Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008418.1 Hibiscus syriacus cultivar Beakdansim tig00111198_pilon, whole genome shotgun sequence
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: 855397
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3608 original size:30 final size:30
Alignment explanation
Indices: 3339--3591 Score: 479
Period size: 30 Copynumber: 8.4 Consensus size: 30
3329 TCCGAAGGAC
3339 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3369 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3399 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3429 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3459 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3489 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
3519 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3549 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
3579 CTATCCATAGGTC
1 CTATCCAGAGGTC
3592 CCGAAGAACC
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 219 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:3631 original size:31 final size:31
Alignment explanation
Indices: 3577--3669 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
3567 GATCCTCGGT
* *
3577 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
3608 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
3639 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
3670 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:4014 original size:20 final size:20
Alignment explanation
Indices: 3978--4015 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3968 ATTTTAACTA
3978 TTTCACATATTTAACACATT
1 TTTCACATATTTAACACATT
3998 TTTCTACATATTT-ACACA
1 TTTC-ACATATTTAACACA
4016 ACTCATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTCACATATTTAACACATT
Found at i:4027 original size:2 final size:2
Alignment explanation
Indices: 4020--4053 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4010 TACACAACTC
4020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4054 TGTAACATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8170 original size:30 final size:30
Alignment explanation
Indices: 7901--8153 Score: 479
Period size: 30 Copynumber: 8.4 Consensus size: 30
7891 TTCGAAGGAC
7901 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
7931 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
7961 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
7991 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
8021 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
8051 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
8081 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
8111 CTATCCAGAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
8141 CTATCCATAGGTC
1 CTATCCAGAGGTC
8154 CCGAAGAACC
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 219 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:8193 original size:31 final size:31
Alignment explanation
Indices: 8139--8231 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
8129 GATCCTCGGT
* *
8139 AACTATCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* **
8170 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATATGTCCCGAAGAACATAGGTA
* * *
8201 TACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTATCCATATGTCCCGAAGA-ACATAGGTA
8232 GTTCTTTGAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
30 1 0.02
31 49 0.98
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (31 bp):
AACTATCCATATGTCCCGAAGAACATAGGTA
Found at i:8575 original size:20 final size:20
Alignment explanation
Indices: 8539--8576 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
8529 ATTTTAACTA
8539 TTTCACATATTTAACACATT
1 TTTCACATATTTAACACATT
8559 TTTCTACATATTT-ACACA
1 TTTC-ACATATTTAACACA
8577 ACTCATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTCACATATTTAACACATT
Found at i:8593 original size:2 final size:2
Alignment explanation
Indices: 8581--8609 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
8571 TACACAACTC
8581 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8610 GTAACATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13048 original size:21 final size:20
Alignment explanation
Indices: 13013--13051 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
13003 TAATGGATGG
13013 TTGTTTTTGTATGATGTTAT
1 TTGTTTTTGTATGATGTTAT
*
13033 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TGTATGATGTT
13052 TAATGCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.13, C:0.00, G:0.21, T:0.67
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:23257 original size:21 final size:20
Alignment explanation
Indices: 23219--23257 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23209 TAATGGATGG
*
23219 TTGTTTTTGTATGTTGTTAT
1 TTGTTTTTGTATGATGTTAT
*
23239 TTGTTTTGTTTATGATGTT
1 TTGTTTT-TGTATGATGTT
23258 TAATTCCTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (20 bp):
TTGTTTTTGTATGATGTTAT
Found at i:28767 original size:81 final size:81
Alignment explanation
Indices: 28658--28936 Score: 341
Period size: 81 Copynumber: 3.5 Consensus size: 81
28648 TTAGCCTTCG
* * * * * *
28658 ATCTAACTTGCATATTTGACACTTTTCTGTCAAATGCATAACTAGTTCATT-ATTCTTTTACTCA
1 ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCATAGCTAGTACATTCA-TCTTTTACTCA
28722 ACAGTGTTTAACCGTTC
65 ACAGTGTTTAACCGTTC
* * ** *
28739 ATCTAACTGACATAATTGACACCTTTCTGCCAAATACATAGCTAGGCCATTCATCTTTTACTTAA
1 ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCATAGCTAGTACATTCATCTTTTACTCAA
*
28804 CGGTGTTTAACCGTTC
66 CAGTGTTTAACCGTTC
* * * * *
28820 ATCTAACTGGCGTAATTAACATC-TTCT-ACAAATGCATAGCTAGTACATTCATCGTTTACTCAA
1 ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCATAGCTAGTACATTCATCTTTTACTCAA
28883 -AGGTGTTTAACCGTTC
66 CA-GTGTTTAACCGTTC
* *
28899 ATCTAACTGGCATAATTGACACCGTTCTACCAAATGCA
1 ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCA
28937 CAGTTAGGCC
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
79 64 0.38
80 8 0.05
81 95 0.57
82 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
ATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCATAGCTAGTACATTCATCTTTTACTCAA
CAGTGTTTAACCGTTC
Found at i:29023 original size:58 final size:58
Alignment explanation
Indices: 28939--29258 Score: 280
Period size: 68 Copynumber: 5.0 Consensus size: 58
28929 CAAATGCACA
* * * *
28939 GTTAGGCCTCATAGGCACTTATCCTTTCATCTAATTGGCATAATTGGCACCTTTCTGT
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
* *
28997 GTTAGGCCTTAAAGGCGCTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAAT
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTG-----T
*
29060 GCACAGTTAGGCCTCGAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCA
1 -----GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACC---TT-TC-
*
29125 AATGCACA
56 --TG---T
*
29133 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAAT
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTG-----T
*
29196 GCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGT
1 -----GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
29259 CAAATACACA
Statistics
Matches: 221, Mismatches: 17, Indels: 43
0.79 0.06 0.15
Matches are distributed among these distances:
58 51 0.23
61 2 0.01
63 3 0.01
64 2 0.01
65 2 0.01
68 154 0.70
71 2 0.01
72 2 0.01
73 1 0.00
75 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (58 bp):
GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGT
Found at i:29086 original size:68 final size:68
Alignment explanation
Indices: 28997--29281 Score: 498
Period size: 68 Copynumber: 4.2 Consensus size: 68
28987 ACCTTTCTGT
* * * *
28997 GTTAGGCCTTAAAGGCGCTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTCTGTTAAATGC
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGC
29062 ACA
66 ACA
* * *
29065 GTTAGGCCTCGAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGC
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGC
29130 ACA
66 ACA
29133 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGC
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGC
29198 ACA
66 ACA
*
29201 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATAC
1 GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGC
29266 ACA
66 ACA
29269 GTTAGGCCTCAAA
1 GTTAGGCCTCAAA
29282 ACTTTTATTT
Statistics
Matches: 208, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 208 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (68 bp):
GTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAAACCTTTCTGTCAAATGC
ACA
Found at i:29610 original size:55 final size:55
Alignment explanation
Indices: 29497--29643 Score: 208
Period size: 55 Copynumber: 2.7 Consensus size: 55
29487 TATACAGAAC
* * * * *
29497 TTCATACACTTAGTATGAATTTCTT-G-TTCGCACATATAGTGCCCATATGGAAA
1 TTCATACACTTAGTATGAATTTCTTAGTTTTGCACAAAAAGTGCCCATACGAAAA
29550 TTCATACACTTAGTATGAATTTCTTAGTTTTGCACAAAAAGTGCCCATACGAAAA
1 TTCATACACTTAGTATGAATTTCTTAGTTTTGCACAAAAAGTGCCCATACGAAAA
*
29605 TTCATACACTTAGTATGAATTTCATAGGTTTTTGCACAA
1 TTCATACACTTAGTATGAATTTCTTA-G-TTTTGCACAA
29644 TTATTGCCAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
53 25 0.30
54 1 0.01
55 47 0.56
56 1 0.01
57 10 0.12
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.36
Consensus pattern (55 bp):
TTCATACACTTAGTATGAATTTCTTAGTTTTGCACAAAAAGTGCCCATACGAAAA
Found at i:33605 original size:81 final size:81
Alignment explanation
Indices: 33462--33752 Score: 377
Period size: 81 Copynumber: 3.6 Consensus size: 81
33452 TTAGCCTTCT
* * * * * * * * * *
33462 ATCTAACTTGCATATTTGACTCTTTTCTGTCAAATGCATAGCTAGTCCATT-ATTCTTCTACTCA
1 ATCTAAATGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTCA-TCTTTTACTCA
*
33526 ACAGTGTTTAACCATTT
65 ACAGTGTTTAACCATTC
*
33543 ATCTAAATGGCATAATTGAAACCTTTCTGCCAAATACACAGCTAGGCCATTCATCTTTTACTCAA
1 ATCTAAATGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTCATCTTTTACTCAA
* *
33608 CCGTGTTTAATCATTC
66 CAGTGTTTAACCATTC
* * * * *
33624 ATCTAACTGGCATAATTGACACCTTTCTTCCAAATGCACAGCTAGGCCATTCATCTTTTAGTTAA
1 ATCTAAATGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTCATCTTTTACTCAA
*
33689 CGGTGTTTAACCATTC
66 CAGTGTTTAACCATTC
*
33705 ATCTAATTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCC
1 ATCTAAATGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCC
33753 TCAAAGGCAC
Statistics
Matches: 184, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
81 183 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (81 bp):
ATCTAAATGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCATTCATCTTTTACTCAA
CAGTGTTTAACCATTC
Found at i:33910 original size:68 final size:68
Alignment explanation
Indices: 33702--34095 Score: 594
Period size: 68 Copynumber: 5.8 Consensus size: 68
33692 TGTTTAACCA
* * * * *
33702 TTCATCTAATTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
33767 CCT
66 CCT
* *
33770 TTCATCTAACTGGCATAATTGACATATTT-TATCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
33834 CCT
66 CCT
* * * *
33837 TTCATCTAACTAGCATAATTGGCACCTTTCTGTCAAATGCACAGTTAGGCCTCAGAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
33902 CCT
66 CCT
* * * *
33905 TTCATCTAACTGGCGTAATTGACACCTTTCTGTCAAATGTACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
*
33970 TCT
66 CCT
*
33973 TTCATCTAACTGGCATAATTGACACATTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
34038 CCT
66 CCT
* * *
34041 TTCATCAAACTAGCATAATTGACACATTTCTGTCAAAT-CACAGTTAAGCCTCAAA
1 TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAA
34096 ACTTTTATTC
Statistics
Matches: 295, Mismatches: 30, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
67 75 0.25
68 220 0.75
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:34085 original size:203 final size:203
Alignment explanation
Indices: 33702--34093 Score: 642
Period size: 203 Copynumber: 1.9 Consensus size: 203
33692 TGTTTAACCA
* *
33702 TTCATCTAATTGGCATAATTGACACCTTTCTGCCAAATACACAGCTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAACTAGGCCTCAAAGGCACTTAG
*
33767 CCTTTCATCTAACTGGCATAATTGACATATTTTATCAAATGCACAGTTAGGCCTCAAAGGCACTT
66 CCTTTCATCTAACTGGCATAATTGACACATTTTATCAAATGCACAGTTAGGCCTCAAAGGCACTT
* * * *
33832 AGCCTTTCATCTAACTAGCATAATTGGCACCTTTCTGTCAAATGCACAGTTAGGCCTCAGAGGCA
131 AGCCTTTCATCAAACTAGCATAATTGACACATTTCTGTCAAATGCACAGTTAAGCCTCAGAGGCA
33897 CTTAGCCT
196 CTTAGCCT
* * ** *
33905 TTCATCTAACTGGCGTAATTGACACCTTTCTGTCAAATGTACAATTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAACTAGGCCTCAAAGGCACTTAG
* *
33970 TCTTTCATCTAACTGGCATAATTGACACATTTTTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
66 CCTTTCATCTAACTGGCATAATTGACACA-TTTTATCAAATGCACAGTTAGGCCTCAAAGGCACT
34035 TAGCCTTTCATCAAACTAGCATAATTGACACATTTCTGTCAAAT-CACAGTTAAGCCTCA
130 TAGCCTTTCATCAAACTAGCATAATTGACACATTTCTGTCAAATGCACAGTTAAGCCTCA
34094 AAACTTTTAT
Statistics
Matches: 174, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
203 99 0.57
204 75 0.43
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (203 bp):
TTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATACACAACTAGGCCTCAAAGGCACTTAG
CCTTTCATCTAACTGGCATAATTGACACATTTTATCAAATGCACAGTTAGGCCTCAAAGGCACTT
AGCCTTTCATCAAACTAGCATAATTGACACATTTCTGTCAAATGCACAGTTAAGCCTCAGAGGCA
CTTAGCCT
Found at i:34369 original size:54 final size:55
Alignment explanation
Indices: 34302--34451 Score: 203
Period size: 55 Copynumber: 2.7 Consensus size: 55
34292 TATATATACT
* * * *
34302 ATACATAACTTCATACACTTAGTATGAATTTCTTAG-TTCGCACATATAGTACCC
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACAAAAAGTACCC
* * * * *
34356 ATACGGAAATTCATACACTTAGTATAAATTTCTTAGTTTTGTACAAAAAGTGCCC
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACAAAAAGTACCC
34411 ATACAGAAATTCATACACTTAGTATGAATTTCTTAGGTTTC
1 ATACAGAAATTCATACACTTAGTATGAATTTCTTA-GTTTC
34452 TACAGACTTA
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
54 32 0.39
55 46 0.56
56 4 0.05
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (55 bp):
ATACAGAAATTCATACACTTAGTATGAATTTCTTAGTTTCGCACAAAAAGTACCC
Found at i:38357 original size:7 final size:7
Alignment explanation
Indices: 38345--38369 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38335 ATAGTTTTTT
38345 ATTTGTA
1 ATTTGTA
38352 ATTTGTA
1 ATTTGTA
38359 ATTTGTA
1 ATTTGTA
38366 ATTT
1 ATTT
38370 TTTTAGAGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
ATTTGTA
Found at i:41293 original size:13 final size:13
Alignment explanation
Indices: 41275--41301 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41265 TATGTCAAAT
41275 AAAATAATATAAC
1 AAAATAATATAAC
41288 AAAATAATATAAC
1 AAAATAATATAAC
41301 A
1 A
41302 TTCTCACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAC
Found at i:42138 original size:21 final size:21
Alignment explanation
Indices: 42112--42192 Score: 146
Period size: 21 Copynumber: 3.9 Consensus size: 21
42102 GTCGTGGTCG
42112 TGGAGACTATCGCAACGAACT
1 TGGAGACTATCGCAACGAACT
*
42133 TGGAGACTATCGCAACGCACT
1 TGGAGACTATCGCAACGAACT
42154 TGGAGACTATCGCAACGAAC-
1 TGGAGACTATCGCAACGAACT
42174 TGGAGACTATCGCAACGAA
1 TGGAGACTATCGCAACGAA
42193 AATCGCAACG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
20 19 0.33
21 39 0.67
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.17
Consensus pattern (21 bp):
TGGAGACTATCGCAACGAACT
Found at i:42219 original size:33 final size:32
Alignment explanation
Indices: 42162--42225 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
42152 CTTGGAGACT
42162 ATCGCAACGAACTGGAGACTATCGCAACGAAA
1 ATCGCAACGAACTGGAGACTATCGCAACGAAA
*
42194 ATCGCAACGCTAACTTG-GACTATCGCAACGAA
1 ATCGCAACG--AACTGGAGACTATCGCAACGAA
42226 TATGTAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 9 0.31
33 15 0.52
34 5 0.17
ACGTcount: A:0.38, C:0.27, G:0.20, T:0.16
Consensus pattern (32 bp):
ATCGCAACGAACTGGAGACTATCGCAACGAAA
Found at i:44413 original size:4 final size:4
Alignment explanation
Indices: 44404--44479 Score: 71
Period size: 4 Copynumber: 19.0 Consensus size: 4
44394 ATACATGTCA
* * *
44404 ATAT ATAT ATAT ATAT ATAT ATAT AGAT ATGT ATAT ATAT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * *
44452 GTAT GTAT GTAT ATGT ATGT ATGT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT
44480 GTATGTATGT
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 62 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (4 bp):
ATAT
Found at i:44419 original size:10 final size:10
Alignment explanation
Indices: 44404--44479 Score: 71
Period size: 10 Copynumber: 7.6 Consensus size: 10
44394 ATACATGTCA
44404 ATATATATAT
1 ATATATATAT
44414 ATATATATAT
1 ATATATATAT
*
44424 ATATAGATAT
1 ATATATATAT
*
44434 GTATATATAT
1 ATATATATAT
* *
44444 ATGTATATGT
1 ATATATATAT
* *
44454 ATGTATGTAT
1 ATATATATAT
* *
44464 ATGTATGTAT
1 ATATATATAT
*
44474 GTATAT
1 ATATAT
44480 GTATGTATGT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 56 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (10 bp):
ATATATATAT
Found at i:44421 original size:14 final size:14
Alignment explanation
Indices: 44404--44479 Score: 71
Period size: 14 Copynumber: 5.4 Consensus size: 14
44394 ATACATGTCA
44404 ATATATATATATAT
1 ATATATATATATAT
*
44418 ATATATATATAGAT
1 ATATATATATATAT
*
44432 ATGTATATATATAT
1 ATATATATATATAT
* * *
44446 GTATATGTATGTAT
1 ATATATATATATAT
* * *
44460 GTATATGTATGTAT
1 ATATATATATATAT
*
44474 GTATAT
1 ATATAT
44480 GTATGTATGT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 55 1.00
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.49
Consensus pattern (14 bp):
ATATATATATATAT
Found at i:44484 original size:4 final size:4
Alignment explanation
Indices: 44431--44720 Score: 399
Period size: 4 Copynumber: 75.8 Consensus size: 4
44421 TATATATAGA
* *
44431 TATG TATA TATA TATG TA-- TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
44475 TA-- TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
44519 TGTG TGTG TATG TGTG TGTG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
44567 TA-G TATG TATG TATG TATG TATG TAGG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
44614 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
44662 TATG TATG TA-- TATG TATG TATG TATG TATG TA-- TATA TATA TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
44706 TATG TATA TATG TAT
1 TATG TATG TATG TAT
44721 CTTATACCTG
Statistics
Matches: 262, Mismatches: 11, Indels: 26
0.88 0.04 0.09
Matches are distributed among these distances:
2 12 0.05
3 3 0.01
4 247 0.94
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:46648 original size:130 final size:130
Alignment explanation
Indices: 46415--46676 Score: 524
Period size: 130 Copynumber: 2.0 Consensus size: 130
46405 TGCATGATAA
46415 AAGGAAGTACTTGAATATAGCAAAGTTAAAAAGACATAAACCCCCATCAAAAGAGGCTAAAAATC
1 AAGGAAGTACTTGAATATAGCAAAGTTAAAAAGACATAAACCCCCATCAAAAGAGGCTAAAAATC
46480 TAGTTACCCAACAAAAAAGGGAAAGCCTAGCATTTTGTTGCTCAACAAAGCTACTGTTTGATTCC
66 TAGTTACCCAACAAAAAAGGGAAAGCCTAGCATTTTGTTGCTCAACAAAGCTACTGTTTGATTCC
46545 AAGGAAGTACTTGAATATAGCAAAGTTAAAAAGACATAAACCCCCATCAAAAGAGGCTAAAAATC
1 AAGGAAGTACTTGAATATAGCAAAGTTAAAAAGACATAAACCCCCATCAAAAGAGGCTAAAAATC
46610 TAGTTACCCAACAAAAAAGGGAAAGCCTAGCATTTTGTTGCTCAACAAAGCTACTGTTTGATTCC
66 TAGTTACCCAACAAAAAAGGGAAAGCCTAGCATTTTGTTGCTCAACAAAGCTACTGTTTGATTCC
46675 AA
1 AA
46677 CACAACCTAA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 132 1.00
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (130 bp):
AAGGAAGTACTTGAATATAGCAAAGTTAAAAAGACATAAACCCCCATCAAAAGAGGCTAAAAATC
TAGTTACCCAACAAAAAAGGGAAAGCCTAGCATTTTGTTGCTCAACAAAGCTACTGTTTGATTCC
Found at i:49229 original size:7 final size:7
Alignment explanation
Indices: 49217--49244 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
49207 TTCGTTAGAG
49217 CTTTGGA
1 CTTTGGA
49224 CTTTGGA
1 CTTTGGA
49231 CTTTGGA
1 CTTTGGA
49238 CTTTGGA
1 CTTTGGA
49245 GTCCTATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.29, T:0.43
Consensus pattern (7 bp):
CTTTGGA
Found at i:50469 original size:19 final size:19
Alignment explanation
Indices: 50407--50469 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
50397 GTAAATAGAG
* *
50407 ATATCAGAAATCAGAGCAT
1 ATATCAGAGATCAGAACAT
* *
50426 AGATCAGAGATCATAAC-T
1 ATATCAGAGATCAGAACAT
*
50444 GAAATCAGAGATCAGAACAT
1 -ATATCAGAGATCAGAACAT
50464 ATATCA
1 ATATCA
50470 TAGTTCAGAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
18 1 0.03
19 33 0.94
20 1 0.03
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
ATATCAGAGATCAGAACAT
Found at i:50470 original size:31 final size:31
Alignment explanation
Indices: 50413--50471 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
50403 AGAGATATCA
*
50413 GAAATCAGAGCATAGATCAGAGATCATAACT
1 GAAATCAGAGCATAGAACAGAGATCATAACT
* *
50444 GAAATCAGAG-ATCAGAACATATATCATA
1 GAAATCAGAGCAT-AGAACAGAGATCATA
50472 GTTCAGAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 2 0.08
31 22 0.92
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
GAAATCAGAGCATAGAACAGAGATCATAACT
Found at i:54678 original size:60 final size:59
Alignment explanation
Indices: 54601--54736 Score: 141
Period size: 59 Copynumber: 2.3 Consensus size: 59
54591 CAGAACTGCA
* * **
54601 TCCATAGGGACTTACCCTAGGCCCAATGGCATAGGTGCCAACCTAAG-GGAGCACC-TTGGG
1 TCCATAAGGTCTTACCCTA-GCCCAA--GCATAGGTGCCAACCTAAGAGGAGCACCATCAGG
* * * **
54661 TCCATAAGGTCTTACCCTAGCCGAAGCGTAGGTGCCCACCTAAGAGGAGTGCCATCAGG
1 TCCATAAGGTCTTACCCTAGCCCAAGCATAGGTGCCAACCTAAGAGGAGCACCATCAGG
*
54720 TCCATCAGGTCTTACCC
1 TCCATAAGGTCTTACCC
54737 AAAATCACAT
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
57 17 0.27
58 6 0.09
59 24 0.38
60 17 0.27
ACGTcount: A:0.24, C:0.30, G:0.26, T:0.20
Consensus pattern (59 bp):
TCCATAAGGTCTTACCCTAGCCCAAGCATAGGTGCCAACCTAAGAGGAGCACCATCAGG
Found at i:56593 original size:375 final size:361
Alignment explanation
Indices: 55874--56611 Score: 1325
Period size: 375 Copynumber: 2.0 Consensus size: 361
55864 GATGCAGTTG
55874 CTTAAAATACAAACATCGAATAGGATTTATACACCGATGCATGGGTAGTGCATCGATGCACCCGT
1 CTTAAAATACAAACATCGAATAGGATTTATACACCGATGCATGGGTAGTGCATCGATGCACCCGT
55939 CAAGGGATGCATCGATACATGGTGTAGTGCATCGATGCATACCTTCAGTAAGAGATGGAAATAGC
66 CAAGGGATGCATCGATACATGGTGTAGTGCATCGATGCATACCTTCAGTAAGAGATGGAAATAGC
56004 TTTCGTTTAACCTAAGGATAGTTTGGAATATATCATTTGTATGCTGATAAGTATGCAACGTAGAT
131 TTTCGTTTAACCTAAGGATAGTTTGGAATATATCATTTGTATGCTGATAAGTATGCAACGTAGAT
56069 TTAGAGCGTAAGCTTATTCCAGAATAATCGAAGGATTAGAATCGAATCAAAGAAAGGCTAAGGTG
196 TTAGAGCGTAAGCTTATTCCAGAATAATCGAAGGATTAGAATCGAATCAAAGAAAGGCTAAGGTG
56134 AGTGCATTTTATAGTTAAAGTGTATAGAGAAAAGACTTGTGATAAGTCTATCTCTGATGGTGTAA
261 AGTGCATTTTATAGTTAAAGTGTATAGAGAAAAGACTTGTGATAAGTCTATCTCTGATGGTGTAA
56199 TTAATGATTCCATACCCATGTATATGCATACATATA
326 TTAATGATTCCATACCCATGTATATGCATACATATA
56235 CTTAAAATACAAACATCGAATAGGATTTATACACCGATGCATGGGTAGTGCATCGATGCACCCGT
1 CTTAAAATACAAACATCGAATAGGATTTATACACCGATGCATGGGTAGTGCATCGATGCACCCGT
56300 CAAGGGATGCATCGATACATGGTGTAGTGCATCGATGCATACCTTCAGTAAGAGATGGAAATAGC
66 CAAGGGATGCATCGATACATGGTGTAGTGCATCGATGCATACCTTCAGTAAGAGATGGAAATAGC
56365 TTTCGTTTAACCTAAGGATTAATAGTTTGGAATATATCAATTTGTATGCTGATAAGTATCAATGT
131 TTTCGTTTAACCTAAGG----ATAGTTTGGAATATATC-ATTTGTATGCTGATAAG--T--ATG-
*
56430 ATTACTACGTAGATTTAGAGCGTAAGCTTATTCCAGAATAATCGAAGGATTAGAATCGAATCAAA
186 ----CAACGTAGATTTAGAGCGTAAGCTTATTCCAGAATAATCGAAGGATTAGAATCGAATCAAA
56495 GAAAGGCTAAGGTGAGTGCATTTTATAGTTAAAGTGTATAGAGAAAAGACTTGTGATAAGTCTAT
247 GAAAGGCTAAGGTGAGTGCATTTTATAGTTAAAGTGTATAGAGAAAAGACTTGTGATAAGTCTAT
56560 CTCTGATGGT-TGAATTAATGATTCCATACCCATGTATATGCATACATATA
312 CTCTGATGGTGT-AATTAATGATTCCATACCCATGTATATGCATACATATA
56610 CT
1 CT
56612 ATTGTAATAG
Statistics
Matches: 361, Mismatches: 1, Indels: 16
0.96 0.00 0.04
Matches are distributed among these distances:
361 147 0.41
365 17 0.05
366 17 0.05
368 1 0.00
370 3 0.01
374 1 0.00
375 175 0.48
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (361 bp):
CTTAAAATACAAACATCGAATAGGATTTATACACCGATGCATGGGTAGTGCATCGATGCACCCGT
CAAGGGATGCATCGATACATGGTGTAGTGCATCGATGCATACCTTCAGTAAGAGATGGAAATAGC
TTTCGTTTAACCTAAGGATAGTTTGGAATATATCATTTGTATGCTGATAAGTATGCAACGTAGAT
TTAGAGCGTAAGCTTATTCCAGAATAATCGAAGGATTAGAATCGAATCAAAGAAAGGCTAAGGTG
AGTGCATTTTATAGTTAAAGTGTATAGAGAAAAGACTTGTGATAAGTCTATCTCTGATGGTGTAA
TTAATGATTCCATACCCATGTATATGCATACATATA
Found at i:58970 original size:16 final size:16
Alignment explanation
Indices: 58930--58964 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
58920 TGATCAATCA
58930 TATTCATTCATGTATG
1 TATTCATTCATGTATG
58946 TATTCATTCATGTATG
1 TATTCATTCATGTATG
58962 TAT
1 TAT
58965 CAATTCCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.26, C:0.11, G:0.11, T:0.51
Consensus pattern (16 bp):
TATTCATTCATGTATG
Found at i:62670 original size:534 final size:534
Alignment explanation
Indices: 61662--62731 Score: 2122
Period size: 534 Copynumber: 2.0 Consensus size: 534
61652 AGAACCTCTA
61662 ATGGAAAAATCGTTAGAAGTATATGGGTTCCTAAGGAGCTCATTACTACTAAAGATAAGGATATC
1 ATGGAAAAATCGTTAGAAGTATATGGGTTCCTAAGGAGCTCATTACTACTAAAGATAAGGATATC
61727 CTACACAAATGGATACCTAAGGGGACTAGGATTTTGGAAACTAATGAATATGGACCCAAAAGAAT
66 CTACACAAATGGATACCTAAGGGGACTAGGATTTTGGAAACTAATGAATATGGACCCAAAAGAAT
61792 TTGGGTACCAAAAATTAGAAATTAATCTATGTTTGTAGGAAAAGGAGCATTGCTACAAGGCACGG
131 TTGGGTACCAAAAATTAGAAATTAATCTATGTTTGTAGGAAAAGGAGCATTGCTACAAGGCACGG
*
61857 GAAATAAATTCAAACTCATGGTACCTTGATAGTGGATGCTCAAGATACATGACCGAAGACAAAAG
196 GAAACAAATTCAAACTCATGGTACCTTGATAGTGGATGCTCAAGATACATGACCGAAGACAAAAG
61922 CCGGTTCATTAAGCTTAACGCCAAAAATGGAGTAGAAGTGACTTTTGGTGATGATTCAAAAGGTC
261 CCGGTTCATTAAGCTTAACGCCAAAAATGGAGTAGAAGTGACTTTTGGTGATGATTCAAAAGGTC
61987 ACATTGAAGGTATTGGTACTATCGGTAATACCTCTTCCATACAAATTAAGAATGTTTTATATGTG
326 ACATTGAAGGTATTGGTACTATCGGTAATACCTCTTCCATACAAATTAAGAATGTTTTATATGTG
62052 AATGGATTAAAGCATAATCTATTGAGTATTAGTCAATTTTTTGATAAGGGATTCAATGTCATGTT
391 AATGGATTAAAGCATAATCTATTGAGTATTAGTCAATTTTTTGATAAGGGATTCAATGTCATGTT
62117 TGATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAA
456 TGATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAA
62182 TAGGAAACATATAC
521 TAGGAAACATATAC
62196 ATGGAAAAATCGTTAGAAGTATATGGGTTCCTAAGGAGCTCATTACTACTAAAGATAAGGATATC
1 ATGGAAAAATCGTTAGAAGTATATGGGTTCCTAAGGAGCTCATTACTACTAAAGATAAGGATATC
62261 CTACACAAATGGATACCTAAGGGGACTAGGATTTTGGAAACTAATGAATATGGACCCAAAAGAAT
66 CTACACAAATGGATACCTAAGGGGACTAGGATTTTGGAAACTAATGAATATGGACCCAAAAGAAT
62326 TTGGGTACCAAAAATTAGAAATTAATCTATGTTTGTAGGAAAAGGAGCATTGCTACAAGGCACGG
131 TTGGGTACCAAAAATTAGAAATTAATCTATGTTTGTAGGAAAAGGAGCATTGCTACAAGGCACGG
*
62391 GAAACAAATTCAAACTCATGGTACCTTGATAGTGGATGCTCAAGATACATGACCGGAGACAAAAG
196 GAAACAAATTCAAACTCATGGTACCTTGATAGTGGATGCTCAAGATACATGACCGAAGACAAAAG
62456 CCGGTTCATTAAGCTTAACGCCAAAAATGGAGTAGAAGTGACTTTTGGTGATGATTCAAAAGGTC
261 CCGGTTCATTAAGCTTAACGCCAAAAATGGAGTAGAAGTGACTTTTGGTGATGATTCAAAAGGTC
62521 ACATTGAAGGTATTGGTACTATCGGTAATACCTCTTCCATACAAATTAAGAATGTTTTATATGTG
326 ACATTGAAGGTATTGGTACTATCGGTAATACCTCTTCCATACAAATTAAGAATGTTTTATATGTG
62586 AATGGATTAAAGCATAATCTATTGAGTATTAGTCAATTTTTTGATAAGGGATTCAATGTCATGTT
391 AATGGATTAAAGCATAATCTATTGAGTATTAGTCAATTTTTTGATAAGGGATTCAATGTCATGTT
62651 TGATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAA
456 TGATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAA
62716 TAGGAAACATATAC
521 TAGGAAACATATAC
62730 AT
1 AT
62732 AGTGCATTTA
Statistics
Matches: 534, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
534 534 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (534 bp):
ATGGAAAAATCGTTAGAAGTATATGGGTTCCTAAGGAGCTCATTACTACTAAAGATAAGGATATC
CTACACAAATGGATACCTAAGGGGACTAGGATTTTGGAAACTAATGAATATGGACCCAAAAGAAT
TTGGGTACCAAAAATTAGAAATTAATCTATGTTTGTAGGAAAAGGAGCATTGCTACAAGGCACGG
GAAACAAATTCAAACTCATGGTACCTTGATAGTGGATGCTCAAGATACATGACCGAAGACAAAAG
CCGGTTCATTAAGCTTAACGCCAAAAATGGAGTAGAAGTGACTTTTGGTGATGATTCAAAAGGTC
ACATTGAAGGTATTGGTACTATCGGTAATACCTCTTCCATACAAATTAAGAATGTTTTATATGTG
AATGGATTAAAGCATAATCTATTGAGTATTAGTCAATTTTTTGATAAGGGATTCAATGTCATGTT
TGATATTAATGGTTGTAAAGTCATTGACATTGCATCTAATCGGATTATGCTTGTTGGTCATAGAA
TAGGAAACATATAC
Found at i:65746 original size:20 final size:20
Alignment explanation
Indices: 65721--65758 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
65711 TTTTGGTGCA
*
65721 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
65741 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
65759 TTTGAAGGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:65833 original size:18 final size:18
Alignment explanation
Indices: 65809--65851 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
65799 TATATTATGT
*
65809 TATTATTATAATTA-TTA
1 TATTATTATAATAATTTA
65826 TCATTATTATAATAATTTA
1 T-ATTATTATAATAATTTA
65845 TATTATT
1 TATTATT
65852 TTGCTGCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 18 0.78
19 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTATTATAATAATTTA
Found at i:65852 original size:9 final size:9
Alignment explanation
Indices: 65810--65851 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
65800 ATATTATGTT
65810 ATTATTATA
1 ATTATTATA
*
65819 ATTATTATC
1 ATTATTATA
65828 ATTATTATA
1 ATTATTATA
*
65837 ATAATT-TA
1 ATTATTATA
65845 TATTATT
1 -ATTATT
65852 TTGCTGCCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
8 2 0.07
9 26 0.93
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTATTATA
Found at i:71869 original size:106 final size:106
Alignment explanation
Indices: 71740--73009 Score: 1917
Period size: 106 Copynumber: 12.0 Consensus size: 106
71730 ATATCGTGTC
*
71740 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
71805 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
71846 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
71911 AATTTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
71952 ACTCCAGACAACGCAAGTTCAACTTTACGACTAAGGGACCGCTGGTTGTCAATAAACAATTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
72017 AATTTTAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
72058 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTAGTTGTCAATAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
72123 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
72164 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTAGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* *
72229 AATTTCAGAGCCAATTTCAACTTCACATCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
72270 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
72335 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
72376 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
72441 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
72482 ACTCCAGACAACGCAAGTTCAACTTTACGACTAAGGGACCGCTGGTTGTCAATAAACAATTTCAC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
*
72547 AATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
72588 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
72653 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
72694 ACACCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
72759 AATTTCAGAGCTAATTTCAACTTCTCAGCGAAGGATCTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * * *
72800 AC-CCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAA-CAA-AA-TT-T
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCC
**
72860 C-A-TTCAGATTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *** * *
72900 ATTCGAGACAACACAAGTTCAACTTCACAACGAAAGGATAACTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
* * *
72965 AGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
73006 ACTC
1 ACTC
73010 AAACAATGCT
Statistics
Matches: 1065, Mismatches: 90, Indels: 18
0.91 0.08 0.02
Matches are distributed among these distances:
100 73 0.07
101 4 0.00
102 4 0.00
103 4 0.00
104 3 0.00
105 5 0.00
106 972 0.91
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:73514 original size:3 final size:3
Alignment explanation
Indices: 73461--73496 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
73451 ATATATTATG
*
73461 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
73497 ATAATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:76493 original size:21 final size:21
Alignment explanation
Indices: 76467--76508 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76457 ACCGTCAACC
* *
76467 AAATCCACCTCCTATTCCTAA
1 AAATCCAACTCCTAATCCTAA
*
76488 AAATCCAATTCCTAATCCTAA
1 AAATCCAACTCCTAATCCTAA
76509 TCCTATTGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.33, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATCCAACTCCTAATCCTAA
Found at i:79420 original size:23 final size:23
Alignment explanation
Indices: 79393--79489 Score: 158
Period size: 23 Copynumber: 4.2 Consensus size: 23
79383 AAAGTCAACA
79393 GTCAACGGGTTGACTCGGTCAAG
1 GTCAACGGGTTGACTCGGTCAAG
*
79416 GTCAACGGGTTGACTCTGTCAAG
1 GTCAACGGGTTGACTCGGTCAAG
**
79439 GTCAACAAGTTGACTCGGTCAAG
1 GTCAACGGGTTGACTCGGTCAAG
*
79462 GTCAACGGGTTGACTCGGTCAAA
1 GTCAACGGGTTGACTCGGTCAAG
79485 GTCAA
1 GTCAA
79490 TGGTCAGACC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.23
Consensus pattern (23 bp):
GTCAACGGGTTGACTCGGTCAAG
Found at i:82322 original size:2 final size:2
Alignment explanation
Indices: 82315--82342 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
82305 GTATGCTTTA
82315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
82343 GTCTACTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85211 original size:12 final size:12
Alignment explanation
Indices: 85194--85219 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
85184 TGTCAGACTC
85194 TGTCTTCAAAAT
1 TGTCTTCAAAAT
85206 TGTCTTCAAAAT
1 TGTCTTCAAAAT
85218 TG
1 TG
85220 ACGGGTAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (12 bp):
TGTCTTCAAAAT
Found at i:87904 original size:23 final size:24
Alignment explanation
Indices: 87869--87931 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 24
87859 TAAATTATTT
* *
87869 TAAA-ATATCAAAATAGGA-TATC
1 TAAATATATTAAAATAGCATTATC
* * *
87891 TAATTATATTAAAACTATCATTCTC
1 TAAATATATTAAAA-TAGCATTATC
87916 TAAATATATTAAAATA
1 TAAATATATTAAAATA
87932 ATAAAATACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
22 3 0.09
23 8 0.25
24 5 0.16
25 16 0.50
ACGTcount: A:0.51, C:0.10, G:0.03, T:0.37
Consensus pattern (24 bp):
TAAATATATTAAAATAGCATTATC
Found at i:88345 original size:17 final size:17
Alignment explanation
Indices: 88323--88355 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
88313 CTTCAGCACT
88323 GCTGCATGGCGTGGAAA
1 GCTGCATGGCGTGGAAA
*
88340 GCTGCATGGTGTGGAA
1 GCTGCATGGCGTGGAA
88356 TCTCTGCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.21
Consensus pattern (17 bp):
GCTGCATGGCGTGGAAA
Found at i:89144 original size:23 final size:25
Alignment explanation
Indices: 89098--89155 Score: 93
Period size: 23 Copynumber: 2.4 Consensus size: 25
89088 ATTTGTAGTA
89098 GAAAAATAATATTTATTATAATGAC
1 GAAAAATAATATTTATTATAATGAC
89123 GAAAAATAATA-TTA-TATAATGAC
1 GAAAAATAATATTTATTATAATGAC
*
89146 AAAAAATAAT
1 GAAAAATAAT
89156 GACACCAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 18 0.56
24 3 0.09
25 11 0.34
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (25 bp):
GAAAAATAATATTTATTATAATGAC
Found at i:89208 original size:38 final size:38
Alignment explanation
Indices: 89166--89241 Score: 134
Period size: 38 Copynumber: 2.0 Consensus size: 38
89156 GACACCAGTA
* *
89166 ATTAATTATCCATTAATAATCCGAGTAGGTTGGTGGTT
1 ATTAATTATCCATTAATAACCCGAGTAGGTTAGTGGTT
89204 ATTAATTATCCATTAATAACCCGAGTAGGTTAGTGGTT
1 ATTAATTATCCATTAATAACCCGAGTAGGTTAGTGGTT
89242 GGTAGTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (38 bp):
ATTAATTATCCATTAATAACCCGAGTAGGTTAGTGGTT
Found at i:89502 original size:45 final size:45
Alignment explanation
Indices: 89420--89506 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
89410 ATAGGTTGGT
*** *
89420 GGTTAATAATTATCCATTAATAACTTGGGTAGGTTGGTGGTTAGA
1 GGTTAATAATTATCCATTAATAACCCAGATAGGTTGGTGGTTAGA
* * *
89465 GGTTATTAATTATCCATTAATATCCCAGATAGTTTGGTGGTT
1 GGTTAATAATTATCCATTAATAACCCAGATAGGTTGGTGGTT
89507 GTCGGTTGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (45 bp):
GGTTAATAATTATCCATTAATAACCCAGATAGGTTGGTGGTTAGA
Found at i:90502 original size:45 final size:45
Alignment explanation
Indices: 90365--90505 Score: 142
Period size: 45 Copynumber: 3.1 Consensus size: 45
90355 AGAGCAGCCA
* * *
90365 TTCATACTTATAATGCA-CCATTATGCATTTTCATTTATGGCATTCT
1 TTCATACTAATAATGCACCCA-TATGCATTTT-ATTTATGGAATCCT
* * * * * *
90411 TTCA-AGCTAATAATGCACTCATATGCATTTCAATTATTGTACCCT
1 TTCATA-CTAATAATGCACCCATATGCATTTTATTTATGGAATCCT
**
90456 TTCATACCGATAATGCACCCATATGCATTTTATTTATGGAATCCT
1 TTCATACTAATAATGCACCCATATGCATTTTATTTATGGAATCCT
90501 TTCAT
1 TTCAT
90506 GACCTTTTAT
Statistics
Matches: 76, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
45 50 0.66
46 24 0.32
47 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.41
Consensus pattern (45 bp):
TTCATACTAATAATGCACCCATATGCATTTTATTTATGGAATCCT
Found at i:90698 original size:64 final size:64
Alignment explanation
Indices: 90597--90719 Score: 201
Period size: 64 Copynumber: 1.9 Consensus size: 64
90587 TAGTCTTTTA
* * *
90597 CTCAAAGGCATTTAGTCTTTCATCTAACTATCATAATTGACATCTTTCTGTCAAATGCATAGGC
1 CTCAAAGGCACTTAGTCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCATAGGC
* *
90661 CTCAAAGGCACTTAGTCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGCA
1 CTCAAAGGCACTTAGTCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCA
90720 CAGCTAGGCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (64 bp):
CTCAAAGGCACTTAGTCTTTCATCTAACTAGCATAATTGACACCTTTCTGTCAAATGCATAGGC
Found at i:91184 original size:55 final size:54
Alignment explanation
Indices: 91010--91348 Score: 357
Period size: 55 Copynumber: 6.3 Consensus size: 54
91000 GTAATGCCTA
* * *
91010 TACGG-TAGTTCATCAACTCATGATGAATTCCGTGGTTTACACACATCGTGCTTG
1 TACGGTTA-TTCATCAACTCATGATGAATTCCGTGGTTTGCACACATAGTGCATG
* * * * * * * *
91064 TACGATTATTCATCAACTTATGATGCATTCTGTGGGTTGCAAACATCA-TTCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTGCACACAT-AGTGCATG
* *
91118 TACAGTTATTCATCAACTCATGATGAATTCCGTGTATTTGCACACATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTG-GTTTGCACACATAGTGCATG
* * *
91173 TACGGTTATTCATCAACTCATGATGAATTACATGGATTTGCACACATAGTGCCTG
1 TACGGTTATTCATCAACTCATGATGAATTCCGTGG-TTTGCACACATAGTGCATG
* ** *
91228 TATGGTTATTCATCAACTCATGATGAATTATGTGGGTTTTCACACATAGTGCATG
1 TACGGTTATTCATCAACTCATGATGAATTCCGT-GGTTTGCACACATAGTGCATG
* * *
91283 TACTGTTATTCATCAACTTATGATGAATT-C-TAGG-TTGCACACTTAGTGC-TG
1 TACGGTTATTCATCAACTCATGATGAATTCCGT-GGTTTGCACACATAGTGCATG
*
91334 AAACGGTTATTCATC
1 -TACGGTTATTCATC
91349 CACATAGGAT
Statistics
Matches: 239, Mismatches: 39, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
51 2 0.01
52 25 0.10
53 3 0.01
54 70 0.29
55 137 0.57
56 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
TACGGTTATTCATCAACTCATGATGAATTCCGTGGTTTGCACACATAGTGCATG
Found at i:91394 original size:54 final size:54
Alignment explanation
Indices: 91318--91708 Score: 581
Period size: 54 Copynumber: 7.3 Consensus size: 54
91308 AATTCTAGGT
* *
91318 TGCACACTTAGTGCTGAAACGGTTATTCATCCACATAGGATAAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * *
91372 TGTACGCTTAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
* *
91426 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATATGATGAATTCCTTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * * *
91480 T--ACTACTTAGTGCTGAAACGGTTATTCATCTACGTAGGATAAATTCCGTGAAA
1 TGCAC-ACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * *
91533 TG-ACACTTATTACTGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
* *
91586 TGCACACTTAGTGCCAAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
* * *
91640 TGCATACTTAGTGCCGAAACGATTATTCATCCATATAGGATGAATTCCGTGAAA
1 TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
91694 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
91709 TATTTGGTAA
Statistics
Matches: 302, Mismatches: 32, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
52 2 0.01
53 90 0.30
54 210 0.70
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAA
Found at i:91471 original size:160 final size:161
Alignment explanation
Indices: 91287--91706 Score: 593
Period size: 160 Copynumber: 2.6 Consensus size: 161
91277 TGCATGTACT
* * **
91287 GTTATTCATCAACTTATGATGAATTCT-AGGTTGCACACTTAGTGCTGAAACGGTTATTCATCCA
1 GTTATTCATCCACATATGATGAATTCTGA-AATGCACACTTAGTGCTGAAACGGTTATTCATCCA
*
91351 CATAGGATAAATTCCGTGAAATGTACGCTTAGTGT-C-GAAACGGTTATTCATCCACATAGGATG
65 CATAGGATAAATTCCGTGAAATG-ACACTTAGTGTACTGAAACGGTTATTCATCCACATAGGATG
*
91414 AATTCCGTGAAATGCACACTTAGTGCCGAAACG
129 AATTCCGTGAAATGCACACTTAGTGCCAAAACG
91447 GTTATTCATCCACATATGATGAATTCCTTGAAAT--ACTACTTAGTGCTGAAACGGTTATTCATC
1 GTTATTCATCCACATATGATGAATT-C-TGAAATGCAC-ACTTAGTGCTGAAACGGTTATTCATC
* *
91510 TACGTAGGATAAATTCCGTGAAATGACACTTA-T-TACTGAAACGGTTATTCATCCACATAGGAT
63 CACATAGGATAAATTCCGTGAAATGACACTTAGTGTACTGAAACGGTTATTCATCCACATAGGAT
91573 GAATTCCGTGAAATGCACACTTAGTGCCAAAACG
128 GAATTCCGTGAAATGCACACTTAGTGCCAAAACG
* * * *
91607 GTTATTCATCCACATAGGATGAATTTCGTGAAATGCATACTTAGTGCCGAAACGATTATTCATCC
1 GTTATTCATCCACATATGATGAA-TTC-TGAAATGCACACTTAGTGCTGAAACGGTTATTCATCC
* *
91672 ATATAGGATGAATTCCGTGAAATGCACACTTAGTG
64 ACATAGGATAAATTCCGTGAAATG-ACACTTAGTG
91707 CCTATTTGGT
Statistics
Matches: 231, Mismatches: 17, Indels: 20
0.86 0.06 0.07
Matches are distributed among these distances:
158 1 0.00
159 2 0.01
160 119 0.52
161 97 0.42
162 10 0.04
163 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (161 bp):
GTTATTCATCCACATATGATGAATTCTGAAATGCACACTTAGTGCTGAAACGGTTATTCATCCAC
ATAGGATAAATTCCGTGAAATGACACTTAGTGTACTGAAACGGTTATTCATCCACATAGGATGAA
TTCCGTGAAATGCACACTTAGTGCCAAAACG
Found at i:91572 original size:214 final size:214
Alignment explanation
Indices: 91321--91707 Score: 632
Period size: 214 Copynumber: 1.8 Consensus size: 214
91311 TCTAGGTTGC
* * * *
91321 ACACTTAGTGCTGAAACGGTTATTCATCCACATAGGATAAATTCCGTGAAATGTACGCTTAGTGT
1 ACACTTAGTACTGAAACGGTTATTCATCCACATAGGATAAATTCCGTGAAATGCACACTTAGTGC
* *
91386 CGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGGTTA
66 CAAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGATTA
* *
91451 TTCATCCACATATGATGAATTCCTTGAAAT-ACTACTTAGTGCTGAAACGGTTATTCATCTACGT
131 TTCATCCACATAGGATGAATTCCGTGAAATCAC-ACTTAGTGCTGAAACGGTTATTCATCTACGT
91515 AGGATAAATTCCGTGAAATG
195 AGGATAAATTCCGTGAAATG
* *
91535 ACACTTATTACTGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGC
1 ACACTTAGTACTGAAACGGTTATTCATCCACATAGGATAAATTCCGTGAAATGCACACTTAGTGC
* *
91600 CAAAACGGTTATTCATCCACATAGGATGAATTTCGTGAAATGCATACTTAGTGCCGAAACGATTA
66 CAAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGATTA
*
91665 TTCATCCATATAGGATGAATTCCGTGAAATGCACACTTAGTGC
131 TTCATCCACATAGGATGAATTCCGTGAAAT-CACACTTAGTGC
91708 CTATTTGGTA
Statistics
Matches: 158, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
214 147 0.93
215 9 0.06
216 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (214 bp):
ACACTTAGTACTGAAACGGTTATTCATCCACATAGGATAAATTCCGTGAAATGCACACTTAGTGC
CAAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATGCACACTTAGTGCCGAAACGATTA
TTCATCCACATAGGATGAATTCCGTGAAATCACACTTAGTGCTGAAACGGTTATTCATCTACGTA
GGATAAATTCCGTGAAATG
Found at i:92078 original size:22 final size:21
Alignment explanation
Indices: 92050--92090 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
92040 ATACCCCCAC
92050 TATGGTATCGATACTACTATCA
1 TATGGTATCGATACT-CTATCA
92072 TATGGTATCGATACTCTAT
1 TATGGTATCGATACTCTAT
92091 TACGGTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (21 bp):
TATGGTATCGATACTCTATCA
Found at i:92097 original size:19 final size:21
Alignment explanation
Indices: 92053--92097 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
92043 CCCCCACTAT
*
92053 GGTATCGATACTACTATCATAT
1 GGTATCGATACTACTAT-ATAC
92075 GGTATCGATACT-CTAT-TAC
1 GGTATCGATACTACTATATAC
92094 GGTA
1 GGTA
92098 CCAATACCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
21 4 0.18
22 12 0.55
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (21 bp):
GGTATCGATACTACTATATAC
Found at i:92151 original size:20 final size:19
Alignment explanation
Indices: 92126--92179 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
92116 TTTGTGATCA
92126 ATGGTATCGATACCCTCCTC
1 ATGGTATCGATACCC-CCTC
*
92146 ATGGTATTGATACTCCCCTC
1 ATGGTATCGATAC-CCCCTC
*
92166 TTGGTATCGATACC
1 ATGGTATCGATACC
92180 AATTGAATCG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (19 bp):
ATGGTATCGATACCCCCTC
Found at i:92193 original size:21 final size:21
Alignment explanation
Indices: 92168--92215 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
92158 CTCCCCTCTT
92168 GGTATCGATACCAATTGAATC
1 GGTATCGATACCAATTGAATC
*
92189 GGTATTGATACCAATTGAATC
1 GGTATCGATACCAATTGAATC
92210 GGTATC
1 GGTATC
92216 AGATTCTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (21 bp):
GGTATCGATACCAATTGAATC
Found at i:95080 original size:35 final size:35
Alignment explanation
Indices: 95034--95157 Score: 153
Period size: 35 Copynumber: 3.5 Consensus size: 35
95024 TCTTAGGTCC
* *
95034 ATAAGGAATTACCAGCTAATCGATGTTAAACCTAT
1 ATAAGGAATTACCAGCTGATCGATGTTGAACCTAT
**
95069 ATAAGGAATTACCAGCTTGATCAGA-ACTGAACCTGCAT
1 ATAAGGAATTACCAGC-TGATC-GATGTTGAACCT--AT
*
95107 -TAAGGAATTACCAGTTGATCGATGTTGAACCTAT
1 ATAAGGAATTACCAGCTGATCGATGTTGAACCTAT
95141 ATAAGGAATTACCAGCT
1 ATAAGGAATTACCAGCT
95158 TGATAAGAAC
Statistics
Matches: 75, Mismatches: 8, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
34 2 0.03
35 33 0.44
36 22 0.29
37 16 0.21
38 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (35 bp):
ATAAGGAATTACCAGCTGATCGATGTTGAACCTAT
Found at i:95125 original size:36 final size:37
Alignment explanation
Indices: 95062--95175 Score: 148
Period size: 36 Copynumber: 3.2 Consensus size: 37
95052 ATCGATGTTA
95062 AACCT-ATATAAGGAATTACCAGCTTGATCAGAACTG
1 AACCTGATATAAGGAATTACCAGCTTGATCAGAACTG
**
95098 AACCTGCAT-TAAGGAATTACCAG-TTGATC-GATGTTG
1 AACCTG-ATATAAGGAATTACCAGCTTGATCAGA-ACTG
*
95134 AACCT-ATATAAGGAATTACCAGCTTGATAAGAACTG
1 AACCTGATATAAGGAATTACCAGCTTGATCAGAACTG
95170 AACCTG
1 AACCTG
95176 TAGAGACTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
34 2 0.03
35 16 0.24
36 30 0.45
37 16 0.24
38 2 0.03
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (37 bp):
AACCTGATATAAGGAATTACCAGCTTGATCAGAACTG
Found at i:95152 original size:72 final size:72
Alignment explanation
Indices: 95035--95175 Score: 246
Period size: 72 Copynumber: 2.0 Consensus size: 72
95025 CTTAGGTCCA
*
95035 TAAGGAATTACCAGCTAATCGATGTTAAACCTATATAAGGAATTACCAGCTTGATCAGAACTGAA
1 TAAGGAATTACCAGCTAATCGATGTTAAACCTATATAAGGAATTACCAGCTTGATAAGAACTGAA
95100 CCTGCAT
66 CCTGCAT
* * *
95107 TAAGGAATTACCAGTTGATCGATGTTGAACCTATATAAGGAATTACCAGCTTGATAAGAACTGAA
1 TAAGGAATTACCAGCTAATCGATGTTAAACCTATATAAGGAATTACCAGCTTGATAAGAACTGAA
95172 CCTG
66 CCTG
95176 TAGAGACTTC
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (72 bp):
TAAGGAATTACCAGCTAATCGATGTTAAACCTATATAAGGAATTACCAGCTTGATAAGAACTGAA
CCTGCAT
Found at i:99636 original size:20 final size:20
Alignment explanation
Indices: 99613--99653 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
99603 GGGTTAACTT
*
99613 AGTTCGATTCGAGTTGACTC
1 AGTTCGATTCAAGTTGACTC
99633 AGTTCGATTCAAGTTGACTC
1 AGTTCGATTCAAGTTGACTC
99653 A
1 A
99654 AACCGATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (20 bp):
AGTTCGATTCAAGTTGACTC
Found at i:99660 original size:20 final size:20
Alignment explanation
Indices: 99617--99662 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
99607 TAACTTAGTT
* ***
99617 CGATTCGAGTTGACTCAGTT
1 CGATTCAAGTTGACTCAAAC
99637 CGATTCAAGTTGACTCAAAC
1 CGATTCAAGTTGACTCAAAC
99657 CGATTC
1 CGATTC
99663 GATCCGAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (20 bp):
CGATTCAAGTTGACTCAAAC
Found at i:101327 original size:17 final size:17
Alignment explanation
Indices: 101296--101338 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
101286 AATTAAAAAT
101296 AACTAAATATCATATAAA
1 AACT-AATATCATATAAA
* *
101314 AACTAATATTATATTAA
1 AACTAATATCATATAAA
*
101331 TACTAATA
1 AACTAATA
101339 ATAATTAACG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (17 bp):
AACTAATATCATATAAA
Found at i:118442 original size:17 final size:16
Alignment explanation
Indices: 118410--118538 Score: 66
Period size: 16 Copynumber: 7.6 Consensus size: 16
118400 AATGTTAGAG
118410 AAAAAATAATAAATAA
1 AAAAAATAATAAATAA
*
118426 AAAAAATATTAACAT-A
1 AAAAAATAATAA-ATAA
*
118442 AAATAATAAATAAA-AA
1 AAAAAAT-AATAAATAA
*
118458 ATGAAAATAATAGAATAA
1 A-AAAAATAATA-AATAA
* ** *
118476 TAAATTTAAAGGAAATAA
1 AAAAAAT-AA-TAAATAA
*
118494 GGAAAAATAATAAATAAA
1 -AAAAAATAATAAAT-AA
118512 ATAATAAATAAT-AATAA
1 A-AA-AAATAATAAATAA
118529 AAAAAGATAA
1 AAAAA-ATAA
118539 AATATATATA
Statistics
Matches: 85, Mismatches: 15, Indels: 26
0.67 0.12 0.21
Matches are distributed among these distances:
15 2 0.02
16 31 0.36
17 22 0.26
18 18 0.21
19 12 0.14
ACGTcount: A:0.72, C:0.01, G:0.05, T:0.22
Consensus pattern (16 bp):
AAAAAATAATAAATAA
Found at i:118467 original size:25 final size:24
Alignment explanation
Indices: 118412--118568 Score: 85
Period size: 28 Copynumber: 6.2 Consensus size: 24
118402 TGTTAGAGAA
118412 AAAATAATAAATAAAAAAAATATTAACAT
1 AAAATAATAAAT--AAAAAATA--AA-AT
118441 AAAATAATAAATAAAAAATGAAAAT
1 AAAATAATAAATAAAAAAT-AAAAT
*
118466 AATAGAATAATAAATTTAAAGGAAATAAGGA-
1 -A-A-AATAATAAA--TAAA--AAATAA-AAT
118497 AAAATAATAAATAAAATAAT-AAAT
1 AAAATAATAAATAAAA-AATAAAAT
*
118521 --AATAATAAA-AAAAGATAAAAT
1 AAAATAATAAATAAAAAATAAAAT
* *
118542 -ATAT-ATAAATAAAAAATGAAAAA
1 AAAATAATAAATAAAAAAT-AAAAT
118565 AAAA
1 AAAA
118569 CAAATGAGAT
Statistics
Matches: 105, Mismatches: 7, Indels: 37
0.70 0.05 0.25
Matches are distributed among these distances:
20 2 0.02
21 13 0.12
22 17 0.16
23 5 0.05
24 4 0.04
25 5 0.05
26 7 0.07
27 8 0.08
28 19 0.18
29 13 0.12
30 5 0.05
31 2 0.02
32 5 0.05
ACGTcount: A:0.73, C:0.01, G:0.05, T:0.22
Consensus pattern (24 bp):
AAAATAATAAATAAAAAATAAAAT
Found at i:118513 original size:22 final size:21
Alignment explanation
Indices: 118488--118533 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
118478 AATTTAAAGG
118488 AAATAAGGAAA-AATAATAAATA
1 AAATAA-GAAATAATAATAAA-A
*
118510 AAATAATAAATAATAATAAAA
1 AAATAAGAAATAATAATAAAA
118531 AAA
1 AAA
118534 GATAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAAGAAATAATAATAAAA
Found at i:118565 original size:8 final size:7
Alignment explanation
Indices: 118496--118565 Score: 52
Period size: 7 Copynumber: 9.7 Consensus size: 7
118486 GGAAATAAGG
118496 AAAAATA
1 AAAAATA
*
118503 ATAAATA
1 AAAAATA
118510 AAATAATA
1 AAA-AATA
*
118518 AATAATA
1 AAAAATA
*
118525 ATAAA-A
1 AAAAATA
*
118531 AAAGATA
1 AAAAATA
*
118538 AAATATA
1 AAAAATA
*
118545 TATAAATA
1 -AAAAATA
118553 AAAAATGA
1 AAAAAT-A
118561 AAAAA
1 AAAAA
118566 AAACAAATGA
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
6 4 0.08
7 27 0.56
8 17 0.35
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (7 bp):
AAAAATA
Found at i:119943 original size:34 final size:35
Alignment explanation
Indices: 119888--119991 Score: 113
Period size: 34 Copynumber: 3.0 Consensus size: 35
119878 AATATATTGA
* * * **
119888 TATATAATATATATTTCAAAAAATATTTTTTAAAC
1 TATATATTATATATTTAAAAAAAGATTTTCAAAAC
*
119923 TATATATTATAT-TTTAAAAAAAGGTTTTCAAAAC
1 TATATATTATATATTTAAAAAAAGATTTTCAAAAC
*
119957 TATATATTATATAGTTTTTAAAAAAGATTTT-AAAA
1 TATATATTATATA--TTTAAAAAAAGATTTTCAAAA
119992 TTAAAACTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
34 29 0.50
35 11 0.19
36 4 0.07
37 14 0.24
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (35 bp):
TATATATTATATATTTAAAAAAAGATTTTCAAAAC
Found at i:120091 original size:36 final size:36
Alignment explanation
Indices: 120042--120145 Score: 93
Period size: 38 Copynumber: 2.8 Consensus size: 36
120032 CCTATATATT
*
120042 ATATATAAGTTTTCAAAAACGTTTTAAAAAACTACATA
1 ATATAT-A-TTTTCAAAAACATTTTAAAAAACTACATA
* * ** *
120080 ATATATATTTTCGAAAACCTTTTTTTGAAAACTATATA
1 ATATATATTTTC-AAAAAC-ATTTTAAAAAACTACATA
* *
120118 TTATAT-TTTTCAAAAACATTTTCAAAAA
1 ATATATATTTTCAAAAACATTTTAAAAAA
120146 TTATACTATA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
35 8 0.15
36 10 0.19
37 11 0.20
38 25 0.46
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (36 bp):
ATATATATTTTCAAAAACATTTTAAAAAACTACATA
Found at i:121002 original size:167 final size:158
Alignment explanation
Indices: 120794--121177 Score: 459
Period size: 159 Copynumber: 2.4 Consensus size: 158
120784 AGTGTAATCA
* * * *
120794 AACTCGAAGATCTTTGTTGACAAATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCT
1 AACTCGAAGGTCTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCT
120859 TGGAGCTGAGCATAGTCGAACTAGAA-G-ATCTTTGGTGGCAGATAACCATTCTAGCCTTGAGTT
66 TGGAGCTGAGCATAGTCGAACTAGAAGGTAT-TTTGGTGGCAG------A---TAGCCTTGAGTT
*
120922 ATACTACAAATGATGTGCCTTAGAGATGAGCATAGTCG
121 ATACTACAAATGATGTACCTTAGAGATGAGCATAGTCG
*
120960 AACTCGAAGGTCTTGCGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCC
1 AACTCGAAGGTCTT-TGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCC
* * * *
121025 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGTTGGCAGATAGCCTTGAGTTATCCTACAA
65 TTGGAGCTGAGCATAGTCGAACTAGAAGGTATTTTGGTGGCAGATAGCCTTGAGTTATACTACAA
* * * *
121090 ATGATGTACCTTGGAGCTGAGCGTAGTTG
130 ATGATGTACCTTAGAGATGAGCATAGTCG
* * * * *
121119 AACTCAAAGGTTTTTTGTTGGCAGATAAG-CCTTCTAGCCTTGAGTTATGCTGCAAATGA
1 AACTCGAAGG-TCTTTGTTGGCAAAT-AGCCCTTCTTGCCTTGAGTTATGTTGCAAATGA
121178 ACACAATATC
Statistics
Matches: 193, Mismatches: 20, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
159 90 0.47
160 5 0.03
162 1 0.01
166 13 0.07
167 71 0.37
168 11 0.06
169 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (158 bp):
AACTCGAAGGTCTTTGTTGGCAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCT
TGGAGCTGAGCATAGTCGAACTAGAAGGTATTTTGGTGGCAGATAGCCTTGAGTTATACTACAAA
TGATGTACCTTAGAGATGAGCATAGTCG
Found at i:121024 original size:84 final size:84
Alignment explanation
Indices: 120732--121073 Score: 366
Period size: 83 Copynumber: 4.1 Consensus size: 84
120722 TTATTAACAG
* * * * ** * *
120732 ATAGCCCTTCTTGCTTTGAGCTATGTTGTAAATTTGATTTACCTCT-GAGCTGAGTGTAATCAAA
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGCAAA--TGATGTGCCT-TGGAGCTGAGCATAGTCGAA
*
120796 CTCGAAGATCTT-TGTTGACAA
63 CTCGAAGATCTTGTGTTGGCAA
* *
120817 ATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTA
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTC
* *
120882 GAAGATCTT-TGGTGGCAG
66 GAAGATCTTGTGTTGGCAA
* * * * ** * * *
120900 ATAACCATTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTAGAGATGAGCATAGTCGAACTC
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTC
* *
120965 GAAGGTCTTGCGTTGGCAA
66 GAAGATCTTGTGTTGGCAA
* *
120984 ATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTC
1 ATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTC
* * * *
121049 GAAGGTATTTTGTTGGCAG
66 GAAGATCTTGTGTTGGCAA
121068 ATAGCC
1 ATAGCC
121074 TTGAGTTATC
Statistics
Matches: 216, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
82 1 0.00
83 101 0.47
84 83 0.38
85 31 0.14
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (84 bp):
ATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGATGTGCCTTGGAGCTGAGCATAGTCGAACTC
GAAGATCTTGTGTTGGCAA
Found at i:121122 original size:75 final size:76
Alignment explanation
Indices: 120996--121151 Score: 242
Period size: 75 Copynumber: 2.1 Consensus size: 76
120986 AGCCCTTCTT
** * * *
120996 GCCTTGAGTTATGTTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTG
1 GCCTTGAGTTATCCTACAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTG
121061 TTGGCAGAT-A
66 TTGGCAGATAA
* *
121071 GCCTTGAGTTATCCTACAAATGATGTACCTTGGAGCTGAGCGTAGTTGAACTCAAAGGTTTTTTG
1 GCCTTGAGTTATCCTACAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTG
121136 TTGGCAGATAA
66 TTGGCAGATAA
121147 GCCTT
1 GCCTT
121152 CTAGCCTTGA
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
75 67 0.92
76 6 0.08
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (76 bp):
GCCTTGAGTTATCCTACAAATGATGTACCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTATTTTG
TTGGCAGATAA
Found at i:121362 original size:124 final size:124
Alignment explanation
Indices: 121187--121897 Score: 978
Period size: 124 Copynumber: 5.9 Consensus size: 124
121177 AACACAATAT
* * *
121187 CCTTCGTCGTGAAGTTGAAATCATGGAGGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * *
121252 TCCTTCGTCGTGAAGTTGAAATCCAATCTGAAGATGAATATTGCTGGTGGGCAGGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGCACGATTC
* *
121311 CCTTCGTCGTGAAGATT-AAACCGTGGATGGCCCATTCGTTATGAAGTTGAGCCTTGAATTGGAT
1 CCTTCGTCGTGAAG-TTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGAT
* * * * *
121375 ATCCTTCATCATGAAGTTGAAATCCAATTTAAAGATGAATGTTACTGGTGAGCACGATTC
65 ATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGCACGATTC
*
121435 CCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * * * *
121500 ---TTCGTCATGAAGTTTAAATCCAATCTAAAGATGAATGTTACTAGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGCACGATTC
*
121556 CCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
121621 TCCTTCGTCGTAAAGTTGAAAT-C---C--------AATA---CTGGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGCACGATTC
* *
121665 CCTTCGTCGTG-AGTTGAAACCGTGGATGGTCCCTTCATTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* * *
121729 TCTTTCGTAGTGAATTTGAAATCCAATCTAAAGATGAA-AGTTGCTGGTGAGCACGATTC
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATA-TTGCTGGTGAGCACGATTC
* * *
121788 CCTTCGTTGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* *
121853 TCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCT
66 TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCT
121898 TCAAGTCCAA
Statistics
Matches: 521, Mismatches: 43, Indels: 46
0.85 0.07 0.08
Matches are distributed among these distances:
108 69 0.13
109 27 0.05
112 4 0.01
119 1 0.00
120 3 0.01
121 115 0.22
123 29 0.06
124 271 0.52
125 2 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (124 bp):
CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
TCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAATATTGCTGGTGAGCACGATTC
Found at i:121736 original size:108 final size:109
Alignment explanation
Indices: 121538--121755 Score: 366
Period size: 108 Copynumber: 2.0 Consensus size: 109
121528 AGATGAATGT
*
121538 TACTAGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCGTTGTGAAGT
1 TACTAGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCATTGTGAAGT
*
121603 TGAGCCTTGAATTGGATATCCTTCGTCGTAAAGTTGAAATCCAA
66 TGAGCCTTGAATTGGATATCCTTCGTAGTAAAGTTGAAATCCAA
* *
121647 TACTGGTGAGCACGATTCCCTTCGTCGTG-AGTTGAAACCGTGGATGGTCCCTTCATTGTGAAGT
1 TACTAGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCATTGTGAAGT
* * *
121711 TGAGCCTTGAATTGGATATCTTTCGTAGTGAATTTGAAATCCAA
66 TGAGCCTTGAATTGGATATCCTTCGTAGTAAAGTTGAAATCCAA
121755 T
1 T
121756 CTAAAGATGA
Statistics
Matches: 102, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
108 74 0.73
109 28 0.27
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (109 bp):
TACTAGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCATTGTGAAGT
TGAGCCTTGAATTGGATATCCTTCGTAGTAAAGTTGAAATCCAA
Found at i:121825 original size:232 final size:230
Alignment explanation
Indices: 121417--121879 Score: 752
Period size: 232 Copynumber: 2.0 Consensus size: 230
121407 AGATGAATGT
*
121417 TACTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTTCGTTGTGAAGT
1 TACTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTTCATTGTGAAGT
*
121482 TGAGCCTTGAATTGGATATTCGTCATGAAGTTTAAATCCAATCTAAAGATGAATGTTACTAGTGA
66 TGAGCCTTGAATTGGATATTCGTCATGAAGTTTAAATCCAATCTAAAGATGAAAGTTACTAGTGA
*
121547 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCGTTGTGAAGTTGAGCCTTG
131 GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCGTTATGAAGTTGAGCCTTG
*
121612 AATTGGATATCCTTCGTCGTAAAGTTGAAATCCAA
196 AATTGGATATCCTTCATCGTAAAGTTGAAATCCAA
* *
121647 TACTGGTGAGCACGATTCCCTTCGTCGTG-AGTTGAAACCGTGGATGGTCCCTTCATTGTGAAGT
1 TACTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTTCATTGTGAAGT
*
121711 TGAGCCTTGAATTGGATATCTTTCGT-AGTGAA-TTTGAAATCCAATCTAAAGATGAAAGTTGCT
66 TGAGCCTTGAATTGGATA---TTCGTCA-TGAAGTTT-AAATCCAATCTAAAGATGAAAGTTACT
* * * *
121774 GGTGAGCACGATTCCCTTCGTTGTGAAGTTGAAATCGTGGATGGCCCCTTCGTTATGAAGTTGAG
126 AGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCGTTATGAAGTTGAG
*
121839 CCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAA
191 CCTTGAATTGGATATCCTTCATCGTAAAGTTGAAATCCAA
121879 T
1 T
121880 CTAAAGATGA
Statistics
Matches: 216, Mismatches: 12, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
229 50 0.23
230 29 0.13
231 4 0.02
232 133 0.62
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (230 bp):
TACTGGTGAGCACGATTCCCTTCGTCGTGAAGTTGAAACCGTAGATGGCCCCTTCATTGTGAAGT
TGAGCCTTGAATTGGATATTCGTCATGAAGTTTAAATCCAATCTAAAGATGAAAGTTACTAGTGA
GCACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGACCCTTCGTTATGAAGTTGAGCCTTG
AATTGGATATCCTTCATCGTAAAGTTGAAATCCAA
Found at i:123329 original size:96 final size:95
Alignment explanation
Indices: 123115--123371 Score: 275
Period size: 96 Copynumber: 2.7 Consensus size: 95
123105 GGCTAGCTGG
** * * * * *
123115 ATCCATAAAGCCGGGGCGTTTAACTAATTTCTCTAGAGGGACAGCTCAA--TATCATTGCATAGA
1 ATCCATAAAGCCGGACCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCT-TTATTG--T--A
*
123178 TATTAAAATCTCCCTTAACAGGCTAGCTGAATATT
61 TATTAAAATCACCCTTAACAGGCTAGCTGAATATT
* ** *
123213 TTCCATAAAGCCGGGGCATTTAGCCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
1 ATCCATAAAGCCGGACCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
* * * *
123278 TAATCACCTTTATCAGGCTTAGCTGAATCTT
66 AAATCACCCTTAACAGGC-TAGCTGAATATT
* * *
123309 ATCCATAAAGCCGGACCATTTAATCAATTGCTTTAGAGGGACAGCTCAAGCTTTATTGTATAT
1 ATCCATAAAGCCGGACCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT
123372 ATGTAATATT
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
95 20 0.15
96 67 0.49
97 1 0.01
98 43 0.31
99 5 0.04
100 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (95 bp):
ATCCATAAAGCCGGACCATTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTA
AAATCACCCTTAACAGGCTAGCTGAATATT
Found at i:126024 original size:8 final size:7
Alignment explanation
Indices: 125982--126030 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 7
125972 GATTAACTTA
125982 AAATAAT
1 AAATAAT
125989 AAATAAT
1 AAATAAT
125996 AAATGAAT
1 AAAT-AAT
126004 AAA-AAT
1 AAATAAT
126010 GAAAATAAT
1 --AAATAAT
126019 AGAATAAT
1 A-AATAAT
126027 AAAT
1 AAAT
126031 TTAAAGGAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
6 3 0.08
7 15 0.41
8 16 0.43
9 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.24
Consensus pattern (7 bp):
AAATAAT
Found at i:126066 original size:13 final size:13
Alignment explanation
Indices: 126052--126088 Score: 56
Period size: 13 Copynumber: 2.7 Consensus size: 13
126042 AAGGAAAAAT
126052 AATAAATAAATATAA
1 AATAAA-AAATAT-A
126067 AATAAAAAATATA
1 AATAAAAAATATA
126080 AATAAAAAA
1 AATAAAAAA
126089 ATTAAAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.45
14 6 0.27
15 6 0.27
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAAAAATATA
Found at i:126070 original size:18 final size:18
Alignment explanation
Indices: 126047--126086 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
126037 GAAATAAGGA
*
126047 AAAATAATAAATA-AATAT
1 AAAATAAAAAATATAA-AT
126065 AAAATAAAAAATATAAAT
1 AAAATAAAAAATATAAAT
126083 AAAA
1 AAAA
126087 AAATTAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATAAAAAATATAAAT
Found at i:126100 original size:13 final size:13
Alignment explanation
Indices: 126046--126102 Score: 55
Period size: 14 Copynumber: 4.3 Consensus size: 13
126036 GGAAATAAGG
*
126046 AAAA-ATAATAAA
1 AAAATATAAAAAA
*
126058 TAAATATAAAATAA
1 AAAATATAAAA-AA
126072 AAAATATAAATAAA
1 AAAATATAAA-AAA
126086 AAAAT-TAAAAGAA
1 AAAATATAAAA-AA
126099 AAAA
1 AAAA
126103 CAAATGAAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 4 0.11
13 15 0.39
14 18 0.47
15 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATATAAAAAA
Found at i:127355 original size:5 final size:5
Alignment explanation
Indices: 127345--127374 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
127335 TAAAACAAGA
127345 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT
127375 GAATAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:127399 original size:3 final size:3
Alignment explanation
Indices: 127391--127430 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
127381 AATGAAAAGA
*
127391 AAT AAT AAT AAT AAT AAT AAAT ACT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT A
127431 TAGACTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:127418 original size:16 final size:17
Alignment explanation
Indices: 127392--127430 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
127382 ATGAAAAGAA
127392 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
*
127409 A-AATACTAATAATAAT
1 ATAATAATAATAATAAT
127425 ATAATA
1 ATAATA
127431 TAGACTATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:127421 original size:22 final size:21
Alignment explanation
Indices: 127393--127450 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
127383 TGAAAAGAAA
*
127393 TAATAATAATAATAATAAATAC
1 TAATAATAAT-ATAATAAAGAC
*
127415 TAATAATAATATAATATAGAC
1 TAATAATAATATAATAAAGAC
127436 TATATAATATATATA
1 TA-ATAATA-ATATA
127451 TTTCAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
21 11 0.34
22 16 0.50
23 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.02, T:0.36
Consensus pattern (21 bp):
TAATAATAATATAATAAAGAC
Found at i:127500 original size:32 final size:32
Alignment explanation
Indices: 127434--127777 Score: 187
Period size: 37 Copynumber: 9.7 Consensus size: 32
127424 TATAATATAG
*
127434 ACTATATAATATATATATTTCAAAAAAATATTTTGTAA
1 ACTATAT-ATATATAT-TTTC---AAAATGTTTT-TAA
* *
127472 ACTATATAT-TATATTTTAAAAATGTTTTGAAA
1 ACTATATATATATATTTTCAAAATGTTTT-TAA
*
127504 ACTATATATTATATAGTTTTCAAAAATGATTTTAA
1 ACTATATA-TATATA-TTTTC-AAAATGTTTTTAA
* *
127539 A-AATAT-TATATAAGTTTTCAAAATCATTTTTTAAA
1 ACTATATATATAT-A-TTTTCAAAAT--GTTTTT-AA
127574 ACTATATATTATATAAATTTTCAAAATGTTTTTAAAA
1 ACTATATA-TATAT--ATTTTCAAAATGTTTTT--AA
* **
127611 ACTATACAT-TATATTTTCAAAATGATTTCAAA
1 ACTATATATATATATTTTCAAAATG-TTTTTAA
*
127643 ACTATATATTATATAATTTTCAAAATGTTTTAAA
1 ACTATATA-TATAT-ATTTTCAAAATGTTTTTAA
* *
127677 ACTTATATATTATATATAAGTTTTCAAAAACGTTTTAAAA
1 AC---TATA-TATATAT-A-TTTTC-AAAATGTTTT-TAA
127717 ACTATATAATATATATTTTCGAAAACCAT-TTTTTGAAA
1 ACTATAT-ATATATATTTTC--AAA--ATGTTTTT--AA
127755 ACTATATAT-TATATTTTTCAAAA
1 ACTATATATATATA-TTTTCAAAA
127778 ACATTTTAAA
Statistics
Matches: 256, Mismatches: 19, Indels: 67
0.75 0.06 0.20
Matches are distributed among these distances:
32 39 0.15
33 22 0.09
34 26 0.10
35 36 0.14
36 34 0.13
37 44 0.17
38 39 0.15
39 11 0.04
40 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (32 bp):
ACTATATATATATATTTTCAAAATGTTTTTAA
Found at i:127549 original size:37 final size:34
Alignment explanation
Indices: 127434--127788 Score: 284
Period size: 35 Copynumber: 10.0 Consensus size: 34
127424 TATAATATAG
* * *
127434 ACTATATAATATATATATTTCAAAAAAATATTTTGTAA
1 ACTATATATTATATAT-TTTC--AAAAATGTTTT-AAA
127472 ACTATATA-T-TATATTTT-AAAAATGTTTTGAAA
1 ACTATATATTATATATTTTCAAAAATGTTTT-AAA
127504 ACTATATATTATATAGTTTTCAAAAATGATTTTAAA
1 ACTATATATTATATA-TTTTCAAAAATG-TTTTAAA
* *
127540 AATAT-TA-TATA-AGTTTTCAAAATCATTTTTTAAA
1 ACTATATATTATATA-TTTTCAAAA--ATGTTTTAAA
127574 ACTATATATTATATAAATTTTC-AAAATGTTTTTAAAA
1 ACTATATATTATAT--ATTTTCAAAAATG-TTTT-AAA
* *
127611 ACTATACA-T-TATATTTTC-AAAATGATTTCAAA
1 ACTATATATTATATATTTTCAAAAATG-TTTTAAA
127643 ACTATATATTATATAATTTTC-AAAATGTTTTAAA
1 ACTATATATTATAT-ATTTTCAAAAATGTTTTAAA
*
127677 ACTTATATATTATATATAAGTTTTCAAAAACGTTTTAAAA
1 AC-TATATA-T-TATAT-A-TTTTCAAAAATGTTTT-AAA
* *
127717 ACTATATAATATATATTTTCGAAAACCATTTTTTGAAA
1 ACTATATATTATATATTTTC-AAAA--ATGTTTT-AAA
**
127755 ACTATATATTATAT-TTTTCAAAAACATTTTAAA
1 ACTATATATTATATATTTTCAAAAATGTTTTAAA
127788 A
1 A
127789 AATTATACTA
Statistics
Matches: 272, Mismatches: 19, Indels: 57
0.78 0.05 0.16
Matches are distributed among these distances:
32 31 0.11
33 32 0.12
34 35 0.13
35 41 0.15
36 38 0.14
37 35 0.13
38 39 0.14
39 16 0.06
40 5 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (34 bp):
ACTATATATTATATATTTTCAAAAATGTTTTAAA
Found at i:127771 original size:36 final size:38
Alignment explanation
Indices: 127434--127784 Score: 188
Period size: 36 Copynumber: 9.8 Consensus size: 38
127424 TATAATATAG
* * * **
127434 ACTATATAATATATATATTTCAAAAAAATATTTTGTAA
1 ACTATATAATATATATTTTTCAAAAACATTTTTTAAAA
* *
127472 ACTATAT-AT-TATA-TTTT--AAAA-ATGTTTTGAAA
1 ACTATATAATATATATTTTTCAAAAACATTTTTTAAAA
* * *
127504 ACTATATATTATATAGTTTTC-AAAA-ATGATTTTAAAA
1 ACTATATAATATATATTTTTCAAAAACAT-TTTTTAAAA
* *
127541 A-TAT-T-ATATA-AGTTTTCAAAATCATTTTTT-AAA
1 ACTATATAATATATATTTTTCAAAAACATTTTTTAAAA
* *
127574 ACTATATATTATATAAATTTTC--AAA-ATGTTTTTAAAA
1 ACTATATAATATAT-ATTTTTCAAAAACAT-TTTTTAAAA
* ** *
127611 ACTATA-CAT-TATA-TTTTC--AAA-ATGATTTCAAA
1 ACTATATAATATATATTTTTCAAAAACATTTTTTAAAA
* * *
127643 ACTATATATTATATAATTTTC--AAA-ATGTTTT-AAA
1 ACTATATAATATATATTTTTCAAAAACATTTTTTAAAA
* *
127677 ACTTATATATTATATATAAGTTTTCAAAAAC--GTTTTAAAA
1 AC-TATATA--ATATAT-ATTTTTCAAAAACATTTTTTAAAA
* *
127717 ACTATATAATATATA-TTTTCGAAAACCATTTTTTGAAA
1 ACTATATAATATATATTTTTC-AAAAACATTTTTTAAAA
127755 ACTATAT-AT-TATATTTTTCAAAAACATTTT
1 ACTATATAATATATATTTTTCAAAAACATTTT
127785 AAAAAATTAT
Statistics
Matches: 258, Mismatches: 26, Indels: 60
0.75 0.08 0.17
Matches are distributed among these distances:
32 28 0.11
33 27 0.10
34 28 0.11
35 41 0.16
36 45 0.17
37 37 0.14
38 33 0.13
39 11 0.04
40 8 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (38 bp):
ACTATATAATATATATTTTTCAAAAACATTTTTTAAAA
Found at i:129396 original size:36 final size:38
Alignment explanation
Indices: 129343--129477 Score: 104
Period size: 36 Copynumber: 3.6 Consensus size: 38
129333 ATAATTTTTT
*
129343 AAAATGTTTTTGAAAAATATA-A-TATATAGTTTTCAA
1 AAAATGTTTTCGAAAAATATATATTATATAGTTTTCAA
**
129379 AAAATGGTTTTCG-AAAATATATATTATATAGTTTT-TT
1 AAAAT-GTTTTCGAAAAATATATATTATATAGTTTTCAA
* * *
129416 AAAACGTTTTTGAAAACTTATATATAATATATAGGTTTT-AA
1 AAAATGTTTTCGAAAA---ATATATATTATATA-GTTTTCAA
* *
129457 AACAT-TTTT-GAAAATTATATA
1 AAAATGTTTTCGAAAAATATATA
129478 ATAACAAAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
36 25 0.31
37 14 0.17
38 11 0.14
39 5 0.06
40 17 0.21
41 8 0.10
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (38 bp):
AAAATGTTTTCGAAAAATATATATTATATAGTTTTCAA
Found at i:129438 original size:38 final size:36
Alignment explanation
Indices: 129332--129477 Score: 134
Period size: 38 Copynumber: 3.9 Consensus size: 36
129322 AATAATATAG
* * *
129332 TATAATTTTTTAAAATGTTTTTGAAAA-ATATAATA
1 TATAGTTTTTTAAAACGTTTTTGAAAATATATATTA
** * *
129367 TATAGTTTTCAAAAAATGGTTTTCGAAAATATATATTA
1 TATAGTTTT-TTAAAA-CGTTTTTGAAAATATATATTA
129405 TATAGTTTTTTAAAACGTTTTTGAAAACTTATATATAATA
1 TATAGTTTTTTAAAACGTTTTTGAAAA--TATATAT--TA
* *
129445 TATAG-GTTTTAAAACATTTTTGAAAATTATATA
1 TATAGTTTTTTAAAACGTTTTTGAAAA-TATATA
129478 ATAACAAAAT
Statistics
Matches: 92, Mismatches: 12, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
35 8 0.09
36 14 0.15
37 14 0.15
38 30 0.33
39 19 0.21
40 7 0.08
ACGTcount: A:0.42, C:0.03, G:0.08, T:0.46
Consensus pattern (36 bp):
TATAGTTTTTTAAAACGTTTTTGAAAATATATATTA
Found at i:129439 original size:40 final size:38
Alignment explanation
Indices: 129359--129477 Score: 129
Period size: 39 Copynumber: 3.1 Consensus size: 38
129349 TTTTTGAAAA
*
129359 ATATAATATATA-GTTTTCAAAAAATGGTTTTCGAAAA-TAT
1 ATATAATATATAGGTTTT-AAAACAT--TTTT-GAAAATTAT
* *
129399 ATAT--TATATAGTTTTTTAAAACGTTTTTGAAAACTTAT
1 ATATAATATATAG-GTTTTAAAACATTTTTGAAAA-TTAT
129437 ATATAATATATAGGTTTTAAAACATTTTTGAAAATTAT
1 ATATAATATATAGGTTTTAAAACATTTTTGAAAATTAT
129475 ATA
1 ATA
129478 ATAACAAAAT
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
36 5 0.07
37 4 0.06
38 20 0.29
39 24 0.35
40 15 0.22
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (38 bp):
ATATAATATATAGGTTTTAAAACATTTTTGAAAATTAT
Found at i:138419 original size:31 final size:29
Alignment explanation
Indices: 138384--138472 Score: 72
Period size: 31 Copynumber: 2.9 Consensus size: 29
138374 AATGTGTTAT
138384 TTAATACATTATCTTTTCTCAAATTATAACA
1 TTAATACATTATCTTTTC-CAAATTATAA-A
* * * *
138415 TTAATGCCA-TATTCTTTTCCCAATATATTAT
1 TTAAT-ACATTA-TCTTTTCCAAAT-TATAAA
*
138446 TTATTACATTATCTTTTCCCAAATTAT
1 TTAATACATTATCTTTT-CCAAATTAT
138473 GTAGTACAAC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
30 11 0.24
31 22 0.48
32 13 0.28
ACGTcount: A:0.33, C:0.18, G:0.01, T:0.48
Consensus pattern (29 bp):
TTAATACATTATCTTTTCCAAATTATAAA
Found at i:140802 original size:16 final size:16
Alignment explanation
Indices: 140781--140812 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
140771 TAGTTAGCTC
140781 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
140797 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
140813 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:144397 original size:16 final size:16
Alignment explanation
Indices: 144376--144407 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
144366 TAGTTAGCTC
144376 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
144392 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
144408 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:147995 original size:16 final size:16
Alignment explanation
Indices: 147974--148005 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
147964 TAGTTAGCTC
147974 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
147990 ATTTGCATTCTAACAT
1 ATTTGCATTCTAACAT
148006 TGGTGGAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (16 bp):
ATTTGCATTCTAACAT
Found at i:149775 original size:29 final size:29
Alignment explanation
Indices: 149727--149784 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
149717 ACCCGGGACG
*
149727 AAATAAAATTAATGAGCCCCTATTTATGT
1 AAATAAAATAAATGAGCCCCTATTTATGT
149756 AAATAAAATAAAT-AGACCCCTATTTATGT
1 AAATAAAATAAATGAG-CCCCTATTTATGT
149785 TTTTTATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 2 0.07
29 25 0.93
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.33
Consensus pattern (29 bp):
AAATAAAATAAATGAGCCCCTATTTATGT
Found at i:151472 original size:2 final size:2
Alignment explanation
Indices: 151465--151512 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
151455 AATTAAACAA
151465 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
151507 TT AT AT
1 AT AT AT
151513 GACTAATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:152969 original size:16 final size:16
Alignment explanation
Indices: 152917--152970 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 16
152907 AAGTTGAACA
152917 AATTCTTCTCATTATG
1 AATTCTTCTCATTATG
**
152933 AACTTCTTCTTTTTCAAATG
1 AA-TTCTTCTCATT---ATG
152953 AATTCTTCTCATTATG
1 AATTCTTCTCATTATG
152969 AA
1 AA
152971 CACTTCTGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 7 0.23
17 9 0.30
19 9 0.30
20 5 0.17
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (16 bp):
AATTCTTCTCATTATG
Found at i:153132 original size:123 final size:121
Alignment explanation
Indices: 152909--153352 Score: 629
Period size: 123 Copynumber: 3.7 Consensus size: 121
152899 ATCTCTTAAA
* *
152909 GTTGAACAAATTCTTCTCATTATGAACTTCTTC-T-TT-TTCAAATGAA-TTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGAT-AAGTTCTTCTCATTATGA
** *
152970 ACACT-TCTGG-AAA--TG-T-TGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
65 ACTTTCTCTGGAAAAGTTGATGTGATCTATCTCCTTCTATGATAGAGTCATGC-AAAG
* * *
153022 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCATCTTCAGTTAAGTTCTTCTCATTGTGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAA
*
153087 CTTTCTCTGGAAAATTTGATGATGATCTATCTCCTTCTATGATAGAGTCATGCAAAG
66 CTTTCTCTGGAAAAGTTGATG-TGATCTATCTCCTTCTATGATAGAGTCATGCAAAG
* *
153144 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCT-TCTTCTTCAGATAAGTTCTTCTCATTATGA
153209 ACTTTCTCTGGAAAAGTTGATGCTGATCTATCTCCTTCTATGATAGAGTCATGCAAAG
65 ACTTTCTCTGGAAAAGTTGATG-TGATCTATCTCCTTCTATGATAGAGTCATGCAAAG
* * * *
153267 GTTGAACAAGCTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTATTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGA
153332 ACTTTCTCTGGAAAAGTTGAT
65 ACTTTCTCTGGAAAAGTTGAT
153353 CCATTGAGTG
Statistics
Matches: 299, Mismatches: 19, Indels: 16
0.90 0.06 0.05
Matches are distributed among these distances:
113 32 0.11
114 1 0.00
115 3 0.01
116 22 0.07
117 5 0.02
118 3 0.01
120 2 0.01
121 1 0.00
122 38 0.13
123 192 0.64
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (121 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAA
CTTTCTCTGGAAAAGTTGATGTGATCTATCTCCTTCTATGATAGAGTCATGCAAAG
Found at i:154514 original size:21 final size:21
Alignment explanation
Indices: 154485--154525 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
154475 GTTTATGTGA
*
154485 AAAATAAATTGAATTTCAAAC
1 AAAAGAAATTGAATTTCAAAC
154506 AAAAGAAATTGAATTTCAAA
1 AAAAGAAATTGAATTTCAAA
154526 AAGATAATCT
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:0.59, C:0.07, G:0.07, T:0.27
Consensus pattern (21 bp):
AAAAGAAATTGAATTTCAAAC
Found at i:154932 original size:16 final size:16
Alignment explanation
Indices: 154923--154962 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
154913 ATTTTTTTTC
154923 TTTTTCATTTTCATTT
1 TTTTTCATTTTCATTT
154939 TTTTTCATTTTCATTT
1 TTTTTCATTTTCATTT
154955 TTTCTTCA
1 TTT-TTCA
154963 AGCATAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTCATTTTCATTT
Found at i:154938 original size:22 final size:22
Alignment explanation
Indices: 154913--154955 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
154903 TTTTCATTCA
*
154913 ATTTTTTTTCTTTTTCATTTTC
1 ATTTTTTTTCATTTTCATTTTC
154935 ATTTTTTTTCATTTTCATTTT
1 ATTTTTTTTCATTTTCATTTT
154956 TTCTTCAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (22 bp):
ATTTTTTTTCATTTTCATTTTC
Found at i:154949 original size:6 final size:6
Alignment explanation
Indices: 154918--154955 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
154908 ATTCAATTTT
*
154918 TTTTCT TTTTCA TTTTCA TTTT-- TTTTCA TTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
154956 TTCTTCAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
4 4 0.14
6 25 0.86
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTCA
Found at i:162318 original size:15 final size:15
Alignment explanation
Indices: 162298--162329 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
162288 TACAATGAAT
*
162298 AATGAATGTGTGCAA
1 AATGAATGTATGCAA
162313 AATGAATGTATGCAA
1 AATGAATGTATGCAA
162328 AA
1 AA
162330 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:165385 original size:24 final size:23
Alignment explanation
Indices: 165358--165410 Score: 54
Period size: 24 Copynumber: 2.2 Consensus size: 23
165348 ATACTTGAAA
165358 AATAAAATAAAACATTAAT-AAAAT
1 AATAAAAT-AAACATT-ATGAAAAT
* *
165382 AATATAGATAAATATTATGAAAAT
1 AATA-AAATAAACATTATGAAAAT
165406 AATAA
1 AATAA
165411 GTATATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.12
24 19 0.76
25 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (23 bp):
AATAAAATAAACATTATGAAAAT
Found at i:165430 original size:28 final size:27
Alignment explanation
Indices: 165379--165432 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
165369 ACATTAATAA
*
165379 AATAATATAGATAAATATTATGAAAAT
1 AATAATATAGATAAAAATTATGAAAAT
* *
165406 AATAAGTATATATAAAAATTTTGAAAA
1 AATAA-TATAGATAAAAATTATGAAAA
165433 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.33
Consensus pattern (27 bp):
AATAATATAGATAAAAATTATGAAAAT
Found at i:167945 original size:19 final size:18
Alignment explanation
Indices: 167920--167990 Score: 54
Period size: 19 Copynumber: 3.7 Consensus size: 18
167910 AGTTTGTTGT
167920 TTTTTTTTCTTTTCTCTG
1 TTTTTTTTCTTTTCTCTG
*
167938 TATTTTTTTTCTGTTC-CTG
1 --TTTTTTTTCTTTTCTCTG
* *
167957 TCTCTTCTTTCTGTTTCTCTC
1 T-T-TTTTTTCT-TTTCTCTG
*
167978 TGTTTTTTCTTTT
1 TTTTTTTTCTTTT
167991 TTTTTTTCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
17 1 0.02
18 4 0.10
19 17 0.41
20 16 0.39
21 3 0.07
ACGTcount: A:0.01, C:0.20, G:0.07, T:0.72
Consensus pattern (18 bp):
TTTTTTTTCTTTTCTCTG
Found at i:167945 original size:20 final size:20
Alignment explanation
Indices: 167920--167976 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
167910 AGTTTGTTGT
167920 TTTTTTTTCTTTTCTCTGTA
1 TTTTTTTTCTTTTCTCTGTA
* *
167940 TTTTTTTTCTGTTC-CTGTC
1 TTTTTTTTCTTTTCTCTGTA
* *
167959 TCTTCTTTCTGTTTCTCT
1 TTTTTTTTCT-TTTCTCT
167977 CTGTTTTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
19 12 0.40
20 16 0.53
21 2 0.07
ACGTcount: A:0.02, C:0.21, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTTTTCTTTTCTCTGTA
Found at i:168470 original size:3 final size:3
Alignment explanation
Indices: 168462--168535 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
168452 TAATATAAAT
168462 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
168510 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
168536 TGGATAAAAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:168893 original size:116 final size:116
Alignment explanation
Indices: 168722--169418 Score: 990
Period size: 116 Copynumber: 6.1 Consensus size: 116
168712 TGCTGGGGAT
*
168722 GATGATCCATCAAATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
1 GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
* * *
168787 CTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAAA
66 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
* * * *
168838 GTTGATCCATCAAATGATGAATTCAAGCAAAAGATTGAGCAAGTTCTTCTTATTATGAACTTCTT
1 GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
*
168903 CTTCCTTCTTCA-A--ATGAGTTCTTCTCATTATGAACCTTCT--CTGGCAAAA
66 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAA-C-TCTAACTGG-AAAA
* *
168952 -ATAATCCATCAAGTGATGAATTCAA-AAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
1 GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
169015 CTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACCTTCT--CTGGCAAAA
66 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAA-C-TCTAACTGG-AAAA
* * * *
169064 -ATAATCCATCAAGTGATGAATTCAA-AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTT
1 GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
169127 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
66 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
* * ** *
169178 GCTGATCCATCAAGTGATGGATTTGAGCTAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
1 GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
*
169243 CTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
66 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
* * ** *
169294 GCTGATCCATCAAGTGATGGATTTGAGCTAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
1 GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
* *
169359 CTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTTTAACTGGAAAA
66 CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
169410 GATGATCCA
1 GATGATCCA
169419 CCAGATGATG
Statistics
Matches: 543, Mismatches: 26, Indels: 24
0.92 0.04 0.04
Matches are distributed among these distances:
112 157 0.29
113 50 0.09
114 9 0.02
115 47 0.09
116 280 0.52
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (116 bp):
GATGATCCATCAAGTGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTT
CTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAACTGGAAAA
Found at i:170150 original size:130 final size:130
Alignment explanation
Indices: 169990--170287 Score: 578
Period size: 130 Copynumber: 2.3 Consensus size: 130
169980 CACTTCTTCG
*
169990 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
170055 ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
170120 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
*
170185 CTTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
66 ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
170250 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
170288 CTTCTGTCCA
Statistics
Matches: 166, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 166 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (130 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAAATTCAATG
ATTGATTCTGTCCAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:170270 original size:52 final size:52
Alignment explanation
Indices: 170199--170755 Score: 1042
Period size: 52 Copynumber: 10.7 Consensus size: 52
170189 ATTCTGTCCA
170199 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
170251 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATCTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
170303 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
170355 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
* *
170407 ATTAGATAACTCAAAGAACACTTCCAGAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
170459 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
*
170511 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
170563 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
* *
170615 ATCAGATAACTCAAAGAACACTTCCAAAAGATGTTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
**
170667 ATCAGATAACTCAAAGAACACTTCCAGAAGATATTATGTTCTGTCCAACCAG
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
170719 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
170756 TGGCATATTC
Statistics
Matches: 491, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 491 1.00
ACGTcount: A:0.37, C:0.24, G:0.15, T:0.24
Consensus pattern (52 bp):
ATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCAG
Found at i:171576 original size:16 final size:18
Alignment explanation
Indices: 171537--171582 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
171527 AATAGAAAAG
171537 AATAAATTGAATTTCCAAA
1 AATAAATTGAATTTCC-AA
171556 AATAAATTGAATTT-C-A
1 AATAAATTGAATTTCCAA
171572 AATAAATTGAA
1 AATAAATTGAA
171583 CTTGAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 12 0.44
18 1 0.04
19 14 0.52
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.33
Consensus pattern (18 bp):
AATAAATTGAATTTCCAA
Found at i:171590 original size:16 final size:16
Alignment explanation
Indices: 171555--171591 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
171545 GAATTTCCAA
*
171555 AAATAAATTGAATTTC
1 AAATAAATTGAACTTC
*
171571 AAATAAATTGAACTTG
1 AAATAAATTGAACTTC
171587 AAATA
1 AAATA
171592 GATAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.32
Consensus pattern (16 bp):
AAATAAATTGAACTTC
Found at i:181275 original size:19 final size:20
Alignment explanation
Indices: 181239--181276 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
181229 AGTTTGTTGT
*
181239 TTTTTTTTCTTTTCTCTGTA
1 TTTTTTTTCTGTTCTCTGTA
181259 TTTTTTTTCTGTT-TCTGT
1 TTTTTTTTCTGTTCTCTGT
181277 CTCTTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.03, C:0.13, G:0.08, T:0.76
Consensus pattern (20 bp):
TTTTTTTTCTGTTCTCTGTA
Found at i:181789 original size:3 final size:3
Alignment explanation
Indices: 181783--181817 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
181773 TATAAATTAT
181783 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
181818 TGGATAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:182026 original size:15 final size:16
Alignment explanation
Indices: 181997--182028 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
181987 CCCTAATTAT
181997 TAATAATTGATTAAAA
1 TAATAATTGATTAAAA
182013 TAATAATT-ATTAAAA
1 TAATAATTGATTAAAA
182028 T
1 T
182029 TAAAGGCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATAATTGATTAAAA
Found at i:184482 original size:4 final size:4
Alignment explanation
Indices: 184473--184521 Score: 73
Period size: 4 Copynumber: 12.0 Consensus size: 4
184463 GTAATCTCTA
184473 TCTT TCTT TCTT TCCTT TAC-T TCTT TCTT TCTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT T-CTT T-CTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
184522 CTTACAATGT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
3 1 0.02
4 36 0.86
5 5 0.12
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.71
Consensus pattern (4 bp):
TCTT
Found at i:190995 original size:59 final size:58
Alignment explanation
Indices: 190926--191044 Score: 193
Period size: 59 Copynumber: 2.0 Consensus size: 58
190916 AACAATAGTC
*
190926 ACTAAAACACTAGTACAAAAACAAACATATTAAACTAAAAAAATACAAAGAAAAATGAA
1 ACTAAAACACTAGTACAAAAACAAACATATTAAACT-AAAAAATACAAAGAAAAATAAA
* * *
190985 ACTAAAACACTCGTACAAAAACAAACATGTTATACTAAAAAATACAAAGAAAAATAAA
1 ACTAAAACACTAGTACAAAAACAAACATATTAAACTAAAAAATACAAAGAAAAATAAA
191043 AC
1 AC
191045 ATTTCCTTGG
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
58 23 0.41
59 33 0.59
ACGTcount: A:0.64, C:0.15, G:0.05, T:0.16
Consensus pattern (58 bp):
ACTAAAACACTAGTACAAAAACAAACATATTAAACTAAAAAATACAAAGAAAAATAAA
Found at i:192728 original size:57 final size:57
Alignment explanation
Indices: 192559--192730 Score: 263
Period size: 57 Copynumber: 3.0 Consensus size: 57
192549 CATAACCATA
* * * * * *
192559 CAACCCCATCACGAACAGTAAGGCCCTGAGCACAAAGCCAAGGAACCTGCAAGTAAT
1 CAACCCCGTCACGAACAGTAAGGCTCTCACCACAAAGCCGAGGAACCTGCAAGTATT
* *
192616 CAACCCCGTCACGAACAGTAAGGCTCTCATCACAAAGCTGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCACCACAAAGCCGAGGAACCTGCAAGTATT
*
192673 CAACCCCGTCACGAACAGTAAGGCTCTCACCGCAAAGCCGAGGAACCTGCAAGTATT
1 CAACCCCGTCACGAACAGTAAGGCTCTCACCACAAAGCCGAGGAACCTGCAAGTATT
192730 C
1 C
192731 TTCCTCCAAC
Statistics
Matches: 105, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 105 1.00
ACGTcount: A:0.34, C:0.32, G:0.20, T:0.14
Consensus pattern (57 bp):
CAACCCCGTCACGAACAGTAAGGCTCTCACCACAAAGCCGAGGAACCTGCAAGTATT
Done.