 bp):
CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCC
Found at i:59141571 original size:9 final size:9
Alignment explanation
Indices: 59141557--59141609 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
59141547 ACATCATGTG
59141557 CATATCATA
1 CATATCATA
*
59141566 CATATCATGTG
1 CATATCA--TA
59141577 CATATCATA
1 CATATCATA
*
59141586 CATGTCATGTA
1 CATATCA--TA
59141597 CATATCATA
1 CATATCATA
59141606 CATA
1 CATA
59141610 CCATGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.34
Consensus pattern (9 bp):
CATATCATA
Found at i:59141574 original size:20 final size:20
Alignment explanation
Indices: 59141549--59141615 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
59141539 TTATGAATAC
59141549 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59141569 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
59141589 GTCATGTACATATCATACAT
1 ATCATGTGCATATCATACAT
*
59141609 ACCATGT
1 ATCATGT
59141616 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59141598 original size:11 final size:11
Alignment explanation
Indices: 59141549--59141604 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
59141539 TTATGAATAC
*
59141549 ATCATGTGCAT
1 ATCATGTACAT
59141560 ATCA--TACAT
1 ATCATGTACAT
*
59141569 ATCATGTGCAT
1 ATCATGTACAT
59141580 ATCA--TACAT
1 ATCATGTACAT
*
59141589 GTCATGTACAT
1 ATCATGTACAT
59141600 ATCAT
1 ATCAT
59141605 ACATACCATG
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
9 15 0.42
11 21 0.58
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:59151205 original size:15 final size:15
Alignment explanation
Indices: 59151185--59151222 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
59151175 AGATCATAAG
*
59151185 CAAACATATTGAAAT
1 CAAACATACTGAAAT
59151200 CAAACATACTGAAAT
1 CAAACATACTGAAAT
59151215 CAAACATA
1 CAAACATA
59151223 AAAACTTAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.21
Consensus pattern (15 bp):
CAAACATACTGAAAT
Found at i:59158820 original size:28 final size:28
Alignment explanation
Indices: 59158725--59158824 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 28
59158715 AATGTGACTA
*
59158725 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATAT-AATGTGATTTG
*
59158754 GGCCTAATGGGCCATATACTGGTGATTTG
1 GGCCTAATGGGCCATATAAT-GTGATTTG
* *
59158783 GGCCAAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATAT-AATGTGATTTG
*
59158811 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
59158825 GATACAAGTA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
28 17 0.27
29 43 0.69
30 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAATGTGATTTG
Found at i:59160437 original size:28 final size:28
Alignment explanation
Indices: 59160342--59160441 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 28
59160332 AATGTGACTA
*
59160342 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATAT-AATGTGATTTG
*
59160371 GGCCTAATGGGCCATATACTGGTGATTTG
1 GGCCTAATGGGCCATATAAT-GTGATTTG
*
59160400 GGCCTAATGGGCCATATGAATATGA-TTG
1 GGCCTAATGGGCCATAT-AATGTGATTTG
*
59160428 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
59160442 GATACAAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.28
29 44 0.69
30 2 0.03
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (28 bp):
GGCCTAATGGGCCATATAATGTGATTTG
Found at i:59162155 original size:28 final size:29
Alignment explanation
Indices: 59162123--59162237 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
59162113 TACCTATATC
* * *
59162123 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCGTTAGGCCCAAATCACATTCATA
*
59162151 TGGCCCGTTAGGCCCAAATCACCTGT-ATA
1 TGGCCCGTTAGGCCCAAATCACAT-TCATA
*
59162180 TGGCCCGTTAGGCCCAAATCACATTTATA
1 TGGCCCGTTAGGCCCAAATCACATTCATA
* *
59162209 AGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCGTTAGGCCCAAATCACATTCATA
59162237 T
1 T
59162238 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.33
29 49 0.65
30 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (29 bp):
TGGCCCGTTAGGCCCAAATCACATTCATA
Found at i:59162184 original size:57 final size:58
Alignment explanation
Indices: 59162114--59162224 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
59162104 AAATTCACAT
* * *
59162114 ACCTATATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCGTTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATAAGGCCCGTTAGGCCCAAATC
* * * *
59162171 ACCTGTATATGGCCCGTTAGGCCCAAATCACATTTATAAGGCCCGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCCAAATCACATTCATAAGGCCCGTTAGGCCCA
59162225 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (58 bp):
ACCTATATATGGCCCATTAAGCCCAAATCACATTCATAAGGCCCGTTAGGCCCAAATC
Found at i:59166607 original size:28 final size:29
Alignment explanation
Indices: 59166575--59166689 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
59166565 TACCTATATC
*
59166575 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* *
59166603 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAAGCCCAAATCACAT-TCATA
* *
59166632 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
* * * *
59166661 TGGCCCGTT-AGGCCAAGTCATATTCATA
1 TGGCCCATTAAGCCCAAATCACATTCATA
59166689 T
1 T
59166690 TCATGCTTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 30 0.41
29 43 0.58
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAAGCCCAAATCACATTCATA
Found at i:59166632 original size:29 final size:28
Alignment explanation
Indices: 59166575--59166674 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 28
59166565 TACCTATATC
* *
59166575 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATT-ATA
*
59166603 TGGCCCATTAGGCCCAAATCACCTGTATA
1 TGGCCCATTAGGCCCAAATCACAT-TATA
59166632 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACA-TTATA
*
59166661 TGGCCCGTTAGGCC
1 TGGCCCATTAGGCC
59166675 AAGTCATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 14 0.22
29 48 0.75
30 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.26
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACATTATA
Found at i:59166672 original size:58 final size:57
Alignment explanation
Indices: 59166566--59166674 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
59166556 AATTTCACAT
* *
59166566 ACCTATATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
59166623 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCC
1 ACCTATATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCC
59166675 AAGTCATATT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 21 0.47
58 24 0.53
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.27
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:59170317 original size:40 final size:40
Alignment explanation
Indices: 59170212--59170417 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
59170202 CGGATGGTAA
** * * *
59170212 CCGGGCTAAGTCCTTAAGGTATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
59170252 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59170291 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59170331 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59170371 CCGGGCTAAGT-CCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
59170410 CC-GGCTAA
1 CCGGGCTAA
59170418 ATTCGAAGGT
Statistics
Matches: 154, Mismatches: 9, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
38 8 0.05
39 56 0.36
40 90 0.58
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59170391 original size:79 final size:78
Alignment explanation
Indices: 59170209--59170394 Score: 275
Period size: 79 Copynumber: 2.3 Consensus size: 78
59170199 TTTCGGATGG
* * * *
59170209 TAACCGGGCTAAGTCCTTAAGGTATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCATT
1 TAACCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATT
59170274 TGTGCGAGTTACTA
65 TGTGCGAGTTACTA
* *
59170288 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCA
1 TAACCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGCA
59170352 TTTGTGCGAGTTACTA
63 TTTGTGCGAGTTACTA
59170368 TAACCGGGCTAAGTCCGAAGGCATTTG
1 TAACCGGGCTAAGTCCGAAGGCATTTG
59170395 AGCAAGTAGC
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
78 2 0.02
79 54 0.56
80 41 0.42
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (78 bp):
TAACCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCATTT
GTGCGAGTTACTA
Found at i:59170408 original size:79 final size:78
Alignment explanation
Indices: 59170209--59170417 Score: 273
Period size: 79 Copynumber: 2.7 Consensus size: 78
59170199 TTTCGGATGG
* * *
59170209 TAACCGGGCTAAGTCCTTAAGGTATTTGTGCTAGT-GACTA-ATTCCGGGCTAAGCCCGAAGGCA
1 TAACCGGGCTAAGTCC-GAAGGCATTTGTGCAAGTAG-CTATA-TCCGGGCTAAGCCCGAAGGCA
59170272 TTTGTGCGAGTTACTA
63 TTTGTGCGAGTTACTA
* * *
59170288 TATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGGCA
1 TAACCGGGCTAAGT-CCGAAGGCATTTGTGCAAG-TAGCTATATCCGGGCTAAG-CCCGAAGGCA
59170352 TTTGTGCGAGTTACTA
63 TTTGTGCGAGTTACTA
*
59170368 TAACCGGGCTAAGTCCGAAGGCATTTGAGCAAGTAGCTATATCC-GGCTAA
1 TAACCGGGCTAAGTCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAA
59170418 ATTCGAAGGT
Statistics
Matches: 115, Mismatches: 9, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 8 0.07
79 64 0.56
80 43 0.37
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (78 bp):
TAACCGGGCTAAGTCCGAAGGCATTTGTGCAAGTAGCTATATCCGGGCTAAGCCCGAAGGCATTT
GTGCGAGTTACTA
Found at i:59179511 original size:42 final size:42
Alignment explanation
Indices: 59179449--59179538 Score: 112
Period size: 42 Copynumber: 2.1 Consensus size: 42
59179439 CGTTTACTTG
* *
59179449 ATGCCATTGTCCAACTATGGTCTTACACGAAGTCTCATATCA
1 ATGCCATTGTCCAACTATGGTCTTACACGAAATCACATATCA
* *
59179491 ATGCCA-TGTCCAGGAC-ATGGTCTTACATGAAATCACATATCG
1 ATGCCATTGTCCA--ACTATGGTCTTACACGAAATCACATATCA
59179533 ATGCCA
1 ATGCCA
59179539 ATCTCATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
41 6 0.14
42 34 0.81
43 2 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATTGTCCAACTATGGTCTTACACGAAATCACATATCA
Found at i:59179578 original size:48 final size:48
Alignment explanation
Indices: 59179489--59179988 Score: 642
Period size: 48 Copynumber: 10.6 Consensus size: 48
59179479 AGTCTCATAT
* **
59179489 CAATGCCATGT-CCAGGACATGGTCTTACATGAAATCACATATCGATGC
1 CAATGCCATGTCCCA-GACATGGTCTTACACGGGATCACATATCGATGC
* * * *
59179537 CAAT-CTCATATCTTC-GATATGGTCTTACATGGGATCACATATCGATGC
1 CAATGC-CATGTC-CCAGACATGGTCTTACACGGGATCACATATCGATGC
* * *
59179585 CAATGCCATGTCCCAGATATGGTCTTACACGGGATCACATATCGGTGG
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* * *
59179633 CAATGCCATGTCCTAGACATGGTCTT--AC---AT--GATATCGATGA
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* * * * * *
59179674 TAGTGCCATGTCCCAAACATGGTCTTACATGGGATTACATATCGATTC
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* *
59179722 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
59179770 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* * * *
59179818 CAATACCATGTCCCATATATGGTCTTACACGGGATCACATATTGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* *
59179866 CAATGCCATGTCCCAAACATGGTCTAACACGGGATCACATATCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
* *
59179914 CAATGCCATGTCCTAGACATGATCTTACACGGGATCACATATCGATGC
1 CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
59179962 CAATGCCATGTCCCAGACATGGTCTTA
1 CAATGCCATGTCCCAGACATGGTCTTA
59179989 TATGTCATTA
Statistics
Matches: 394, Mismatches: 46, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
41 30 0.08
43 3 0.01
46 4 0.01
47 2 0.01
48 353 0.90
49 1 0.00
50 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
CAATGCCATGTCCCAGACATGGTCTTACACGGGATCACATATCGATGC
Found at i:59188023 original size:30 final size:30
Alignment explanation
Indices: 59187989--59188049 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59187979 TCCTTAACTC
59187989 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
59188019 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
59188049 A
1 A
59188050 GGATCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:59190690 original size:42 final size:42
Alignment explanation
Indices: 59190582--59190692 Score: 102
Period size: 42 Copynumber: 2.6 Consensus size: 42
59190572 TACCATATCA
** * * *
59190582 ATGCCATATCCTGGATATGGTCTTACATGAAATATCATATCG
1 ATGCCATATCCCAGAAATGGTCTTATATGAAATATCATACCG
* * *
59190624 ATGCCATGTCCCTA-ACATGCTCTTATACT-AAATTAT-ATACCG
1 ATGCCATATCCC-AGAAATGGTCTTATA-TGAAA-TATCATACCG
59190666 ATGCCATATCCCAGAAATGGTCTTATA
1 ATGCCATATCCCAGAAATGGTCTTATA
59190693 GGGAATCTCG
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
41 1 0.02
42 50 0.91
43 4 0.07
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGAAATGGTCTTATATGAAATATCATACCG
Found at i:59197205 original size:18 final size:19
Alignment explanation
Indices: 59197182--59197219 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59197172 AGGGTATTTT
*
59197182 AATAAATT-AGTAAATAAA
1 AATAAATTAACTAAATAAA
59197200 AATAAATTAACTAAATAAA
1 AATAAATTAACTAAATAAA
59197219 A
1 A
59197220 GTGTCCATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (19 bp):
AATAAATTAACTAAATAAA
Found at i:59201067 original size:28 final size:28
Alignment explanation
Indices: 59201029--59201154 Score: 200
Period size: 28 Copynumber: 4.5 Consensus size: 28
59201019 TAAATTGTAC
*
59201029 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59201057 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
* *
59201085 AGCACTAAGTGTGTGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
59201113 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59201140 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59201155 GACTTAATAT
Statistics
Matches: 93, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.26
28 69 0.74
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:59209350 original size:22 final size:20
Alignment explanation
Indices: 59209317--59209359 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
59209307 GATGCATATT
*
59209317 GTTATAATATGTAATGCATTA
1 GTTATAAAATGT-ATGCATTA
59209338 GTTAGTAAAATGTATGTCATTA
1 GTTA-TAAAATGTATG-CATTA
59209360 TATGTGTACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.37, C:0.05, G:0.16, T:0.42
Consensus pattern (20 bp):
GTTATAAAATGTATGCATTA
Found at i:59210045 original size:38 final size:38
Alignment explanation
Indices: 59209938--59210108 Score: 189
Period size: 38 Copynumber: 4.6 Consensus size: 38
59209928 AGTGACAATA
*
59209938 TCCGGACTAAGAT-CCGAA-GCATT-TGCGAG-AACTAAT
1 TCCGG-CTAAG-TCCCGAAGGCATTGTGCGAGTTACTAAT
*
59209974 TCCGGCTAA--CCCGAAGGCATTGTGCGAGATACTAAT
1 TCCGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
*
59210010 TCCGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAT
59210048 TCCGG-TAAGTCCCGAAGGCATTGTGCGAGTTACT-AT
1 TCCGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
* *
59210084 AACCGGCTATGTCCCGAAGGGCATT
1 -TCCGGCTAAGTCCCGAA-GGCATT
59210109 TGAACGAGGA
Statistics
Matches: 119, Mismatches: 6, Indels: 17
0.84 0.04 0.12
Matches are distributed among these distances:
33 5 0.04
34 5 0.04
35 10 0.08
36 21 0.18
37 32 0.27
38 40 0.34
39 6 0.05
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (38 bp):
TCCGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT
Found at i:59212721 original size:42 final size:42
Alignment explanation
Indices: 59212620--59212773 Score: 186
Period size: 42 Copynumber: 3.6 Consensus size: 42
59212610 CGAGACTATG
* * *
59212620 TGTAAGACCATATTTGGGATATGGCATC-ATTATGA-ATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCGA-TACGAGATTTCA
*
59212661 TGTAAAGACTATATCTGGGATATGGCATCGATACGAGATTTCA
1 TGT-AAGACCATATCTGGGATATGGCATCGATACGAGATTTCA
* * * **
59212704 TGTAATACCATAGCTGGGCTATTGGCATCGATACGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATACGAGATTTCA
59212747 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
59212774 TGGTGTGGTA
Statistics
Matches: 96, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
41 3 0.03
42 47 0.49
43 46 0.48
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGATTTCA
Found at i:59215330 original size:78 final size:81
Alignment explanation
Indices: 59215189--59215370 Score: 223
Period size: 78 Copynumber: 2.3 Consensus size: 81
59215179 TACTCGTTCA
* *
59215189 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
* *
59215253 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
**
59215269 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
59215330 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
59215347 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
59215371 CATCATTCGA
Statistics
Matches: 89, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
77 3 0.03
78 45 0.51
79 28 0.31
80 13 0.15
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:59215370 original size:40 final size:40
Alignment explanation
Indices: 59215168--59215370 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59215158 CGGAATTTAA
** *
59215168 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59215208 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59215248 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
59215287 CCGGA-ATTAGT-ACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59215326 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59215366 CCGGA
1 CCGGA
59215371 CATCATTCGA
Statistics
Matches: 140, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
37 2 0.01
38 17 0.12
39 28 0.20
40 82 0.59
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59223454 original size:79 final size:81
Alignment explanation
Indices: 59223345--59223527 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
59223335 TACTCGTTCA
* *
59223345 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
59223408 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
59223425 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
59223488 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
59223504 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
59223528 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:59223527 original size:40 final size:40
Alignment explanation
Indices: 59223324--59223527 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
59223314 CGGAATTTAA
** *
59223324 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59223364 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59223404 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
59223443 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
59223483 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
59223523 CCGGA
1 CCGGA
59223528 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 93 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:59226772 original size:27 final size:26
Alignment explanation
Indices: 59226680--59226772 Score: 107
Period size: 27 Copynumber: 3.5 Consensus size: 26
59226670 GACAGATAAG
* *
59226680 GAAAGCCTTTGTGGCATAATATGAAAA
1 GAAAGCCTTTGTGACGTAATATG-AAA
*
59226707 GATAA-CCTTTGTAACGTAATATGAAA
1 GA-AAGCCTTTGTGACGTAATATGAAA
* *
59226733 GAAAGCCTTTGTGACGTAAAATGAATT
1 GAAAGCCTTTGTGACGTAATATGAA-A
59226760 GAAAGCCTTTGTG
1 GAAAGCCTTTGTG
59226773 GCAAACCATG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
25 2 0.04
26 23 0.40
27 30 0.53
28 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (26 bp):
GAAAGCCTTTGTGACGTAATATGAAA
Found at i:59233715 original size:95 final size:96
Alignment explanation
Indices: 59233364--59233788 Score: 448
Period size: 96 Copynumber: 4.4 Consensus size: 96
59233354 GTAAAATGCT
* * * * *
59233364 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATACATCGGTGCCAATGCCATGTACCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAA
* * * **
59233429 ACATAGTCTTACATTGACACATAAAACAATACC
66 ACATGGTCTTACACTGACAC--AAATCAAGGCC
* * * * * **
59233462 GATGTCATGTTCCAAACATGGTTTTACACTGGCTCGCAT--ATTGAG-G-CGAATGCCATGTCCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCG-GTGCCG-ATGCCATGTCCC
* * *
59233523 AGACATGGTCTTACACTGACTTACATAA-CAATGCT
64 AAACATGGTCTTACACTGAC--ACA-AATCAAGGCC
* * * * *
59233558 GATGTCATGTTCCAAACATGGTCTTACGCTGGCTCGCATAAACCGGTGCCGATGCCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAA
* **
59233623 ACATTGTCTTACACTGACACAAATTGAGGCC
66 ACATGGTCTTACACTGACACAAATCAAGGCC
* *
59233654 GATGCCATGTCCCAGACATGGTCTTACACT-ACTCTCATAAACCGGTGCCGATGTCATGTCCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAA
* *
59233718 ACATGGTCTTACACTGACACATATCGAGGCC
66 ACATGGTCTTACACTGACACAAATCAAGGCC
*
59233749 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA
59233789 TCGCCATTGT
Statistics
Matches: 282, Mismatches: 34, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
95 91 0.32
96 116 0.41
97 4 0.01
98 69 0.24
99 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAACCGGTGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACACAAATCAAGGCC
Found at i:59234527 original size:14 final size:15
Alignment explanation
Indices: 59234488--59234527 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
59234478 TTTTAGGTGG
*
59234488 TTTCATAAAAAATCC
1 TTTCACAAAAAATCC
59234503 TTTCACAAAAAATCC
1 TTTCACAAAAAATCC
59234518 TTTCACAAAA
1 TTTCACAAAA
59234528 GTTGTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (15 bp):
TTTCACAAAAAATCC
Found at i:59239038 original size:39 final size:40
Alignment explanation
Indices: 59238937--59239199 Score: 344
Period size: 39 Copynumber: 6.7 Consensus size: 40
59238927 TTGAATGATG
*
59238937 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
59238976 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATATTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
59239017 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
59239056 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59239095 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59239134 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
59239173 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
59239200 AACGAGGAGC
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
39 113 0.55
40 77 0.38
41 13 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:59246709 original size:22 final size:21
Alignment explanation
Indices: 59246667--59246710 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
59246657 ATGCATATTG
*
59246667 AGTTATAATATGTAATGCATT
1 AGTTATAAAATGTAATGCATT
59246688 AGTTAGTAAAATGT-ATGTCATT
1 AGTTA-TAAAATGTAATG-CATT
59246710 A
1 A
59246711 TATGTGGTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (21 bp):
AGTTATAAAATGTAATGCATT
Found at i:59247376 original size:39 final size:40
Alignment explanation
Indices: 59247278--59247498 Score: 276
Period size: 39 Copynumber: 5.6 Consensus size: 40
59247268 AATGATGTCT
*
59247278 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TCC
*
59247318 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTCC
59247358 GGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
* *
59247397 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
* * *
59247436 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-TCC
*
59247476 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
59247499 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
39 75 0.46
40 75 0.46
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTCC
Found at i:59247462 original size:79 final size:81
Alignment explanation
Indices: 59247278--59247498 Score: 285
Period size: 79 Copynumber: 2.8 Consensus size: 81
59247268 AATGATGTCT
* * *
59247278 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCATTT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATATCCGGGCTAAGACCCGAAGGCATTT
*
59247340 GTGCGAGATACTAATTCC
64 GTGCGAGATACTAAATCC
59247358 GGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATTTGT
*
59247420 GCGAGTTACTAAATCC
66 GCGAGATACTAAATCC
* * * * *
59247436 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATTTG
59247499 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
78 37 0.29
79 54 0.43
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATATCCGGGCTAAGACCCGAAGGCATTTGT
GCGAGATACTAAATCC
Found at i:59247512 original size:40 final size:40
Alignment explanation
Indices: 59247278--59247498 Score: 249
Period size: 40 Copynumber: 5.6 Consensus size: 40
59247268 AATGATGTCT
* * * *
59247278 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACAATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACC
* * *
59247318 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
* *
59247358 GGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACC
59247397 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
*
59247436 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
*
59247476 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
59247499 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
39 74 0.45
40 79 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACC
Found at i:59247520 original size:79 final size:79
Alignment explanation
Indices: 59247282--59247531 Score: 228
Period size: 79 Copynumber: 3.2 Consensus size: 79
59247272 ATGTCTGGGC
* * * **
59247282 TAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCATTTGTGC
1 TAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCATTTGAAC
* *
59247344 GAGAT-ACTAATTCCGGGC
62 GAG-TGACTAAATCCGGGT
* **
59247362 TAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGT
1 TAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
*
59247426 TACTAAATCCGGGT
66 GACTAAATCCGGGT
* *
59247440 TAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGA
*
59247504 G-GAGCTATATCC-GGT
64 GTGA-CTAAATCCGGGT
* *
59247519 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
59247532 TACGTGATTT
Statistics
Matches: 147, Mismatches: 15, Indels: 17
0.82 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 36 0.24
79 68 0.46
80 41 0.28
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGT
GACTAAATCCGGGT
Found at i:59250163 original size:28 final size:28
Alignment explanation
Indices: 59250125--59250195 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
59250115 TAAATTGTAC
*
59250125 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59250153 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
59250181 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
59250196 GACTTAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:59253338 original size:14 final size:13
Alignment explanation
Indices: 59253318--59253349 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
59253308 AATATGTGAC
59253318 TTGTTCTTAATTA
1 TTGTTCTTAATTA
59253331 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
59253345 TTGTT
1 TTGTT
59253350 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:59261907 original size:10 final size:10
Alignment explanation
Indices: 59261892--59261931 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
59261882 CTGTTTTGTA
59261892 CATGATATGC
1 CATGATATGC
*
59261902 CATGATGTGC
1 CATGATATGC
59261912 ACATGATATGC
1 -CATGATATGC
59261923 CATGATATG
1 CATGATATG
59261932 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (10 bp):
CATGATATGC
Found at i:59262053 original size:24 final size:25
Alignment explanation
Indices: 59261978--59262046 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
59261968 AGGAAGTGAG
* * *
59261978 AAAGGGCTTTGCCCGAGTTTACCGA
1 AAAGGGCTTTGCCCCAGTTTATCAA
*
59262003 AAAGGGCTTTGCCCTAGTTTATCAA
1 AAAGGGCTTTGCCCCAGTTTATCAA
*
59262028 AAAGGGTTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
59262047 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAA
Found at i:59269790 original size:10 final size:10
Alignment explanation
Indices: 59269771--59269810 Score: 62
Period size: 10 Copynumber: 3.9 Consensus size: 10
59269761 CTATTTTGTA
59269771 CATGATATGC
1 CATGATATGC
*
59269781 CATTATATGC
1 CATGATATGC
59269791 ACATGATATGC
1 -CATGATATGC
59269802 CATGATATG
1 CATGATATG
59269811 TTCATATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
10 18 0.67
11 9 0.33
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (10 bp):
CATGATATGC
Found at i:59269796 original size:21 final size:21
Alignment explanation
Indices: 59269770--59269810 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
59269760 ACTATTTTGT
*
59269770 ACATGATATGCCATTATATGC
1 ACATGATATGCCATGATATGC
59269791 ACATGATATGCCATGATATG
1 ACATGATATGCCATGATATG
59269811 TTCATATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (21 bp):
ACATGATATGCCATGATATGC
Found at i:59269889 original size:25 final size:25
Alignment explanation
Indices: 59269854--59269925 Score: 117
Period size: 25 Copynumber: 2.8 Consensus size: 25
59269844 TGGAGGAAGT
59269854 GAAAGAGGGCTTTGCCCCAGTTTACC
1 GAAA-AGGGCTTTGCCCCAGTTTACC
*
59269880 GAAAAGGGCTTTGCCCCAGTTTATC
1 GAAAAGGGCTTTGCCCCAGTTTACC
*
59269905 AAAAAGGGCTTTGCCCCAGTT
1 GAAAAGGGCTTTGCCCCAGTT
59269926 ACTAAAAGAG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
25 40 0.91
26 4 0.09
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (25 bp):
GAAAAGGGCTTTGCCCCAGTTTACC
Found at i:59270178 original size:30 final size:31
Alignment explanation
Indices: 59270142--59270224 Score: 152
Period size: 30 Copynumber: 2.7 Consensus size: 31
59270132 CGTTTACAAT
59270142 AAAGGCTTCGGCCCAGTGATATGAATAATG-
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
59270172 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
59270203 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
59270225 TTGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 35 0.67
31 17 0.33
ACGTcount: A:0.33, C:0.18, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:59271994 original size:13 final size:13
Alignment explanation
Indices: 59271976--59272000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59271966 CTAGCACACG
59271976 GTCGTGTGACTTT
1 GTCGTGTGACTTT
59271989 GTCGTGTGACTT
1 GTCGTGTGACTT
59272001 CAATTTCTTC
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:0.08, C:0.16, G:0.32, T:0.44
Consensus pattern (13 bp):
GTCGTGTGACTTT
Found at i:59285141 original size:13 final size:13
Alignment explanation
Indices: 59285123--59285147 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59285113 TAATGGTATA
59285123 TTGAATCCATGAT
1 TTGAATCCATGAT
59285136 TTGAATCCATGA
1 TTGAATCCATGA
59285148 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:59286633 original size:47 final size:47
Alignment explanation
Indices: 59286579--59287459 Score: 1501
Period size: 47 Copynumber: 18.6 Consensus size: 47
59286569 TATTTGAATA
*
59286579 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59286626 AATGTGAAAGTGTATATATATGTGATAAGACCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59286675 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59286724 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59286771 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59286818 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59286865 AATGTGAAAGTTTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59286912 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATCGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59286961 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59287010 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59287057 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* **
59287104 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGAGGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59287151 AATGTGAAAGTGTATATATGTGATAAGGCATAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
59287198 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAAGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59287245 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59287292 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59287339 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
59287386 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
59287433 GATGTGAAATTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
59287460 TCCCGAAGGG
Statistics
Matches: 796, Mismatches: 34, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
47 609 0.77
49 187 0.23
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:59289270 original size:198 final size:199
Alignment explanation
Indices: 59288909--59289338 Score: 659
Period size: 198 Copynumber: 2.2 Consensus size: 199
59288899 GAGAATTGAG
* * * *
59288909 AGTGAAATGTCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCG
1 AGTGATATATCCGGGCTAAGTC-CGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCG
59288974 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTAT
65 AAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTAT
* * **
59289039 CCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATCC-GGACTAAGTC-CGAAGAGCATT
130 CCGGACTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCAGG-CTAAACCTCGAAGAGCATT
59289102 CGTGCT
194 CGTGCT
* * *
59289108 AGTGATGTATCCGGACTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGA
59289173 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
66 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
* *
59289238 CGGACTAAGT-TCCGAAGAGCATTCGTGCTAGTGATATATCCATGCTAAACCTCGAAGAGCATTT
131 CGGACTAAGTCT-CGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAAACCTCGAAGAGCATTC
59289302 GTGCT
195 GTGCT
* * *
59289307 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGT-CCGAAGAGCA
59289339 ATCATGCTGT
Statistics
Matches: 209, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
197 1 0.00
198 148 0.71
199 50 0.24
200 10 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (199 bp):
AGTGATATATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTCCCGA
AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTATC
CGGACTAAGTCTCGAAGAGCATTCGTGCTAGTGATATATCCAGGCTAAACCTCGAAGAGCATTCG
TGCT
Found at i:59289347 original size:40 final size:40
Alignment explanation
Indices: 59288918--59289338 Score: 632
Period size: 40 Copynumber: 10.6 Consensus size: 40
59288908 GAGTGAAATG
* *
59288918 TCCGGGCTAAATCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
59288958 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
59288998 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
59289038 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
59289078 TCCGGACTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
59289117 TCCGGACTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
59289156 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
59289196 TCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
59289236 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
** * * * * *
59289276 TCCATGCTAA-ACCTCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTAGTGATGTA
*
59289316 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
59289339 ATCATGCTGT
Statistics
Matches: 351, Mismatches: 27, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
39 77 0.22
40 272 0.77
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:59291550 original size:13 final size:13
Alignment explanation
Indices: 59291532--59291556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59291522 TAATGGTATA
59291532 TTGAATCCATGAT
1 TTGAATCCATGAT
59291545 TTGAATCCATGA
1 TTGAATCCATGA
59291557 AAATTTAGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:59293351 original size:49 final size:47
Alignment explanation
Indices: 59292987--59293721 Score: 1219
Period size: 47 Copynumber: 15.6 Consensus size: 47
59292977 TATTTGAATA
59292987 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59293034 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATATGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59293081 AATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293128 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59293173 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59293220 AATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293267 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293314 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293363 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
59293412 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293461 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
59293507 AATGTGAAAGTGTATATATGTGATATGGTCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293554 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
59293603 AATGTGAAA--GTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
59293648 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
59293695 GATGTGAAAGTGTATAAATGTGGTAAG
1 AATGTGAAAGTGTATATATGTGATAAG
59293722 TCCCGAAGGG
Statistics
Matches: 653, Mismatches: 26, Indels: 18
0.94 0.04 0.03
Matches are distributed among these distances:
45 88 0.13
46 42 0.06
47 338 0.52
49 185 0.28
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:59296499 original size:20 final size:19
Alignment explanation
Indices: 59296423--59296506 Score: 87
Period size: 20 Copynumber: 4.3 Consensus size: 19
59296413 AACTCATTCA
59296423 TATAACAGTAATTCATCCG
1 TATAACAGTAATTCATCCG
* * * **
59296442 TATAAATAGGAGTTCATAAG
1 TAT-AACAGTAATTCATCCG
59296462 TAATAACAGTAATTCATCCG
1 T-ATAACAGTAATTCATCCG
*
59296482 TATCAACAGTAATTCATCCA
1 TAT-AACAGTAATTCATCCG
59296502 TATAA
1 TATAA
59296507 ACACATATCT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
19 7 0.14
20 42 0.82
21 2 0.04
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.31
Consensus pattern (19 bp):
TATAACAGTAATTCATCCG
Found at i:59296509 original size:20 final size:20
Alignment explanation
Indices: 59296411--59296509 Score: 78
Period size: 20 Copynumber: 5.0 Consensus size: 20
59296401 CGTATATACT
* *
59296411 GTAACTCATTCATAT-AACA
1 GTAATTCATCCATATAAACA
* *
59296430 GTAATTCATCCGTATAAATA
1 GTAATTCATCCATATAAACA
* * *
59296450 GGAGTTCAT-AAGTA-ATAACA
1 GTAATTCATCCA-TATA-AACA
* *
59296470 GTAATTCATCCGTATCAACA
1 GTAATTCATCCATATAAACA
59296490 GTAATTCATCCATATAAACA
1 GTAATTCATCCATATAAACA
59296510 CATATCTTAT
Statistics
Matches: 59, Mismatches: 16, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
19 13 0.22
20 46 0.78
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.30
Consensus pattern (20 bp):
GTAATTCATCCATATAAACA
Found at i:59296706 original size:22 final size:23
Alignment explanation
Indices: 59296680--59296758 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 23
59296670 GCTGATGAAC
59296680 AGTAAGCTCTATCGAGCT-AAAT
1 AGTAAGCTCTATCGAGCTGAAAT
59296702 AGTAAGCTC-ATACGAGCTGAAA-
1 AGTAAGCTCTAT-CGAGCTGAAAT
* *
59296724 CGATAAGCTCCAAT-GAGCTGAAAAT
1 AG-TAAGCT-CTATCGAGCTG-AAAT
59296749 AGTAAGCTCT
1 AGTAAGCTCT
59296759 TAGAAGCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 13
0.75 0.05 0.21
Matches are distributed among these distances:
21 2 0.04
22 16 0.34
23 16 0.34
24 10 0.21
25 3 0.06
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (23 bp):
AGTAAGCTCTATCGAGCTGAAAT
Found at i:59296959 original size:23 final size:24
Alignment explanation
Indices: 59296926--59296981 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
59296916 GCTTTTAATG
*
59296926 ATCA-ATA-ATTCAATT-TATCAA
1 ATCATATACATTCAATTCAATCAA
*
59296947 ATCATATACATTCAATTCAATTAA
1 ATCATATACATTCAATTCAATCAA
59296971 AT-ATATACATT
1 ATCATATACATT
59296982 TAAATACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 17 0.57
24 6 0.20
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (24 bp):
ATCATATACATTCAATTCAATCAA
Found at i:59298604 original size:68 final size:68
Alignment explanation
Indices: 59298458--59298605 Score: 158
Period size: 68 Copynumber: 2.1 Consensus size: 68
59298448 AGCCGATTTG
* * * * *
59298458 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGAATCACACATGTGACCTAGCTACATA
*
59298523 TATC
65 TATA
*
59298527 TCTCACGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGAATCACACATGTGACCTAGCTAC-
59298589 ATATAGTA
62 ATATA-TA
59298597 TCTCGTAGC
1 TCTCGTAGC
59298606 CTTCTTATAC
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
68 28 0.42
69 7 0.10
70 6 0.09
71 26 0.39
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.34
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGAATCACACATGTGACCTAGCTACATAT
ATA
Found at i:59300545 original size:40 final size:40
Alignment explanation
Indices: 59300490--59300569 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
59300480 TTCACATATG
59300490 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
1 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
59300530 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
1 CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
59300570 TCAAGACATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.35, C:0.20, G:0.12, T:0.33
Consensus pattern (40 bp):
CATCAAGTAAGCATAGATGAGCTCATCATACTATATTCTT
Found at i:59300914 original size:59 final size:58
Alignment explanation
Indices: 59300759--59300916 Score: 160
Period size: 57 Copynumber: 2.7 Consensus size: 58
59300749 CCTCATAACA
* * * *
59300759 TATAACAGGATTACCAGTCCAGGCTAAATCCCTTTTGTAATATATAGTCAGAAGAGCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATAGTCAGAAGAGAT
* * * * * ** *
59300817 CA-ATTAGGATCACCAGTCCAAGCTAAATCATAATTGTAACATAT-GTTC-GAGAGGGAAT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATAG-TCAGA-AGAG-AT
59300875 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACA
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACA
59300917 ATGCAGAACC
Statistics
Matches: 77, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
56 3 0.04
57 38 0.49
58 3 0.04
59 33 0.43
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTTTTTGTAACATATAGTCAGAAGAGAT
Found at i:59304580 original size:72 final size:72
Alignment explanation
Indices: 59304484--59304671 Score: 220
Period size: 72 Copynumber: 2.6 Consensus size: 72
59304474 ATGCCCGTAT
* * * * * *
59304484 TTGAGCTACTCACGGGTCTGTACACAAAGTCAGCACCCGGGCCCCAAAGCATTATCATG-TAATG
1 TTGAGCTACTCATGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAACATTAACATGAT-ATG
59304548 CCCT-CTCA
65 -CCTGCTCA
* *
59304556 TTGAGCTACTCATGGGTTTATACACAGAGTCA-CTACCTGGACCCCAAAACATTAACATGATATG
1 TTGAGCTACTCATGGGTTTATACACAAAGTCAGC-ACCCGGACCCCAAAACATTAACATGATATG
*
59304620 CTTGCTCA
65 CCTGCTCA
** *
59304628 GCGAGTTACTCATGGGTTTATACACAAAGTCAGCACCCGGACCC
1 TTGAGCTACTCATGGGTTTATACACAAAGTCAGCACCCGGACCC
59304672 ATATTATATA
Statistics
Matches: 98, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
71 3 0.03
72 93 0.95
73 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (72 bp):
TTGAGCTACTCATGGGTTTATACACAAAGTCAGCACCCGGACCCCAAAACATTAACATGATATGC
CTGCTCA
Found at i:59305341 original size:20 final size:20
Alignment explanation
Indices: 59305316--59305354 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59305306 AAAATTTCAA
59305316 TTATTTCA-CACATTTACAAC
1 TTATTTCACCAC-TTTACAAC
*
59305336 TTATTTTACCACTTTACAA
1 TTATTTCACCACTTTACAA
59305355 AATAACCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACCACTTTACAAC
Found at i:59310929 original size:20 final size:20
Alignment explanation
Indices: 59310904--59310942 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
59310894 AAAATTTCAA
59310904 TTATTTCA-CACATTTACAAC
1 TTATTTCACCAC-TTTACAAC
*
59310924 TTATTTTACCACTTTACAA
1 TTATTTCACCACTTTACAA
59310943 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACCACTTTACAAC
Found at i:59313404 original size:42 final size:42
Alignment explanation
Indices: 59313342--59313507 Score: 138
Period size: 43 Copynumber: 3.9 Consensus size: 42
59313332 AGCTCGTACA
* * *** *
59313342 ATGCC-ATATCCCAGATATGGTCTTACATTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACAGAAATCACATAACG
* * *
59313383 GTGCCACTGTCCCAGACATGGTCTTACAAGAAATCATATAACG
1 ATGCCAATGTCCCAGACATGGTCTTAC-AGAAATCACATAACG
* * *
59313426 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACA-GAAATCACATA-ACG
* * * *
59313469 ACGCCAATGTCCCATACATGGTCTTGCATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACA-GAAATCACAT
59313508 CTCTGTAATC
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
41 4 0.04
42 20 0.20
43 76 0.76
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACAGAAATCACATAACG
Found at i:59336055 original size:49 final size:49
Alignment explanation
Indices: 59335996--59336416 Score: 597
Period size: 49 Copynumber: 8.6 Consensus size: 49
59335986 TATTTGAATA
*
59335996 AATGTAAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59336045 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59336094 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59336141 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59336190 AATGTGAAAGTGTATATATATGTGATAAGGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATA--T-AT---GTGATAAGGCCGAATGGCCAATGTGATG
* * *
59336247 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59336296 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
59336343 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
59336390 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
59336417 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 18, Indels: 26
0.89 0.05 0.07
Matches are distributed among these distances:
47 139 0.41
48 1 0.00
49 144 0.42
51 6 0.02
52 2 0.01
53 2 0.01
54 2 0.01
55 6 0.02
57 40 0.12
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:59336129 original size:47 final size:48
Alignment explanation
Indices: 59335996--59336416 Score: 571
Period size: 47 Copynumber: 8.6 Consensus size: 48
59335986 TATTTGAATA
*
59335996 AATGTAAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59336045 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59336094 AATGTGAAAGTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59336141 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATG
59336190 AATGTGAAAGTGTATATATATGTGATAAGGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG---ATATA--T-AT---GTGATAAGGCCGAATGGCCAATGTGATG
* * *
59336247 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59336296 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * * *
59336343 AATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59336390 GATGTGAAAGTG-TATAAATGTGATAAG
1 AATGTGAAAGTGATATATATGTGATAAG
59336417 TCCCGAAGGG
Statistics
Matches: 343, Mismatches: 19, Indels: 22
0.89 0.05 0.06
Matches are distributed among these distances:
47 143 0.42
49 142 0.41
51 6 0.02
52 2 0.01
53 2 0.01
54 2 0.01
55 6 0.02
57 40 0.12
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (48 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:59336225 original size:57 final size:57
Alignment explanation
Indices: 59336162--59336276 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
59336152 GTATATATAT
59336162 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
59336219 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
59336276 G
1 G
59336277 CCTAATGGTC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (57 bp):
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
Found at i:59336237 original size:106 final size:106
Alignment explanation
Indices: 59336113--59336416 Score: 420
Period size: 106 Copynumber: 3.0 Consensus size: 106
59336103 GTGTATATAT
59336113 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
59336178 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
66 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
*
59336219 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
* *
59336284 GTCGATGTGATGAATGTGAAAGTG----TATA--T-AT---
66 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
* * * * *
59336315 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
* *
59336378 GCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGATAAG
66 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
59336417 TCCCGAAGGG
Statistics
Matches: 175, Mismatches: 13, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
94 39 0.22
96 39 0.22
97 1 0.01
98 1 0.01
99 4 0.02
100 1 0.01
102 4 0.02
106 86 0.49
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.28
Consensus pattern (106 bp):
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAG
Found at i:59336272 original size:27 final size:27
Alignment explanation
Indices: 59336182--59336272 Score: 78
Period size: 27 Copynumber: 3.3 Consensus size: 27
59336172 CGAATGGCCA
59336182 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
* * * **
59336209 ATGTGAT-AAGGTGATAAGGCCGAATGGCCA-
1 ATGTGATGAATGTGA-AA-G-TGTAT--ATAT
59336239 ATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGATGAATGTGAAAGTGTATATAT
59336266 ATGTGAT
1 ATGTGAT
59336273 AAGGCCTAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
26 7 0.15
27 16 0.34
28 4 0.09
29 4 0.09
30 9 0.19
31 7 0.15
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATATAT
Found at i:59336341 original size:202 final size:198
Alignment explanation
Indices: 59336017--59336416 Score: 692
Period size: 202 Copynumber: 2.0 Consensus size: 198
59336007 GTATATATAT
59336017 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
59336082 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
66 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
59336147 AAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATG
131 AAAGTG--TATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATA-A-ATG
59336212 TGATAAG
192 TGATAAG
59336219 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
1 GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
* * *
59336284 GTCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
66 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* * *
59336349 AAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGAT
131 AAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAT
59336414 AAG
196 AAG
59336417 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
198 10 0.05
199 1 0.01
200 46 0.24
202 133 0.70
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (198 bp):
GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGTATAAATGTGAT
AAG
Found at i:59338723 original size:40 final size:40
Alignment explanation
Indices: 59338641--59338994 Score: 465
Period size: 40 Copynumber: 9.1 Consensus size: 40
59338631 AGGTCTCGAC
59338641 GATG-ATCC-GGCTAAGTCCCGAAGAGCA-TCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59338678 GATGTACCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59338718 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
59338758 GATGTA-CC-GGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
*
59338795 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* *
59338834 GATGTATCCGGACTAAGTCCCGAAGAGCATTCATGCTAAT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * *
59338874 GATGTATCTGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
* * * * * *
59338914 AATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCC-CGAAGAGCATTCATGCTAGT
* * * * *
59338954 GTTATATCC-GGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
59338993 GA
1 GA
59338995 CGTGTATTCG
Statistics
Matches: 281, Mismatches: 28, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
37 30 0.11
38 13 0.05
39 90 0.32
40 148 0.53
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
Found at i:59341331 original size:143 final size:141
Alignment explanation
Indices: 59341169--59341567 Score: 573
Period size: 143 Copynumber: 2.9 Consensus size: 141
59341159 ATATTTGAAT
*
59341169 AATGTAAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
59341234 TTATGTGATAAGGCCTAATGGTCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCGAAT
66 TTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCGAAT
59341299 GGCCAATGTGATG
131 -G-CAATGTGATG
59341312 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA-A
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
59341376 TATAT-TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
66 T-TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCGA
*
59341440 ATGCGATGTGATG
129 ATGCAATGTGATG
* * *
59341453 AATGTGAAAGTG--TATATATGTGATAAGGCCTAAT-GCCGATGTTATGAATGTGAAAGT-TATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
* * * * * * *
59341514 -TATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAAT-TGATA
66 TTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
59341568 TGTCCCGAAG
Statistics
Matches: 238, Mismatches: 14, Indels: 17
0.88 0.05 0.06
Matches are distributed among these distances:
134 1 0.00
135 4 0.02
136 38 0.16
137 5 0.02
138 22 0.09
139 21 0.09
141 21 0.09
142 53 0.22
143 73 0.31
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (141 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
TTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCGAAT
GCAATGTGATG
Found at i:59341397 original size:47 final size:47
Alignment explanation
Indices: 59341169--59341567 Score: 544
Period size: 45 Copynumber: 8.5 Consensus size: 47
59341159 ATATTTGAAT
*
59341169 AATGTAAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59341218 AATGTGAAAGTGTATATTATGTGATAAGGCCTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATA-TATGTGATAAGGCCGAATGGCCAATGTGATG
59341266 AATGTGAAAGTGTATATATGTGAT-AGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
59341312 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59341361 AATGTGAAAGTGTAATATAT-TGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGT-ATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59341408 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-G-CGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59341453 AATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTTATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59341499 AATGTGAAAGT-TATATATGTGA-CAGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59341544 GATGTGAAAGTGTATAAAT-TGATA
1 AATGTGAAAGTGTATATATGTGATA
59341568 TGTCCCGAAG
Statistics
Matches: 321, Mismatches: 19, Indels: 23
0.88 0.05 0.06
Matches are distributed among these distances:
44 7 0.02
45 78 0.24
46 64 0.20
47 65 0.20
48 62 0.19
49 45 0.14
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:59349540 original size:30 final size:30
Alignment explanation
Indices: 59349506--59349566 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
59349496 TCCTTAACTC
59349506 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
59349536 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
59349566 A
1 A
59349567 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:59354029 original size:43 final size:43
Alignment explanation
Indices: 59353982--59354087 Score: 115
Period size: 43 Copynumber: 2.5 Consensus size: 43
59353972 TCCCAGATAT
*
59353982 GGTCTTACATGTTATCACAT-ATCGATGCCACTGTCCCAAACAA
1 GGTCTTACATGTAATCACATAAT-GATGCCACTGTCCCAAACAA
* * * * * ** *
59354025 GGTCTTACACGAAATCATATAATGATGCTAGTGTCCCATGCAT
1 GGTCTTACATGTAATCACATAATGATGCCACTGTCCCAAACAA
59354068 GGTCTTACATGTAATCACAT
1 GGTCTTACATGTAATCACAT
59354088 CTCGGTAATC
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
43 48 0.96
44 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (43 bp):
GGTCTTACATGTAATCACATAATGATGCCACTGTCCCAAACAA
Found at i:59357939 original size:43 final size:43
Alignment explanation
Indices: 59357853--59357939 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
59357843 AGGTACGAGA
* *
59357853 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
**
59357896 TGTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
59357939 T
1 T
59357940 ATAATTTCGT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.36
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATCGTAT
Found at i:59357952 original size:43 final size:43
Alignment explanation
Indices: 59357863--59357955 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
59357853 TGTGATTACA
* * * *
59357863 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGTGATTATG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATAATTATG
59357906 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATAATT-TCG
1 TGTAAGACCATGTCTAGGACATTGGCATCGTATTATAATTAT-G
59357949 TGTAAGA
1 TGTAAGA
59357956 TCCTGTTTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.02
43 44 0.98
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACATTGGCATCGTATTATAATTATG
Found at i:59361974 original size:43 final size:43
Alignment explanation
Indices: 59361885--59362031 Score: 161
Period size: 43 Copynumber: 3.4 Consensus size: 43
59361875 ATCGAGATGC
* * ** *
59361885 GATTACATCTAAGACCATTTCTGGGACATTGGCATTATTTTGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGT
* *
59361928 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATTAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGT
* * * * *
59361971 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGT
*
59362014 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
59362032 ATCTAGGATA
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 2 0.02
43 85 0.98
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGT
Found at i:59367115 original size:40 final size:40
Alignment explanation
Indices: 59367034--59367211 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
59367024 CAACCAAGTA
* * * *
59367034 CCTTCGGGATTTAG-CCAGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
59367073 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
59367113 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
59367153 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
59367193 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
59367212 TTATCATCCG
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 15 0.12
40 113 0.88
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:59371975 original size:26 final size:26
Alignment explanation
Indices: 59371933--59371988 Score: 94
Period size: 26 Copynumber: 2.2 Consensus size: 26
59371923 AATTTTTATA
59371933 TTTTCCCAGATCAATTTTAATGTATG
1 TTTTCCCAGATCAATTTTAATGTATG
* *
59371959 TTTTCCCATATCGATTTTAATGTATG
1 TTTTCCCAGATCAATTTTAATGTATG
59371985 TTTT
1 TTTT
59371989 GGACCTTGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (26 bp):
TTTTCCCAGATCAATTTTAATGTATG
Found at i:59374488 original size:46 final size:46
Alignment explanation
Indices: 59374318--59374493 Score: 176
Period size: 46 Copynumber: 3.8 Consensus size: 46
59374308 TGAAACCCGC
* * *
59374318 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGG-GCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAG-ATTCGCAT
** * *
59374364 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA-GATTCGCAT
* *** * *
59374410 ACATCTCTCGAAGTCGGACTCAACTCAACGAGTTCGGAGATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
* *
59374457 CCATAAGTGAACTCGGACTCAACTCAGCGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
59374494 TGCCCAAATA
Statistics
Matches: 104, Mismatches: 22, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 69 0.66
47 34 0.33
48 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAGATTCGCAT
Found at i:59379914 original size:46 final size:44
Alignment explanation
Indices: 59379745--59379914 Score: 153
Period size: 46 Copynumber: 3.7 Consensus size: 44
59379735 TGTAACCCGC
* *
59379745 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC--GCATTCGCAT
* *
59379791 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGCATTCGC-A--T
* *** * ** *
59379837 ACATCTCTCGAAGTTAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTC-G-CATTCGCAT
59379884 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
59379915 TTCGGATGCC
Statistics
Matches: 96, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 58 0.60
47 27 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGCATTCGCAT
Found at i:59392653 original size:47 final size:45
Alignment explanation
Indices: 59392584--59392707 Score: 153
Period size: 47 Copynumber: 2.7 Consensus size: 45
59392574 TTATTTATGT
*
59392584 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCCACATT-G-TGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGG---CATTAGACGAGA
* *
59392630 GCTAGTGTAAAACCATGTTTGGGACATGCCATTGGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATG-CATTGGCATT-AGACGAGA
59392678 GCTAGTGTAAGACATGTCTGGGACATGCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCAT
59392708 CAGCCTCAAG
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
45 4 0.06
46 14 0.21
47 29 0.43
48 21 0.31
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATTAGACGAGA
Found at i:59392800 original size:46 final size:47
Alignment explanation
Indices: 59392676--59392848 Score: 144
Period size: 46 Copynumber: 3.8 Consensus size: 47
59392666 ATTGAGACGA
* * *
59392676 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCT-CA-AGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC-GACTACATAGAT
* * * * *
59392720 GCAAGCTAGTGTAAGA-AATGTTTGGGATAT-GCATCGACTACA-AGAT
1 G--AGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTACATAGAT
* * ** *
59392766 GTGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTACATAGAT
*
59392813 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCG
59392849 GTTTATATTC
Statistics
Matches: 106, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
44 11 0.10
45 13 0.12
46 46 0.43
47 36 0.34
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTACATAGAT
Found at i:59394044 original size:21 final size:20
Alignment explanation
Indices: 59394020--59394059 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
59394010 GTTATAATGA
*
59394020 CCACACGGGTGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
59394041 CCACACGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
59394060 GTTTCAAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:59401581 original size:21 final size:21
Alignment explanation
Indices: 59401555--59401595 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59401545 ATCTGCTCAA
* *
59401555 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
59401576 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
59401596 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:59407138 original size:5 final size:5
Alignment explanation
Indices: 59407122--59407157 Score: 63
Period size: 5 Copynumber: 7.0 Consensus size: 5
59407112 TCTTTCTTAC
59407122 ATTTT CATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
59407158 GAGTCTTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:59409372 original size:36 final size:36
Alignment explanation
Indices: 59409331--59409403 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
59409321 AGAAACTGAA
59409331 ACACAAATCATCGCCATAGAGCGCGCTAATCTGTCT
1 ACACAAATCATCGCCATAGAGCGCGCTAATCTGTCT
59409367 ACACAAATCATCGCCATAGAGCGCGCTAATCTGTCT
1 ACACAAATCATCGCCATAGAGCGCGCTAATCTGTCT
59409403 A
1 A
59409404 TCTCCTTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (36 bp):
ACACAAATCATCGCCATAGAGCGCGCTAATCTGTCT
Found at i:59413760 original size:58 final size:57
Alignment explanation
Indices: 59413679--59413827 Score: 140
Period size: 57 Copynumber: 2.6 Consensus size: 57
59413669 CTCATTATAG
* * *
59413679 AAAGGATTTAGCCCGGACGGGTAATCCTGATATAATCCCTCTCGAGCATATGTTACA-
1 AAAGAATTTAGCCTGGACTGGTAATCCTGATATAATCCCTCT-GAGCATATGTTACAC
* * ** * * * *
59413736 ATTAGAATTTAGCTTGGACTGGTAATTTTAAT-TGAGTTCTTCTGAGCATATGTTACAC
1 A-AAGAATTTAGCCTGGACTGGTAATCCTGATAT-AATCCCTCTGAGCATATGTTACAC
* *
59413794 AAAGGATTTAGCCTGGACTGGTAATCCTGTTATA
1 AAAGAATTTAGCCTGGACTGGTAATCCTGATATA
59413828 CGATATGTAG
Statistics
Matches: 70, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
57 40 0.57
58 30 0.43
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (57 bp):
AAAGAATTTAGCCTGGACTGGTAATCCTGATATAATCCCTCTGAGCATATGTTACAC
Found at i:59418449 original size:51 final size:51
Alignment explanation
Indices: 59418365--59418563 Score: 319
Period size: 51 Copynumber: 3.9 Consensus size: 51
59418355 CAGATACACG
* *
59418365 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTTACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTTTATTCACAAA
* *
59418416 GTGGCCTTCACATAGTACCACAATTGTGTCCAAAGCTATTTTATTCACAAT
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
*
59418467 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
* *
59418518 GTGACCTTCACATAGTGCCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTC
59418564 CTAAGGTTCA
Statistics
Matches: 137, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
50 1 0.01
51 136 0.99
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTTTATTCACAAA
Found at i:59418624 original size:28 final size:28
Alignment explanation
Indices: 59418587--59418708 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
59418577 GGGAAATTTC
59418587 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
*
59418615 TCACTTAGCACATTGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
59418643 TCACTTAGCACATTTCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
* *
59418671 TCACTT---A-TATGCCATGG-TTTATT
1 TCACTTAGCACAATGCCATGGACTTATT
59418694 TCACTTAGCACAATG
1 TCACTTAGCACAATG
59418709 TCATATCCTA
Statistics
Matches: 83, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
23 11 0.13
24 7 0.08
25 1 0.01
26 1 0.01
27 3 0.04
28 60 0.72
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (28 bp):
TCACTTAGCACAATGCCATGGACTTATT
Found at i:59425358 original size:52 final size:52
Alignment explanation
Indices: 59425302--59425420 Score: 193
Period size: 52 Copynumber: 2.3 Consensus size: 52
59425292 GGGAAATTTC
*
59425302 TCACTTAGCACAATGCCATGGACTTATTTTACTTAGATGCCATGGACTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
* * **
59425354 TCACTTAGCACATTACCATGGACTTATTTCACTTAGATGCCATGGTTTTATT
1 TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
59425406 TCACTTAGCACAATG
1 TCACTTAGCACAATG
59425421 TCATATCCTA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (52 bp):
TCACTTAGCACAATGCCATGGACTTATTTCACTTAGATGCCATGGACTTATT
Found at i:59425381 original size:28 final size:27
Alignment explanation
Indices: 59425302--59425417 Score: 136
Period size: 24 Copynumber: 4.4 Consensus size: 27
59425292 GGGAAATTTC
59425302 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGCAC-ATGCCATGGACTTATT
*
59425330 TTACTTAG---ATGCCATGGACTTATT
1 TCACTTAGCACATGCCATGGACTTATT
*
59425354 TCACTTAGCACATTACCATGGACTTATT
1 TCACTTAGCACA-TGCCATGGACTTATT
**
59425382 TCACTTAG---ATGCCATGGTTTTATT
1 TCACTTAGCACATGCCATGGACTTATT
59425406 TCACTTAGCACA
1 TCACTTAGCACA
59425418 ATGTCATATC
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
24 43 0.57
25 1 0.01
27 2 0.03
28 29 0.39
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (27 bp):
TCACTTAGCACATGCCATGGACTTATT
Found at i:59427415 original size:37 final size:37
Alignment explanation
Indices: 59427364--59427450 Score: 120
Period size: 37 Copynumber: 2.3 Consensus size: 37
59427354 TAATGAATGC
* *
59427364 ATGATTAAGCATGCCATTGAGATTGTTAAAACGAAAGG
1 ATGA-TAAGCATGCCATTGAAATTGTTAAAACAAAAGG
* *
59427402 ATGATAAGCATGCCATTGAAATTGTTAAACCAAAAGT
1 ATGATAAGCATGCCATTGAAATTGTTAAAACAAAAGG
*
59427439 ATGAAAAGCATG
1 ATGATAAGCATG
59427451 TCGTTGATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 40 0.91
38 4 0.09
ACGTcount: A:0.43, C:0.11, G:0.21, T:0.25
Consensus pattern (37 bp):
ATGATAAGCATGCCATTGAAATTGTTAAAACAAAAGG
Found at i:59429527 original size:85 final size:85
Alignment explanation
Indices: 59429384--59429561 Score: 338
Period size: 85 Copynumber: 2.1 Consensus size: 85
59429374 GGCCGGCCAT
59429384 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59429449 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
59429469 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
*
59429534 GTAAGGATTAATAGAATAAA
66 GTAAGGATTAATAAAATAAA
*
59429554 GGGCATGG
1 GAGCATGG
59429562 ACAATAAAAT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 91 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:59430865 original size:47 final size:47
Alignment explanation
Indices: 59430811--59431356 Score: 800
Period size: 47 Copynumber: 11.6 Consensus size: 47
59430801 TATTTGAATA
*
59430811 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59430858 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59430907 AATGTGAAAGTGTATATA-GTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* **
59430953 AATGTGAAAGTGTAATATATGTGATAAGGCCTAATGGCTGATGTGATG
1 AATGTGAAAGTGT-ATATATGTGATAAGGCCGAATGGCCAATGTGATG
59431001 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
59431048 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59431097 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
59431144 AATGTGAACA-TGTATATA--TGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59431189 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
59431236 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
59431283 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
59431330 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
59431357 TTCCGAAGGG
Statistics
Matches: 467, Mismatches: 22, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
45 43 0.09
46 41 0.09
47 252 0.54
48 39 0.08
49 91 0.19
50 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:59431234 original size:22 final size:22
Alignment explanation
Indices: 59431207--59431328 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
59431197 CATGTGTATG
59431207 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
59431229 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
59431254 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
59431276 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
59431301 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
59431323 TGTGAT
1 TGTGAT
59431329 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:59440058 original size:17 final size:16
Alignment explanation
Indices: 59440033--59440068 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
59440023 ATGGTATATT
59440033 TTGACCATGAATATGAA
1 TTGACCATGAAT-TGAA
*
59440050 TTGAGCATGAATTGAA
1 TTGACCATGAATTGAA
59440066 TTG
1 TTG
59440069 GTAGTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.36, C:0.08, G:0.22, T:0.33
Consensus pattern (16 bp):
TTGACCATGAATTGAA
Found at i:59440577 original size:21 final size:21
Alignment explanation
Indices: 59440553--59440597 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
59440543 TGTGACCCTG
* * *
59440553 TTTCATGAAATTTTTTTAAGT
1 TTTCATAAAATTTTCTAAAGT
*
59440574 TTTCCTAAAATTTTCTAAAGT
1 TTTCATAAAATTTTCTAAAGT
59440595 TTT
1 TTT
59440598 TGGTTTAGTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTCATAAAATTTTCTAAAGT
Found at i:59441293 original size:67 final size:65
Alignment explanation
Indices: 59441182--59441397 Score: 230
Period size: 67 Copynumber: 3.3 Consensus size: 65
59441172 CTTGTATATA
* *
59441182 GTCTTACACCTCATACCCCATGTGTT-ATGTCCTGGTGGAGTCTATTGGTTACCATAGTAGAGCT
1 GTCTTACACCTCATACCCCATGT-TTAATGT-CTGGTGGACTCTATTGGTTGCCATAGTA-AGCT
59441246 ATG
63 ATG
* * **
59441249 G-CTTTACACCTTATACCCCATGTTTAATATCTTGGTGGACTCTATTTTTTGCCATA-T----TA
1 GTC-TTACACCTCATACCCCATGTTTAATGTC-TGGTGGACTCTATTGGTTGCCATAGTAAGCTA
59441308 TG
64 TG
* * *
59441310 GTCTTAAACCTCATACCCCATGTTTAATGTACAGGTGGACTCTATTGGTTGCCATAGCCAAGCTA
1 GTCTTACACCTCATACCCCATGTTTAATGT-CTGGTGGACTCTATTGGTTGCCATAG-TAAGCTA
*
59441375 TA
64 TG
59441377 GTCTTACACCTCATACCCCAT
1 GTCTTACACCTCATACCCCAT
59441398 TACAGGCCAT
Statistics
Matches: 123, Mismatches: 15, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
61 50 0.41
62 2 0.02
66 5 0.04
67 66 0.54
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.36
Consensus pattern (65 bp):
GTCTTACACCTCATACCCCATGTTTAATGTCTGGTGGACTCTATTGGTTGCCATAGTAAGCTATG
Found at i:59450986 original size:13 final size:13
Alignment explanation
Indices: 59450968--59450993 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
59450958 AGAGGACGAC
59450968 GCACACGGGCGTG
1 GCACACGGGCGTG
59450981 GCACACGGGCGTG
1 GCACACGGGCGTG
59450994 TCCCTGCCGA
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:0.15, C:0.31, G:0.46, T:0.08
Consensus pattern (13 bp):
GCACACGGGCGTG
Found at i:59455884 original size:7 final size:6
Alignment explanation
Indices: 59455853--59455882 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
59455843 TTCAAACTAC
59455853 TTTTTA TTTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA -TTTTTA TTTTTA TTTTTA TTTTT
59455883 TAGCATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (6 bp):
TTTTTA
Found at i:59464316 original size:40 final size:40
Alignment explanation
Indices: 59464077--59464302 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
59464067 TTGAATGATG
* * * * *
59464077 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
59464117 TCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
59464157 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
59464197 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
59464237 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
59464278 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
59464303 AACGAGGAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 161 0.94
41 9 0.05
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:59464320 original size:120 final size:120
Alignment explanation
Indices: 59464077--59464335 Score: 303
Period size: 120 Copynumber: 2.2 Consensus size: 120
59464067 TTGAATGATG
* *
59464077 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
59464142 GTCCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTCCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
59464197 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
59464260 TTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTCCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
59464317 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
59464336 TACGTGATTT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
119 16 0.13
120 94 0.79
121 9 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTCCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:59471878 original size:46 final size:45
Alignment explanation
Indices: 59471811--59471980 Score: 130
Period size: 46 Copynumber: 3.7 Consensus size: 45
59471801 TGTAACCCGC
* *
59471811 CCATAAGTGAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGC-TTAGCAT
* * ** * *
59471857 CCATAAGTGAACTCGGACTCAACACAATGAGCGCGGATGCCTAGTTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGG--GCTTAG-CAT
*** * *
59471905 --ATCTCTCGAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTT-GGGC-TTAGCAT
*
59471950 CCATAAGTGAAATCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
59471981 TTCGGATGCT
Statistics
Matches: 93, Mismatches: 23, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
45 3 0.03
46 58 0.62
47 28 0.30
48 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCTTAGCAT
Found at i:59471987 original size:93 final size:93
Alignment explanation
Indices: 59471819--59471989 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
59471809 GCCCATAAGT
* * *
59471819 GAACTCAGACTCAACTCAACGAGCTTGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACACAA
1 GAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAAATCGGACTCAACACAA
*
59471884 TGAGCGCGGATGCCTAGTTATATCTCTC
66 CGAGCGCGGATGCCTAGTTATATCTCTC
* * *
59471912 GAACTCGGACTCAACTCAACGAG-TTCGGACATTTGCATCCATAAGTGAAATCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTT-GGACATTCGCATCCATAAGTGAAATCGGACTCAACACA
**
59471976 ACGAGTTCGGATGC
65 ACGAGCGCGGATGC
59471990 TCAACCATCC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTTGGACATTCGCATCCATAAGTGAAATCGGACTCAACACAA
CGAGCGCGGATGCCTAGTTATATCTCTC
Found at i:59477515 original size:19 final size:18
Alignment explanation
Indices: 59477493--59477529 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
59477483 TGAATAGGCC
59477493 AAATGGGCCAGAATGGGCT
1 AAATGGGCCAGAA-GGGCT
*
59477512 AAATGGGCCCGAAGGGCT
1 AAATGGGCCAGAAGGGCT
59477530 GTTGGGCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.30, C:0.19, G:0.38, T:0.14
Consensus pattern (18 bp):
AAATGGGCCAGAAGGGCT
Found at i:59477679 original size:29 final size:29
Alignment explanation
Indices: 59477598--59477744 Score: 142
Period size: 29 Copynumber: 5.2 Consensus size: 29
59477588 GTGAGCATGA
* **
59477598 ATAT-AATGTGATTTGGGCAGGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
59477626 ATAT-AA-ATGATATTGGGCCTAATGGGCC
1 ATATGAATGTGA-ATTGGGCCTGATGGGCC
*
59477654 ATATGAATGTGAATTGGGCCTGATGGGTC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* *
59477683 ATATGAACGTGAATTGGGCCCGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * *
59477712 ATATAAATGAG-ATTGGGCCT-AGTAGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
59477740 ATATG
1 ATATG
59477745 CAAGTATGTA
Statistics
Matches: 98, Mismatches: 17, Indels: 8
0.80 0.14 0.07
Matches are distributed among these distances:
27 4 0.04
28 40 0.41
29 51 0.52
30 3 0.03
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:59479881 original size:40 final size:40
Alignment explanation
Indices: 59479807--59479988 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
59479797 AACCCAAGTA
* *
59479807 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATA
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
59479846 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
59479886 CCTTCGGGAT-TTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATG
*
59479926 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
59479966 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
59479989 CATTCGAATA
Statistics
Matches: 135, Mismatches: 3, Indels: 9
0.92 0.02 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 120 0.89
41 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:59479939 original size:80 final size:80
Alignment explanation
Indices: 59479807--59479988 Score: 305
Period size: 80 Copynumber: 2.3 Consensus size: 80
59479797 AACCCAAGTA
* *
59479807 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATACCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCGGATATAG
59479871 TCACTAGCACAAATG
66 TCACTAGCACAAATG
*
59479886 CCTTCGGGATTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGATTTAGCCCGGATATAG-CAACTAGCACAAATACCTTCGGGACTTAGCCCGGATATA
59479950 GTCACTAGCACAAATG
65 GTCACTAGCACAAATG
*
59479966 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGATTTAGCCCGGATAT
59479989 CATTCGAATA
Statistics
Matches: 97, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
79 14 0.14
80 82 0.85
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (80 bp):
CCTTCGGGATTTAGCCCGGATATAGCAACTAGCACAAATACCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAAATG
Found at i:59481526 original size:130 final size:130
Alignment explanation
Indices: 59481293--59481558 Score: 516
Period size: 130 Copynumber: 2.1 Consensus size: 130
59481283 TGAGACAACT
59481293 TTGTTTTCATCACCCCTCCCTTTTCATTACTTTATTACTAACCTTTTATTTTATTATTTCTAACA
1 TTGTTTTCATCACCCCTCCCTTTTCATTACTTTATTACTAACCTTTTATTTTATTATTTCTAACA
59481358 TAAAACATTAACACAAAATGTTTATAATATGCTTTAACCCATAGCATGGCCGGCCACCATCTTGA
66 TAAAACATTAACACAAAATGTTTATAATATGCTTTAACCCATAGCATGGCCGGCCACCATCTTGA
59481423 TTGTTTTCATCACCCCTCCCTTTTCATTACTTTATTACTAACCTTTTATTTTATTATTTCTAACA
1 TTGTTTTCATCACCCCTCCCTTTTCATTACTTTATTACTAACCTTTTATTTTATTATTTCTAACA
*
59481488 TAAAAGATTAACACAAAATGTTTATAATATGCTTTAACCCATAGCATGGCCGGCCACCATCTTGA
66 TAAAACATTAACACAAAATGTTTATAATATGCTTTAACCCATAGCATGGCCGGCCACCATCTTGA
59481553 TT-TTTT
1 TTGTTTT
59481559 GGTTAATTTG
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
129 4 0.03
130 131 0.97
ACGTcount: A:0.29, C:0.23, G:0.07, T:0.41
Consensus pattern (130 bp):
TTGTTTTCATCACCCCTCCCTTTTCATTACTTTATTACTAACCTTTTATTTTATTATTTCTAACA
TAAAACATTAACACAAAATGTTTATAATATGCTTTAACCCATAGCATGGCCGGCCACCATCTTGA
Found at i:59488961 original size:31 final size:31
Alignment explanation
Indices: 59488921--59488994 Score: 130
Period size: 31 Copynumber: 2.4 Consensus size: 31
59488911 GTGCCCCAAG
*
59488921 CCACCCGGGCGTGTGAGTCTACACAGCCCAT
1 CCACACGGGCGTGTGAGTCTACACAGCCCAT
59488952 CCACACGGGCGTGTGAGTCTACACAGCCCAT
1 CCACACGGGCGTGTGAGTCTACACAGCCCAT
*
59488983 CCACACGAGCGT
1 CCACACGGGCGT
59488995 TGACACTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.22, C:0.38, G:0.26, T:0.15
Consensus pattern (31 bp):
CCACACGGGCGTGTGAGTCTACACAGCCCAT
Found at i:59499096 original size:16 final size:16
Alignment explanation
Indices: 59499071--59499108 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
59499061 GTAGATTGGC
59499071 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCG
*
59499087 AAAAGTCAAAATGCCG
1 AAAAGCCAAAATGCCG
59499103 AAAAGC
1 AAAAGC
59499109 TGAAAGTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.53, C:0.21, G:0.18, T:0.08
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:59499409 original size:29 final size:29
Alignment explanation
Indices: 59499325--59499447 Score: 142
Period size: 29 Copynumber: 4.3 Consensus size: 29
59499315 GTGAGCATGA
* *
59499325 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* * *
59499353 ATATAAATGAG-ATTGGGCCTAATAGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
*
59499381 ATATGAATGTGAATTGGGCCTGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
* * * *
59499410 ATATGAACGTGAATTGGGTCAGATGGGCC
1 ATATAAATGTGAATTGGGCCTGATGGGCC
59499439 ATATAAATG
1 ATATAAATG
59499448 AGATTCGGCC
Statistics
Matches: 79, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
28 26 0.33
29 53 0.67
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTGATGGGCC
Found at i:59501017 original size:14 final size:14
Alignment explanation
Indices: 59500994--59501023 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59500984 TGTATTCATG
*
59500994 ATGTTTATAAGTTT
1 ATGTTAATAAGTTT
59501008 ATGTTAATAAGTTT
1 ATGTTAATAAGTTT
59501022 AT
1 AT
59501024 TTGTATATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (14 bp):
ATGTTAATAAGTTT
Found at i:59501335 original size:232 final size:232
Alignment explanation
Indices: 59500929--59501378 Score: 810
Period size: 232 Copynumber: 1.9 Consensus size: 232
59500919 TTCGAGAACA
*
59500929 TATGAATTATAGGTAAATCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
1 TATGAATTATAGGTAAACCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
*
59500994 ATGTTTATAAGTTTATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
66 ATGTTTATAAGTATATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
*
59501059 CTATGTATATTTGCATTGTTTTATAGATATCGAAGTTACTGTGAGCTCAGGGATCATCGAGGATC
131 CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCAGGGATCATCGAGGATC
59501124 ATCACCACACTATCGAACCTTATAATTCATATGTTAG
196 ATCACCACACTATCGAACCTTATAATTCATATGTTAG
*
59501161 TATGAATTATAGGTAAACCATGTGATATATGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
1 TATGAATTATAGGTAAACCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
*
59501226 ATGTTTATAAGTATATGTTGATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
66 ATGTTTATAAGTATATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
* * * *
59501291 CTATGTATGTTTGCATTGTTTTATTGATATCGAAGCTACTGTGAGCTCGGGGATCGTCGAGGATC
131 CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCAGGGATCATCGAGGATC
*
59501356 ATCACCACACTATTGAACCTTAT
196 ATCACCACACTATCGAACCTTAT
59501379 TTTGGTGCTT
Statistics
Matches: 208, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
232 208 1.00
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.40
Consensus pattern (232 bp):
TATGAATTATAGGTAAACCATGTGATATAAGTTAGTATCTTGGTCATAAAGTACATGTATTCATG
ATGTTTATAAGTATATGTTAATAAGTTTATTTGTATATGGCTTACTAAGCTTTTGAAAGCTTACT
CTATGTATATTTGCATTGTTTTATAGATATCGAAGCTACTGTGAGCTCAGGGATCATCGAGGATC
ATCACCACACTATCGAACCTTATAATTCATATGTTAG
Done.