Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013236.1 Kokia drynarioides strain JFW-HI SEQ_128255, 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: 477469
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 53 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:104 original size:2 final size:2
Alignment explanation
Indices: 97--127 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
87 TTATTAATTC
*
97 AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
128 AAAGAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:631 original size:18 final size:17
Alignment explanation
Indices: 601--636 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
591 TGAATGAGTT
*
601 AATTAGGATTAAATTGG
1 AATTAGGAATAAATTGG
618 AATTAAGGAATAAATTGG
1 AATT-AGGAATAAATTGG
636 A
1 A
637 TAGAAATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.31
Consensus pattern (17 bp):
AATTAGGAATAAATTGG
Found at i:10965 original size:15 final size:15
Alignment explanation
Indices: 10945--10974 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10935 AAACCCTCAG
10945 TTCAGTCACAGCACT
1 TTCAGTCACAGCACT
10960 TTCAGTCACAGCACT
1 TTCAGTCACAGCACT
10975 ATGACTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (15 bp):
TTCAGTCACAGCACT
Found at i:11956 original size:3 final size:3
Alignment explanation
Indices: 11948--11979 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
11938 TAACCCCAAT
11948 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11980 TATAAACCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44724 original size:47 final size:48
Alignment explanation
Indices: 44673--44780 Score: 202
Period size: 47 Copynumber: 2.3 Consensus size: 48
44663 AACATTTGAG
44673 AATTTATTATTTTATTATTGTTTAATTGAGTTTACTTTATATCTATT-
1 AATTTATTATTTTATTATTGTTTAATTGAGTTTACTTTATATCTATTA
44720 AATTTATTATTTTATTATTGTTTAATTGAGTTTACTTTATATCTATTA
1 AATTTATTATTTTATTATTGTTTAATTGAGTTTACTTTATATCTATTA
44768 AATTTA-TATTTTA
1 AATTTATTATTTTA
44781 CATTATTTTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
47 54 0.90
48 6 0.10
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (48 bp):
AATTTATTATTTTATTATTGTTTAATTGAGTTTACTTTATATCTATTA
Found at i:44771 original size:25 final size:24
Alignment explanation
Indices: 44694--44768 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
44684 TTATTATTGT
44694 TTAATTGAGTTTACTTTATATCTA
1 TTAATTGAGTTTACTTTATATCTA
* * *
44718 TTAATTTA--TTATTTTATTAT-TGT
1 TTAATTGAGTTTACTTTA-TATCT-A
44741 TTAATTGAGTTTACTTTATATCTA
1 TTAATTGAGTTTACTTTATATCTA
44765 TTAA
1 TTAA
44769 ATTTATATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
22 8 0.20
23 10 0.25
24 14 0.35
25 8 0.20
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (24 bp):
TTAATTGAGTTTACTTTATATCTA
Found at i:58074 original size:27 final size:27
Alignment explanation
Indices: 58034--58205 Score: 96
Period size: 27 Copynumber: 6.4 Consensus size: 27
58024 AATATGTTTC
*
58034 TCGAGTCAAATACAGAATATAGCTCAT
1 TCGAGCCAAATACAGAATATAGCTCAT
* * *
58061 TTGAGCCAAATACAGAATTTCGCTCAT
1 TCGAGCCAAATACAGAATATAGCTCAT
* * * *
58088 TCGAG-CAAGATGCAGAAAATGGCTTAT
1 TCGAGCCAA-ATACAGAATATAGCTCAT
* * * * * *
58115 TCAAGTCGAGTTCAGAATATTGCTCAT
1 TCGAGCCAAATACAGAATATAGCTCAT
* * * *
58142 TCGAGCCAGACACAGAGTATTA-CTCTT
1 TCGAGCCAAATACAGAATA-TAGCTCAT
* * * * *
58169 TCGAGTCAAGTTCAGAGTATTGCTCAT
1 TCGAGCCAAATACAGAATATAGCTCAT
*
58196 TTGAGCCAAA
1 TCGAGCCAAA
58206 CATAGATTAA
Statistics
Matches: 104, Mismatches: 37, Indels: 8
0.70 0.25 0.05
Matches are distributed among these distances:
26 4 0.04
27 97 0.93
28 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (27 bp):
TCGAGCCAAATACAGAATATAGCTCAT
Found at i:64119 original size:7 final size:7
Alignment explanation
Indices: 64109--64149 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
64099 ATAATTAGAC
64109 TTAAAAT
1 TTAAAAT
64116 TTAAAAT
1 TTAAAAT
64123 TTAAAAT
1 TTAAAAT
* *
64130 ATAAAAA
1 TTAAAAT
*
64137 TTAAATT
1 TTAAAAT
64144 TTAAAA
1 TTAAAA
64150 ATAAAATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
TTAAAAT
Found at i:64128 original size:14 final size:14
Alignment explanation
Indices: 64109--64167 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
64099 ATAATTAGAC
*
64109 TTAAAATTTAAAAT
1 TTAAAATTTAAAAA
*
64123 TTAAAATATAAAAA
1 TTAAAATTTAAAAA
*
64137 TTAAATTTTAAAAA
1 TTAAAATTTAAAAA
* *
64151 -TAAAATATAAAGA
1 TTAAAATTTAAAAA
64164 TTAA
1 TTAA
64168 CTAAAAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
13 10 0.27
14 27 0.73
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (14 bp):
TTAAAATTTAAAAA
Found at i:64142 original size:27 final size:27
Alignment explanation
Indices: 64109--64167 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
64099 ATAATTAGAC
* *
64109 TTAAAATTTAAAATTTAAAATATAAAAA
1 TTAAATTTTAAAA-ATAAAATATAAAAA
*
64137 TTAAATTTTAAAAATAAAATATAAAGA
1 TTAAATTTTAAAAATAAAATATAAAAA
64164 TTAA
1 TTAA
64168 CTAAAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (27 bp):
TTAAATTTTAAAAATAAAATATAAAAA
Found at i:64934 original size:65 final size:65
Alignment explanation
Indices: 64827--64955 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 65
64817 AGTCAGTTGT
*
64827 AATAGTCTAACTATCTCTAACATTCACCCAACTACTACAATATCGAGACCTAAAGTTTCTCTCGG
1 AATAGTCTAACTATCTCTAACATTCACCCAACTACTACAATATCGAGACCTAAAGTTACTCTCGG
* * *
64892 AATAGTTTAACTATCTCTAATATTCACCCAACTACTATAATATCGAGACCTAAAGTTACTCTCG
1 AATAGTCTAACTATCTCTAACATTCACCCAACTACTACAATATCGAGACCTAAAGTTACTCTCG
64956 AAAATGAAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (65 bp):
AATAGTCTAACTATCTCTAACATTCACCCAACTACTACAATATCGAGACCTAAAGTTACTCTCGG
Found at i:72183 original size:29 final size:29
Alignment explanation
Indices: 72100--72542 Score: 470
Period size: 29 Copynumber: 15.1 Consensus size: 29
72090 ACTCGGGACC
*
72100 AAAATGGTAATTTTTGGAAGTTTCGGGGGTA
1 AAAATGG-AATTTTTGGAAGTTT-GAGGGTA
*
72131 AAAATGGAATTTTTGGAAGTTTTGAGGTTA
1 AAAATGGAATTTTTGGAAG-TTTGAGGGTA
* *
72161 AAAATGGGATTTTTGGGAGTTTGAGGGT-
1 AAAATGGAATTTTTGGAAGTTTGAGGGTA
* * *
72189 AAAATGGAATTTTTGAAAGTTTTAAGGTTA
1 AAAATGGAATTTTTGGAAG-TTTGAGGGTA
* * * *
72219 AAATTGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTGAGGGTA
*
72248 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
1 AAAATGGAATTTTTGGAAGTTT-GAGGGTA
* * *
72278 AAAAT-GAGGTTTTTGGAAGTTCGGGGGTA
1 AAAATGGA-ATTTTTGGAAGTTTGAGGGTA
* *
72307 AAAATGGAATTTTTGGGAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTGAGGGTA
*
72336 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
1 AAAATGGAATTTTTGGAAGTTTGAGGG-TA
*
72366 AAAAT-GAGATTTTTGGAAGTTTTG-GGGTT
1 AAAATGGA-ATTTTTGGAAG-TTTGAGGGTA
*
72395 AAAATAGAATTTTTGGAAGTTTTG-GGGTCA
1 AAAATGGAATTTTTGGAAG-TTTGAGGGT-A
* * *
72425 AAAATGGGATTTTTGAAAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTGAGGGTA
* *
72454 AAAATGGAATTTTTGGGAGTTCG-GGGTA
1 AAAATGGAATTTTTGGAAGTTTGAGGGTA
72482 AAAATGGAATTTTTGGAAGTTTTG-GGGTTA
1 AAAATGGAATTTTTGGAAG-TTTGAGGG-TA
*
72512 AAAATGGGATTTTTGGAAGTTTTG-GGGTA
1 AAAATGGAATTTTTGGAAG-TTTGAGGGTA
72541 AA
1 AA
72543 GCCGAAATTT
Statistics
Matches: 353, Mismatches: 45, Indels: 30
0.82 0.11 0.07
Matches are distributed among these distances:
28 39 0.11
29 156 0.44
30 145 0.41
31 13 0.04
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTGAGGGTA
Found at i:72279 original size:59 final size:59
Alignment explanation
Indices: 72100--72542 Score: 522
Period size: 59 Copynumber: 7.5 Consensus size: 59
72090 ACTCGGGACC
*
72100 AAAATGGTAATTTTTGGAAGTTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
1 AAAATGG-GATTTTTGGAAG-TTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
* * * * *
72161 AAAATGGGATTTTTGGGAGTTTGAGGGT-AAAATGGAATTTTTGAAAGTTTTAAGGTTA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
* *
72219 AAATTGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTCGAGGTTA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
* * *
72278 AAAATGAGG-TTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGGAG-TTCGAGGGTA
1 AAAATG-GGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
* ** * *
72336 AAAATGGAATTTTTGGAAGTTTTAGGGTTAAAAAT-GAGATTTTTGGAAGTTTTGGGGTT-
1 AAAATGGGATTTTTGGAAG-TTCGGGGGTAAAAATGGA-ATTTTTGGAAGTTTTGAGGTTA
* * ** * * * *
72395 AAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAATGGGATTTTTGAAAG-TTCGAGGGTA
1 AAAATGGGATTTTTGGAAGTTCGGGGGT-AAAAATGGAATTTTTGGAAGTTTTGAGGTTA
* * *
72454 AAAATGGAATTTTTGGGAGTTC-GGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
**
72512 AAAATGGGATTTTTGGAAGTTTTGGGGTAAA
1 AAAATGGGATTTTTGGAAGTTCGGGGGTAAA
72543 GCCGAAATTT
Statistics
Matches: 328, Mismatches: 43, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
57 19 0.06
58 123 0.38
59 160 0.49
60 19 0.06
61 7 0.02
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (59 bp):
AAAATGGGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTA
Found at i:72280 original size:88 final size:89
Alignment explanation
Indices: 72100--72533 Score: 492
Period size: 88 Copynumber: 4.9 Consensus size: 89
72090 ACTCGGGACC
* * *
72100 AAAATGGTAATTTTTGGAAGTTTCGGGGGTAAAAATGGAATTTTTGGAAGTTTTGAGGTTAAAAA
1 AAAATGG-AATTTTTGGAAGTTTTGGGGGTAAAAATGGAATTTTTGGAAG-TTTGGGGGTAAAAA
*
72165 TGGGATTTTTGGGAGTTTGAGGG-T-
64 TGGGATTTTTGGAAGTTTGAGGGTTA
* ** * * * *
72189 AAAATGGAATTTTTGAAAGTTTTAAGGTTAAAATTGGGATTTTTGGAAGTTCGGGGGTAAAAATG
1 AAAATGGAATTTTTGGAAGTTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATG
*
72254 GAATTTTTGGAAGTTTCGA-GGTTA
66 GGATTTTTGGAAGTTT-GAGGGTTA
* * * * *
72278 AAAAT-GAGGTTTTTGGAAG-TTCGGGGGTAAAAATGGAATTTTTGGGAGTTCGAGGGTAAAAAT
1 AAAATGGA-ATTTTTGGAAGTTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAAT
* *
72341 GGAATTTTTGGAAGTTTTAGGGTTA
65 GGGATTTTTGGAAGTTTGAGGGTTA
* * *
72366 AAAAT-GAGATTTTTGGAAGTTTT-GGGGTTAAAATAGAATTTTTGGAAGTTTTGGGGTCAAAAA
1 AAAATGGA-ATTTTTGGAAGTTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGT-AAAAA
* *
72429 TGGGATTTTTGAAAGTTCGAGGG-TA
64 TGGGATTTTTGGAAGTTTGAGGGTTA
* * *
72454 AAAATGGAATTTTTGGGAG--TTCGGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTTAAAAAT
1 AAAATGGAATTTTTGGAAGTTTTGGGGGTAAAAATGGAATTTTTGGAAG-TTTGGGGGTAAAAAT
72517 GGGATTTTTGGAAGTTT
65 GGGATTTTTGGAAGTTT
72534 TGGGGTAAAG
Statistics
Matches: 293, Mismatches: 42, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
86 2 0.01
87 74 0.25
88 168 0.57
89 49 0.17
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (89 bp):
AAAATGGAATTTTTGGAAGTTTTGGGGGTAAAAATGGAATTTTTGGAAGTTTGGGGGTAAAAATG
GGATTTTTGGAAGTTTGAGGGTTA
Found at i:72557 original size:29 final size:29
Alignment explanation
Indices: 72100--72542 Score: 477
Period size: 30 Copynumber: 15.1 Consensus size: 29
72090 ACTCGGGACC
*
72100 AAAATGGTAATTTTTGGAAGTTTCGGGGGTA
1 AAAATGG-AATTTTTGGAAGTTT-TGGGGTA
*
72131 AAAATGGAATTTTTGGAAGTTTTGAGGTTA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTA
* *
72161 AAAATGGGATTTTTGGGAG-TTTGAGGGT-
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTA
* * *
72189 AAAATGGAATTTTTGAAAGTTTTAAGGTTA
1 AAAATGGAATTTTTGGAAGTTTT-GGGGTA
* * **
72219 AAATTGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGGGGTA
* *
72248 AAAATGGAATTTTTGGAAGTTTCGAGGTTA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTA
* **
72278 AAAAT-GAGGTTTTTGGAAGTTCGGGGGTA
1 AAAATGGA-ATTTTTGGAAGTTTTGGGGTA
* *
72307 AAAATGGAATTTTTGGGAG-TTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTA
*
72336 AAAATGGAATTTTTGGAAGTTTTAGGGTTA
1 AAAATGGAATTTTTGGAAGTTTT-GGGGTA
*
72366 AAAAT-GAGATTTTTGGAAGTTTTGGGGTT
1 AAAATGGA-ATTTTTGGAAGTTTTGGGGTA
*
72395 AAAATAGAATTTTTGGAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAGTTTTGGGGT-A
* * *
72425 AAAATGGGATTTTTGAAAG-TTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTTG-GGGTA
* *
72454 AAAATGGAATTTTTGGGAG-TTCGGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGGGGTA
72482 AAAATGGAATTTTTGGAAGTTTTGGGGTTA
1 AAAATGGAATTTTTGGAAGTTTTGGGG-TA
*
72512 AAAATGGGATTTTTGGAAGTTTTGGGGTA
1 AAAATGGAATTTTTGGAAGTTTTGGGGTA
72541 AA
1 AA
72543 GCCGAAATTT
Statistics
Matches: 350, Mismatches: 46, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
28 41 0.12
29 147 0.42
30 154 0.44
31 8 0.02
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTTGGGGTA
Found at i:73585 original size:3 final size:3
Alignment explanation
Indices: 73577--73634 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
73567 CAGTTATCAC
* *
73577 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
73625 TTA TTA TTA T
1 TTA TTA TTA T
73635 ACTTATGACC
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:74288 original size:17 final size:17
Alignment explanation
Indices: 74268--74314 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
74258 AAATGAATTT
* *
74268 TAAATTTAAATTTAAAC
1 TAAACTTAAATTTAAAA
*
74285 TAAACTTAATTTTAAAA
1 TAAACTTAAATTTAAAA
74302 TAAACTTAAATTT
1 TAAACTTAAATTT
74315 GTTGGGCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TAAACTTAAATTTAAAA
Found at i:74895 original size:168 final size:168
Alignment explanation
Indices: 74615--74947 Score: 549
Period size: 168 Copynumber: 2.0 Consensus size: 168
74605 ATCTTATCAG
* *
74615 GAAACTAATCGTTTATTGTTTCGACCTACTTCTCGGTGTCTTATCAAGAAGCTGGGATTCGAAGA
1 GAAACTAACCGTTTATTGTTTCGACCTACTTCTCGGTGTCTCATCAAGAAGCTGGGATTCGAAGA
* * * * *
74680 TTTGATTACGTCGAGCGTGGGTTTGATTTGGTTTTCTTCTTAGTATCTCATCTGGAAGATGACCG
66 TTTGATCACGTCAAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCG
74745 CATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATAAA
131 CATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATAAA
** *
74783 GAAACTAACCGTTTATTGTTTCGACCTGTTTCTCGGTGTCTCATCAGGAAGCTGGGATTCGAAGA
1 GAAACTAACCGTTTATTGTTTCGACCTACTTCTCGGTGTCTCATCAAGAAGCTGGGATTCGAAGA
*
74848 TTTGCTCACGTCAAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCG
66 TTTGATCACGTCAAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCG
* *
74913 CGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCAT
131 CATCGTTTGTTTCAATCCGCTTCTCTGCATCTCAT
74948 CAGAAAGACG
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
168 152 1.00
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (168 bp):
GAAACTAACCGTTTATTGTTTCGACCTACTTCTCGGTGTCTCATCAAGAAGCTGGGATTCGAAGA
TTTGATCACGTCAAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACCG
CATCGTTTGTTTCAATCCGCTTCTCTGCATCTCATAAA
Found at i:75125 original size:205 final size:204
Alignment explanation
Indices: 74764--75324 Score: 784
Period size: 205 Copynumber: 2.7 Consensus size: 204
74754 TTTCAATCCG
* * * * * * *
74764 CTTCTCTGCATCTCATAAAGAAACTAACCGTTTATTGTTTCGACCTGTTTCTCGGTGTCTCATCA
1 CTTCTCAGTATCTCATCAAGAAGCTAACCTTTTATTGCTTCGACCTGTCTCTCGGTGTCTCATCA
* * * *
74829 GGAAGCTGGGATTCGAAGATTTGCTCACGTCAAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTAT
66 GGAAGCTAGG-TTCGAAGATTTGCTCACATCGAGCGTGGATTTGATTTGGTCTTCTTCTCAGTAT
*
74894 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCCGCTTCTCTGTATCTCATCAGAAAGACGA
130 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCAGCTTCTCTGTATCTCATCAGAAAGACGA
74959 ATTTAGTCCA
195 ATTTAGTCCA
* *
74969 CTTCTCAGTATCTCATCAGGAAGCTAACCTTTTATTGCTTCGACCTGTCTCTCAGTGTCTCATCA
1 CTTCTCAGTATCTCATCAAGAAGCTAACCTTTTATTGCTTCGACCTGTCTCTCGGTGTCTCATCA
* **
75034 GGAAACTATGGTTCGAAGATTTTTTCACATCGAGCGTGGATTTGATTTGGTCTTCTTCTCAGTAT
66 GGAAGCTA-GGTTCGAAGATTTGCTCACATCGAGCGTGGATTTGATTTGGTCTTCTTCTCAGTAT
* * * * *
75099 CTCATTAGGAAGATGACTGCGTCGTTTGTTTCAATTAGCTTCTCTGTATCTCATCAGGAAGATGA
130 CTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCAGCTTCTCTGTATCTCATCAGAAAGACGA
* *
75164 ATTTGGTTCA
195 ATTTAGTCCA
* *
75174 CTTCTCAATATCTTATCAAGAAGCTAACCATTTTATTGCTTCGACCTG-CTTCTCGGTGTCTCAT
1 CTTCTCAGTATCTCATCAAGAAGCTAACC-TTTTATTGCTTCGACCTGTC-TCTCGGTGTCTCAT
* *
75238 CAGGAAGCTAGAGTTCGAAGATTTGCTCATATCGAGCGT-GAGTTTAATTTGGTCTTCTTCTCAG
64 CAGGAAGCTAG-GTTCGAAGATTTGCTCACATCGAGCGTGGA-TTTGATTTGGTCTTCTTCTCAG
* *
75302 TATCTCATCTGGTAGATGACCGC
127 TATCTCATCAGGAAGATGACCGC
75325 TTTGTTGTTT
Statistics
Matches: 314, Mismatches: 37, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
205 208 0.66
206 106 0.34
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (204 bp):
CTTCTCAGTATCTCATCAAGAAGCTAACCTTTTATTGCTTCGACCTGTCTCTCGGTGTCTCATCA
GGAAGCTAGGTTCGAAGATTTGCTCACATCGAGCGTGGATTTGATTTGGTCTTCTTCTCAGTATC
TCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCAGCTTCTCTGTATCTCATCAGAAAGACGAA
TTTAGTCCA
Found at i:94560 original size:58 final size:58
Alignment explanation
Indices: 94495--94609 Score: 221
Period size: 58 Copynumber: 2.0 Consensus size: 58
94485 GAGTCTATAA
*
94495 CTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAGACAAGTTAGT
1 CTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAGT
94553 CTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAG
1 CTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAG
94610 CGAAACACAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (58 bp):
CTTCTCTTTATATGATGATGAAATGCAATGCAAAAAGAGACAAAATAAACAAGTTAGT
Found at i:96071 original size:29 final size:29
Alignment explanation
Indices: 96030--96604 Score: 517
Period size: 29 Copynumber: 19.8 Consensus size: 29
96020 ACTCGGGAGC
96030 AAAATGGTAATTTTTGGAAGTTTCGGGGGT-
1 AAAATGG-AATTTTTGGAAGTTT-GGGGGTA
* * * *
96060 AAAATGGAATTTTTGGATGTTCGTGGGTT
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
* *
96089 AAAATGGAATTTTTGAAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAGTTTGGGGGT-A
* * *
96119 AAAATGGAATTTTT--AAGAGTT-AGAGTA
1 AAAATGGAATTTTTGGAAG-TTTGGGGGTA
* **
96146 AAAATGGGATTTTTAGG-AGTTCAGGGGTA
1 AAAATGGAATTTTT-GGAAGTTTGGGGGTA
* * *
96175 AAATTGGGATTTTTAGAAGTTTGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
* *
96204 AAAATGGAATATTTGGAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAGTTTGGGGGT-A
* * **
96234 AAAATAGG-GTTTTTGGAAATTTAAGGGTA
1 AAAAT-GGAATTTTTGGAAGTTTGGGGGTA
* * *
96263 AAAATGGAATTTTTGGGAGTTCGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
* *
96292 AAAATGGAATTTTTGGAAGTTTTGGGGTT
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
* *
96321 AAAAT-GAGATTTTTGGAAGTTCGAGGGTA
1 AAAATGGA-ATTTTTGGAAGTTTGGGGGTA
* * * *
96350 AAAATGGATTTTTTAGAAGTTTTAGGGTTA
1 AAAATGGAATTTTTGGAAG-TTTGGGGGTA
**
96380 AAAATTGG-ATTTTTGGAAGTTTTAGGGTCA
1 AAAA-TGGAATTTTTGGAAGTTTGGGGGT-A
*
96410 AAAATGGAATTTTTGGAAG-TTCGGGGTA
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
*
96438 AAAATGGAATTTTTGGAAGTTTCGGGGTAA
1 AAAATGGAATTTTTGGAAGTTTGGGGGT-A
* *
96468 AAAATGG-GTTTTTGGAAGTTTGAGGGTA
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
*
96496 AAAATGGAATTTTTGGGAGTTT-GGGGT-
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
* * * *
96523 AAAATGGAAGTTTTGAAAGTTTTAGGGTTA
1 AAAATGGAATTTTTGGAAG-TTTGGGGGTA
* *
96553 AAAATGGGATTTTTGGAAGTTCGGGGGTA
1 AAAATGGAATTTTTGGAAGTTTGGGGGTA
* *
96582 AAAACGGATTTTTTGGATAGTTT
1 AAAATGGAATTTTTGGA-AGTTT
96605 AGGGACCTTC
Statistics
Matches: 443, Mismatches: 78, Indels: 48
0.78 0.14 0.08
Matches are distributed among these distances:
27 30 0.07
28 52 0.12
29 249 0.56
30 107 0.24
31 5 0.01
ACGTcount: A:0.31, C:0.02, G:0.30, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGGAAGTTTGGGGGTA
Found at i:96157 original size:27 final size:29
Alignment explanation
Indices: 96118--96189 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 29
96108 TTTTGGGGTC
*
96118 AAAAATGGAATTTTTAAGAGTT-A-GAGT
1 AAAAATGGGATTTTTAAGAGTTCAGGAGT
* *
96145 AAAAATGGGATTTTTAGGAGTTCAGGGGT
1 AAAAATGGGATTTTTAAGAGTTCAGGAGT
*
96174 AAAATTGGGATTTTTA
1 AAAAATGGGATTTTTA
96190 GAAGTTTGGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 20 0.51
28 1 0.03
29 18 0.46
ACGTcount: A:0.38, C:0.01, G:0.26, T:0.35
Consensus pattern (29 bp):
AAAAATGGGATTTTTAAGAGTTCAGGAGT
Found at i:96349 original size:146 final size:144
Alignment explanation
Indices: 96030--96608 Score: 624
Period size: 146 Copynumber: 4.0 Consensus size: 144
96020 ACTCGGGAGC
* * * *
96030 AAAATGGTAATTTTTGGAAGTTTCGGGGGT-AAAATGGAATTTTTGGATGTTCGTGGGTTAAAAT
1 AAAATGG--ATTTTTGGAAG-TTCGAGGGTAAAAATGGAATTTTTGGAAGTTTG-GGGTAAAAAT
* * * *
96094 GGAATTTTTGAAAGTTTTGGGGTCAAAAATGGAATTTTT-AAGAGTT--AGAGTAAAAATGGGAT
62 GGAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGA-AGTTCGAGGGTAAAAATGGAAT
*
96156 TTTTAGG-AGTTCAGGGG-T
126 TTTT-GGAAGTTTAGGGGTT
* * * *
96174 AAAATTGGGATTTTTAGAAGTTTGGGGGTAAAAATGGAATATTTGGAAGTTTTGGGGTCAAAAAT
1 AAAA-T-GGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAG-TTTGGGGT-AAAAAT
* * *
96239 AGG-GTTTTTGGAAA-TTTAAGGGT-AAAAATGGAATTTTTGGGAGTTCGAGGGTAAAAATGGAA
62 -GGAATTTTT-GAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAA
*
96301 TTTTTGGAAGTTTTGGGGTT
125 TTTTTGGAAGTTTAGGGGTT
* * *
96321 AAAATGAGATTTTTGGAAGTTCGAGGGTAAAAATGGATTTTTTAGAAGTTTTAGGGTTAAAAATT
1 AAAATG-GATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAG-TTT-GGGGTAAAAA-T
*
96386 GG-ATTTTTGGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTCG-GGGTAAAAATGGAATT
62 GGAATTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATT
* *
96449 TTTGGAAGTTTCGGGGTAA
127 TTTGGAAGTTTAGGGGT-T
* * *
96468 AAAATGGGTTTTTGGAAGTTTGAGGGTAAAAATGGAATTTTTGGGAGTTTGGGGT-AAAATGGAA
1 AAAATGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGGGGTAAAAATGGAA
* * * * * *
96532 GTTTTGAAAGTTTTAGGGTTAAAAATGGGATTTTTGGAAGTTCGGGGGTAAAAACGGATTTTTTG
66 TTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTG
96597 GATAGTTTAGGG
131 GA-AGTTTAGGG
96609 ACCTTCAGGG
Statistics
Matches: 373, Mismatches: 41, Indels: 41
0.82 0.09 0.09
Matches are distributed among these distances:
142 3 0.01
143 53 0.14
144 78 0.21
145 38 0.10
146 162 0.43
147 39 0.10
ACGTcount: A:0.31, C:0.02, G:0.31, T:0.36
Consensus pattern (144 bp):
AAAATGGATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTGGAAGTTTGGGGTAAAAATGGAA
TTTTTGAAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAATTTTTG
GAAGTTTAGGGGTT
Found at i:97671 original size:3 final size:3
Alignment explanation
Indices: 97663--97690 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
97653 CAGTTGTCAC
97663 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
97691 ACTTATGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:98352 original size:16 final size:16
Alignment explanation
Indices: 98323--98368 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
98313 AAATAAATTT
*
98323 TAAATTTAAATTTATAA
1 TAAA-TTAAATTTAAAA
*
98340 TAAATTAATTTTAAAA
1 TAAATTAAATTTAAAA
98356 TAAATTTAAATTT
1 TAAA-TTAAATTT
98369 GTTTAGCCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAAATTAAATTTAAAA
Found at i:99372 original size:10 final size:9
Alignment explanation
Indices: 99332--99479 Score: 66
Period size: 9 Copynumber: 15.7 Consensus size: 9
99322 ACATTTGGTA
99332 AAAATATTAT
1 AAAA-ATTAT
99342 AAAAA--AT
1 AAAAATTAT
*
99349 AAAAATCAAT
1 AAAAAT-TAT
*
99359 AAAAGTTAT
1 AAAAATTAT
99368 AAAAATTAT
1 AAAAATTAT
* *
99377 TAAATTTAAT
1 AAAAATT-AT
*
99387 AAAAAAATAT
1 -AAAAATTAT
*
99397 AAAAAATATTT
1 -AAAAAT-TAT
**
99408 AAATGTTAT
1 AAAAATTAT
* *
99417 TAAAATTAGA
1 AAAAATTA-T
*
99427 AAAAAATAT
1 AAAAATTAT
* * *
99436 AAATATAAA
1 AAAAATTAT
99445 AAAAGATTAT
1 AAAA-ATTAT
99455 AAAAATTAT
1 AAAAATTAT
*
99464 AAAAAATAT
1 AAAAATTAT
99473 ATAAAAT
1 A-AAAAT
99480 GAGTCAAAAA
Statistics
Matches: 100, Mismatches: 29, Indels: 18
0.68 0.20 0.12
Matches are distributed among these distances:
7 7 0.07
9 45 0.45
10 42 0.42
11 6 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:99397 original size:29 final size:29
Alignment explanation
Indices: 99365--99459 Score: 79
Period size: 30 Copynumber: 3.3 Consensus size: 29
99355 CAATAAAAGT
*
99365 TATAAAAATTATTAAATTTAATAAAAAAA
1 TATAAAAAATATTAAATTTAATAAAAAAA
* **
99394 TATAAAAAATATTTAAATGTTATTAAAATTA
1 TATAAAAAATA-TTAAAT-TTAATAAAAAAA
* * *
99425 GA-AAAAAATA-TAAATATAA-AAAAAGAT
1 TATAAAAAATATTAAATTTAATAAAAA-AA
99452 TATAAAAA
1 TATAAAAA
99460 TTATAAAAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
26 4 0.08
27 3 0.06
28 10 0.20
29 10 0.20
30 14 0.27
31 10 0.20
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (29 bp):
TATAAAAAATATTAAATTTAATAAAAAAA
Found at i:99410 original size:30 final size:30
Alignment explanation
Indices: 99365--99421 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
99355 CAATAAAAGT
*
99365 TATAAAAATTATTAAAT-TTAATAAAAAAA
1 TATAAAAAATATTAAATGTTAATAAAAAAA
*
99394 TATAAAAAATATTTAAATGTTATTAAAA
1 TATAAAAAATA-TTAAATGTTAATAAAA
99422 TTAGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 6 0.25
31 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (30 bp):
TATAAAAAATATTAAATGTTAATAAAAAAA
Found at i:99479 original size:19 final size:19
Alignment explanation
Indices: 99331--99493 Score: 72
Period size: 19 Copynumber: 8.4 Consensus size: 19
99321 GACATTTGGT
*
99331 AAAAATATTATAAAA-AAT-
1 AAAAATA-TATAAAATTATA
99349 AAAAATCA-ATAAAAGTTATA
1 AAAAAT-ATATAAAA-TTATA
* *
99369 AAAATTAT-TAAATTTAATAA
1 AAAAATATATAAAATT-AT-A
* *
99389 AAAAATATAAAAAATATTTA
1 AAAAATATATAAAAT-TATA
*** *
99409 AATGTTAT-TAAAATTAGA
1 AAAAATATATAAAATTATA
99427 AAAAA-ATAT-AAA-TATAA
1 AAAAATATATAAAATTAT-A
*
99444 AAAAAGATTATAAAAATTATA
1 AAAAATA-TAT-AAAATTATA
*
99465 AAAAATATATAAAATGAGTCA
1 AAAAATATATAAAATTA-T-A
99486 AAAAATAT
1 AAAAATAT
99494 TTTTAACCAT
Statistics
Matches: 108, Mismatches: 19, Indels: 33
0.68 0.12 0.21
Matches are distributed among these distances:
16 2 0.02
17 17 0.16
18 14 0.13
19 24 0.22
20 23 0.21
21 24 0.22
22 4 0.04
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATATATAAAATTATA
Found at i:99735 original size:20 final size:20
Alignment explanation
Indices: 99675--99776 Score: 77
Period size: 21 Copynumber: 5.0 Consensus size: 20
99665 GTTTTTATAA
99675 TTTTACGAATTTTAT--ATTT
1 TTTTACG-ATTTTATAAATTT
* *
99694 ATTTAC-ATTTATTTATAATTT
1 TTTTACGATTT-TATA-AATTT
* *
99715 TCTTACGACTTTATAAATTT
1 TTTTACGATTTTATAAATTT
* *
99735 TTTCTA-TATTTTATAATTTT
1 TTT-TACGATTTTATAAATTT
99755 TTTTACGATTTTTATAAATTT
1 TTTTACGA-TTTTATAAATTT
99776 T
1 T
99777 AATAAAATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
17 4 0.06
18 2 0.03
19 7 0.11
20 22 0.35
21 25 0.40
22 3 0.05
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (20 bp):
TTTTACGATTTTATAAATTT
Found at i:99736 original size:21 final size:19
Alignment explanation
Indices: 99675--99776 Score: 66
Period size: 20 Copynumber: 5.1 Consensus size: 19
99665 GTTTTTATAA
99675 TTTTACGAATTTTAT-ATTT
1 TTTTACG-ATTTTATAATTT
*
99694 ATTTAC-ATTTATTTATAATTT
1 TTTTACGA--T-TTTATAATTT
* *
99715 TCTTACGACTTTATAAATTT
1 TTTTACGATTTTAT-AATTT
*
99735 TTTCTA-TATTTTATAATTTT
1 TTT-TACGATTTTATAA-TTT
99755 TTTTACGATTTTTATAAATTT
1 TTTTACGA-TTTTAT-AATTT
99776 T
1 T
99777 AATAAAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 20
0.70 0.09 0.22
Matches are distributed among these distances:
17 1 0.02
19 15 0.23
20 25 0.39
21 20 0.31
22 3 0.05
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTACGATTTTATAATTT
Found at i:99804 original size:20 final size:20
Alignment explanation
Indices: 99781--99818 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
99771 AATTTTAATA
99781 AAATTTAA-ATATTTTTATTG
1 AAATTTAATA-ATTTTTATTG
99801 AAATTTAATAATTTTTAT
1 AAATTTAATAATTTTTAT
99819 AACTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
AAATTTAATAATTTTTATTG
Found at i:101227 original size:21 final size:21
Alignment explanation
Indices: 101202--101266 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
101192 TCAATAGAAG
101202 AATGATAAATTTTCTATTGAA
1 AATGATAAATTTTCTATTGAA
101223 AATGATAAATTTTCTATTGAA
1 AATGATAAATTTTCTATTGAA
* *
101244 AATGATAAATCTCCTATTGAA
1 AATGATAAATTTTCTATTGAA
101265 AA
1 AA
101267 GAAATAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.45, C:0.08, G:0.09, T:0.38
Consensus pattern (21 bp):
AATGATAAATTTTCTATTGAA
Found at i:103260 original size:29 final size:28
Alignment explanation
Indices: 103228--103325 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 28
103218 TTTTTTTTAT
103228 TTTATTTATTATTATATTTTTTGAAAATA
1 TTTATTTATTATTATATTTTTT-AAAATA
* *
103257 TTTATTTATTTTTACATATTTTT-AAA-A
1 TTTATTTATTATTATAT-TTTTTAAAATA
103284 TTTA-TTATTA-TAT-TTTTTTAAAATA
1 TTTATTTATTATTATATTTTTTAAAATA
* * *
103309 TTAATGTATTTTTATAT
1 TTTATTTATTATTATAT
103326 ATTTCTTTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
23 5 0.09
24 4 0.07
25 6 0.11
26 9 0.16
27 8 0.14
28 4 0.07
29 15 0.27
30 5 0.09
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATTTATTATTATATTTTTTAAAATA
Found at i:103286 original size:23 final size:23
Alignment explanation
Indices: 103260--103307 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
103250 GAAAATATTT
*
103260 ATTTATTTTTACATATTTTTAAA
1 ATTTATTATTACATATTTTTAAA
* *
103283 ATTTATTATTATATTTTTTTAAA
1 ATTTATTATTACATATTTTTAAA
103306 AT
1 AT
103308 ATTAATGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTATTATTACATATTTTTAAA
Found at i:103299 original size:52 final size:52
Alignment explanation
Indices: 103231--103329 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
103221 TTTTTATTTT
* *
103231 ATTTATTATTATATTTTTTGAAAATATTTATTTATTTTTACATATTTTTAAA
1 ATTTATTATTATATTTTTTGAAAATATTAATGTATTTTTACATATTTTTAAA
* *
103283 ATTTATTATTATATTTTTTTAAAATATTAATGTATTTTTATATATTT
1 ATTTATTATTATATTTTTTGAAAATATTAATGTATTTTTACATATTT
103330 CTTTGAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (52 bp):
ATTTATTATTATATTTTTTGAAAATATTAATGTATTTTTACATATTTTTAAA
Found at i:103310 original size:21 final size:22
Alignment explanation
Indices: 103275--103321 Score: 60
Period size: 21 Copynumber: 2.1 Consensus size: 22
103265 TTTTTACATA
*
103275 TTTTTAAAATTTATTATTATATT
1 TTTTTAAAA-TTATTAATATATT
*
103298 TTTTTAAAA-TATTAATGTATT
1 TTTTTAAAATTATTAATATATT
103319 TTT
1 TTT
103322 ATATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
23 9 0.41
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTAAAATTATTAATATATT
Found at i:103575 original size:10 final size:10
Alignment explanation
Indices: 103555--103646 Score: 61
Period size: 9 Copynumber: 9.6 Consensus size: 10
103545 AAACTTTTTA
103555 ATAAAAA-AT
1 ATAAAAATAT
103564 ATAAAAATAT
1 ATAAAAATAT
** *
103574 ATTTAAATGTT
1 ATAAAAAT-AT
*
103585 ATTAAAAT-T
1 ATAAAAATAT
* *
103594 AGAAAAAAAT
1 ATAAAAATAT
103604 ATAAAAATCAT
1 ATAAAAAT-AT
*
103615 A-AAAGAT-T
1 ATAAAAATAT
103623 ATAAAAAT-T
1 ATAAAAATAT
103632 ATAAAAA-AT
1 ATAAAAATAT
103641 ATAAAA
1 ATAAAA
103647 TGAGTCAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
8 2 0.03
9 33 0.50
10 20 0.30
11 11 0.17
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:103618 original size:19 final size:19
Alignment explanation
Indices: 103596--103646 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
103586 TTAAAATTAG
103596 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAATCAT
* * *
103615 AAAAGATTATAAAAATTAT
1 AAAAAAATATAAAAATCAT
103634 -AAAAAATATAAAA
1 AAAAAAATATAAAA
103647 TGAGTCAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAAATATAAAAATCAT
Found at i:103921 original size:19 final size:20
Alignment explanation
Indices: 103872--103942 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
103862 TTTACATTTA
*
103872 TTTAT-AATTTTCTTACGA-C
1 TTTATAAATTTT-TTACGATT
* *
103891 TTTATAAAATTTTT-CTATAT
1 TTTATAAATTTTTTACGAT-T
103911 TTTATAAATTTTTTACGATT
1 TTTATAAATTTTTTACGATT
103931 TTTATAAATTTT
1 TTTATAAATTTT
103943 AATAAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
18 2 0.05
19 7 0.16
20 31 0.72
21 3 0.07
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (20 bp):
TTTATAAATTTTTTACGATT
Found at i:103923 original size:10 final size:10
Alignment explanation
Indices: 103891--103991 Score: 59
Period size: 10 Copynumber: 10.2 Consensus size: 10
103881 TTCTTACGAC
103891 TTTATAAAATT
1 TTTAT-AAATT
* *
103902 TTTCTATA-T
1 TTTATAAATT
103911 TTTATAAATT
1 TTTATAAATT
*
103921 TTT-TACGATT
1 TTTATA-AATT
103931 TTTATAAATT
1 TTTATAAATT
* *
103941 TTAATAAA-A
1 TTTATAAATT
103950 TTTA-AATATT
1 TTTATAA-ATT
*
103960 TTTATTAAAAT
1 TTTA-TAAATT
*
103971 TTAAT-AATT
1 TTTATAAATT
*
103980 TTTATAACTT
1 TTTATAAATT
103990 TT
1 TT
103992 ATTTATTTTT
Statistics
Matches: 67, Mismatches: 15, Indels: 17
0.68 0.15 0.17
Matches are distributed among these distances:
8 2 0.03
9 20 0.30
10 32 0.48
11 11 0.16
12 2 0.03
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (10 bp):
TTTATAAATT
Found at i:103968 original size:20 final size:20
Alignment explanation
Indices: 103934--103984 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
103924 TACGATTTTT
* *
103934 ATAAATTTTAATAAAATTTA
1 ATAATTTTTATTAAAATTTA
103954 A-ATATTTTTATTAAAATTTA
1 ATA-ATTTTTATTAAAATTTA
103974 ATAATTTTTAT
1 ATAATTTTTAT
103985 AACTTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATAATTTTTATTAAAATTTA
Found at i:110343 original size:55 final size:53
Alignment explanation
Indices: 110295--110394 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
110285 TTTTAATTTT
* * *
110295 ATTTATTATTAT-TTTTTGTGAAAATATTTATTTATTTTCACATATTTTTAAA
1 ATTTATTATTATATTTTTTTGAAAATATTAATGTATTTTCACATATTTTTAAA
* * *
110347 ATTTATTATTATATTTTTTTTAAAATATTAATGTATTTTTATATATTT
1 ATTTATTATTATATTTTTTTGAAAATATTAATGTATTTTCACATATTT
110395 CTTTGAATAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
52 12 0.29
53 29 0.71
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (53 bp):
ATTTATTATTATATTTTTTTGAAAATATTAATGTATTTTCACATATTTTTAAA
Found at i:110375 original size:22 final size:23
Alignment explanation
Indices: 110339--110386 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
110329 TTTTCACATA
*
110339 TTTTTAAAATTTATTATTATATTT
1 TTTTTAAAA-TTATTAATATATTT
*
110363 TTTTTAAAA-TATTAATGTATTT
1 TTTTTAAAATTATTAATATATTT
110385 TT
1 TT
110387 ATATATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
24 9 0.41
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTTAAAATTATTAATATATTT
Found at i:114171 original size:20 final size:21
Alignment explanation
Indices: 114128--114174 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
114118 TTATAAGTAG
*
114128 TTTTAAAAAATTGATAAATAT
1 TTTTAAAAAAATGATAAATAT
*
114149 TTTTAAAAAAAT-ATATAT-T
1 TTTTAAAAAAATGATAAATAT
114168 TTTTAAA
1 TTTTAAA
114175 TATTTAACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 8 0.33
20 5 0.21
21 11 0.46
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAAATGATAAATAT
Found at i:132127 original size:49 final size:49
Alignment explanation
Indices: 132066--132226 Score: 141
Period size: 49 Copynumber: 3.3 Consensus size: 49
132056 GAAGCAAGAG
* *
132066 GGGAAATATTTAAGCTGCAATGGCGAATCCAGTACCACGAAAATACAAA
1 GGGAAAGATTTAAGATGCAATGGCGAATCCAGTACCACGAAAATACAAA
* * * * * * * *
132115 GGGAAAGGTTTAAGTTACAACGGCGAA-CCTTGTACCTCAGAAGCAT--GAA
1 GGGAAAGATTTAAGATGCAATGGCGAATCC-AGTACCAC-GAA-AATACAAA
* * *
132164 GGGAAAGATTTAA-ATCGTAATAGCGAATCCAGTACCATGAAAATACAAA
1 GGGAAAGATTTAAGAT-GCAATGGCGAATCCAGTACCACGAAAATACAAA
132213 GGGAAAGATTTAAG
1 GGGAAAGATTTAAG
132227 TTACGACGAC
Statistics
Matches: 84, Mismatches: 20, Indels: 15
0.71 0.17 0.13
Matches are distributed among these distances:
47 2 0.02
48 6 0.07
49 69 0.82
50 5 0.06
51 2 0.02
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (49 bp):
GGGAAAGATTTAAGATGCAATGGCGAATCCAGTACCACGAAAATACAAA
Found at i:132388 original size:98 final size:98
Alignment explanation
Indices: 132056--132393 Score: 399
Period size: 98 Copynumber: 3.4 Consensus size: 98
132046 TCATTACCAT
* * * * * *
132056 GAAGCAAGAGGGGAAATATTTAAGCTGCAATGGCGAATCCAGTACCACGAAAATACAAAGGGAAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGACGAATCCAGTACCATGAAAATACAAAGGGAAA
132121 GGTTTAAGTTACAACGGCGAACCTTGTACCTCA
66 GGTTTAAGTTACAACGGCGAACCTTGTACCTCA
** *
132154 GAAGCATGAAGGGAAAGATTTAAATCGTAAT-AGCGAATCCAGTACCATGAAAATACAAAGGGAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGA-CGAATCCAGTACCATGAAAATACAAAGGGAA
* * * * * *
132218 AGATTTAAGTTACGACGACGGACCTTATACCACA
65 AGGTTTAAGTTACAACGGCGAACCTTGTACCTCA
* * ** * *
132252 GAAGCTTGAAGGGAAATATTTAAGCCGCAATGGTGAATCCAGTACCATGAAAATACCAAGGAAAA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGACGAATCCAGTACCATGAAAATACAAAGGGAAA
* ** *
132317 GGTTTGAGTCGCAACGGCGAACCTTGTGCCTCA
66 GGTTTAAGTTACAACGGCGAACCTTGTACCTCA
* * * *
132350 GAAGCGTGAAGGGAAAGATCTAAGCCGCAACGACGAATCTAGTA
1 GAAGCATGAAGGGAAAGATTTAAGCCGCAATGACGAATCCAGTA
132394 TCGCGAAGAC
Statistics
Matches: 197, Mismatches: 41, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
98 197 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (98 bp):
GAAGCATGAAGGGAAAGATTTAAGCCGCAATGACGAATCCAGTACCATGAAAATACAAAGGGAAA
GGTTTAAGTTACAACGGCGAACCTTGTACCTCA
Found at i:140949 original size:22 final size:22
Alignment explanation
Indices: 140897--140951 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
140887 AAAAATTATA
*
140897 TTGCTATTTCTAGTGTGTTTTGG
1 TTGCTGTTT-TAGTGTGTTTTGG
* *
140920 TTGTTGTTTTAGTGTTGTTTT-T
1 TTGCTGTTTTAGTG-TGTTTTGG
140942 TTGCTGTTTT
1 TTGCTGTTTT
140952 GGTGCTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.05, C:0.05, G:0.24, T:0.65
Consensus pattern (22 bp):
TTGCTGTTTTAGTGTGTTTTGG
Found at i:140964 original size:21 final size:21
Alignment explanation
Indices: 140938--140978 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
140928 TTAGTGTTGT
* *
140938 TTTTTTGCTGTTTTGGTGCTA
1 TTTTTTACTATTTTGGTGCTA
*
140959 TTTTTTACTATTTTTGTGCT
1 TTTTTTACTATTTTGGTGCT
140979 GCTTTTGATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.07, C:0.10, G:0.17, T:0.66
Consensus pattern (21 bp):
TTTTTTACTATTTTGGTGCTA
Found at i:140996 original size:12 final size:12
Alignment explanation
Indices: 140981--141021 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
140971 TTTGTGCTGC
140981 TTTTGATGTTAT
1 TTTTGATGTTAT
*
140993 TTTTGTTGTTAT
1 TTTTGATGTTAT
*
141005 TTTTGCTGTTAT
1 TTTTGATGTTAT
141017 TTTTG
1 TTTTG
141022 TTGTGTTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.10, C:0.02, G:0.17, T:0.71
Consensus pattern (12 bp):
TTTTGATGTTAT
Found at i:140997 original size:23 final size:23
Alignment explanation
Indices: 140967--141022 Score: 67
Period size: 24 Copynumber: 2.4 Consensus size: 23
140957 TATTTTTTAC
*
140967 TATTTTTGTGCTGCTTTTGATGT
1 TATTTTTGTGCTACTTTTGATGT
* * *
140990 TATTTTTGTTGTTATTTTTGCTGT
1 TATTTTTG-TGCTACTTTTGATGT
141014 TATTTTTGT
1 TATTTTTGT
141023 TGTGTTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 9 0.32
24 19 0.68
ACGTcount: A:0.09, C:0.05, G:0.18, T:0.68
Consensus pattern (23 bp):
TATTTTTGTGCTACTTTTGATGT
Found at i:141012 original size:33 final size:31
Alignment explanation
Indices: 140932--141045 Score: 88
Period size: 33 Copynumber: 3.6 Consensus size: 31
140922 GTTGTTTTAG
* *
140932 TGTTGTTTTTTTGCTGTTTTGGTGCTATTTT
1 TGTTGTTTTTTTGCTGTTTTGATGTTATTTT
* *
140963 T-TACTATTTTTGTGCTGCTTTTGATGTTATTTT
1 TGT--TGTTTTTTTGCTG-TTTTGATGTTATTTT
** * *
140996 TGTTGTTATTTTTGCTGTTATTTTTGTTGTGTT
1 TGTTGTT-TTTTTGCTGTT-TTGATGTTATTTT
*
141029 TGTTG-TTATTTGCTGTT
1 TGTTGTTTTTTTGCTGTT
141046 ACTTTTGCTA
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
30 1 0.02
31 11 0.17
32 17 0.26
33 36 0.55
34 1 0.02
ACGTcount: A:0.07, C:0.06, G:0.20, T:0.67
Consensus pattern (31 bp):
TGTTGTTTTTTTGCTGTTTTGATGTTATTTT
Found at i:141052 original size:12 final size:11
Alignment explanation
Indices: 140981--141054 Score: 55
Period size: 12 Copynumber: 6.6 Consensus size: 11
140971 TTTGTGCTGC
*
140981 TTTTGATGTTA
1 TTTTGCTGTTA
*
140992 TTTTTGTTGTTA
1 -TTTTGCTGTTA
141004 TTTTTGCTGTTA
1 -TTTTGCTGTTA
*
141016 TTTT--TGTTG
1 TTTTGCTGTTA
*
141025 TGTTTGTTGTTA
1 T-TTTGCTGTTA
141037 -TTTGCTGTTA
1 TTTTGCTGTTA
141047 CTTTTGCT
1 -TTTTGCT
141055 ATTGTTTTGA
Statistics
Matches: 52, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
9 5 0.10
10 12 0.23
11 4 0.08
12 31 0.60
ACGTcount: A:0.08, C:0.05, G:0.19, T:0.68
Consensus pattern (11 bp):
TTTTGCTGTTA
Found at i:141069 original size:12 final size:12
Alignment explanation
Indices: 141054--141078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
141044 TTACTTTTGC
141054 TATTGTTTTGAT
1 TATTGTTTTGAT
141066 TATTGTTTTGAT
1 TATTGTTTTGAT
141078 T
1 T
141079 GTTGCTGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TATTGTTTTGAT
Found at i:141286 original size:21 final size:21
Alignment explanation
Indices: 141242--141287 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
141232 TAAATTTGTT
* *
141242 TATTTTTAATGTTTGTTTTAA
1 TATTTTTAATGTTTATTTGAA
141263 TATTTTTAA-GTTTATTTGATA
1 TATTTTTAATGTTTATTTGA-A
141284 TATT
1 TATT
141288 ATATATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (21 bp):
TATTTTTAATGTTTATTTGAA
Found at i:142854 original size:6 final size:6
Alignment explanation
Indices: 142843--142877 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
142833 GATATTTTTT
*
142843 TAGCCA TAGCCA TAGCCA TAGGCA TAGCCAA TAGC
1 TAGCCA TAGCCA TAGCCA TAGCCA TAGCC-A TAGC
142878 AAAAGGGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.17
Consensus pattern (6 bp):
TAGCCA
Found at i:157713 original size:24 final size:24
Alignment explanation
Indices: 157606--157704 Score: 153
Period size: 24 Copynumber: 4.1 Consensus size: 24
157596 TGTCTGGGCC
157606 CGTAAGAGCTAATCATTCTAGGCT
1 CGTAAGAGCTAATCATTCTAGGCT
* *
157630 CGTAAGAGCTAATCATTTTGGGCT
1 CGTAAGAGCTAATCATTCTAGGCT
157654 CGTAAGAGCTAATCATTCTAGGCT
1 CGTAAGAGCTAATCATTCTAGGCT
* * *
157678 CATATGAGCTAATCATTCTGGGCT
1 CGTAAGAGCTAATCATTCTAGGCT
157702 CGT
1 CGT
157705 GTTGGCTAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (24 bp):
CGTAAGAGCTAATCATTCTAGGCT
Found at i:157713 original size:48 final size:48
Alignment explanation
Indices: 157598--157704 Score: 178
Period size: 48 Copynumber: 2.2 Consensus size: 48
157588 TTAAACTCTG
* *
157598 TCTGGGCCCGTAAGAGCTAATCATTCTAGGCTCGTAAGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCATTCTAGGCTCATAAGAGCTAATCAT
* *
157646 TTTGGGCTCGTAAGAGCTAATCATTCTAGGCTCATATGAGCTAATCAT
1 TCTGGGCTCGTAAGAGCTAATCATTCTAGGCTCATAAGAGCTAATCAT
157694 TCTGGGCTCGT
1 TCTGGGCTCGT
157705 GTTGGCTAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (48 bp):
TCTGGGCTCGTAAGAGCTAATCATTCTAGGCTCATAAGAGCTAATCAT
Found at i:162118 original size:24 final size:23
Alignment explanation
Indices: 162086--162142 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
162076 TTAAACTCTG
*
162086 TCTGGGCTCATAATAGCTAATCAT
1 TCTGGGCTCA-AAGAGCTAATCAT
*
162110 TCTGGGCTCCAAAGAGGTAATCAT
1 TCTGGGCT-CAAAGAGCTAATCAT
*
162134 TTTGGGCTC
1 TCTGGGCTC
162143 GTGTTGGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 26 0.90
25 2 0.07
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
TCTGGGCTCAAAGAGCTAATCAT
Found at i:164934 original size:20 final size:19
Alignment explanation
Indices: 164906--164949 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
164896 TCAGTCTCGG
*
164906 TTTTGGATTCTTGGACCCAA
1 TTTTCGATT-TTGGACCCAA
* *
164926 TTTTCGATTTTTGATCCAA
1 TTTTCGATTTTGGACCCAA
164945 TTTTC
1 TTTTC
164950 AAGTTCAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (19 bp):
TTTTCGATTTTGGACCCAA
Found at i:168190 original size:18 final size:18
Alignment explanation
Indices: 168146--168190 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
168136 CATTTTGTAC
168146 TATTTATA-T-TATTGAA
1 TATTTATATTATATTGAA
*
168162 T-TTTTTAATTATATTGAA
1 TATTTAT-ATTATATTGAA
168180 TATTTATATTA
1 TATTTATATTA
168191 AAATTTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
15 4 0.17
16 2 0.09
17 1 0.04
18 12 0.52
19 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TATTTATATTATATTGAA
Found at i:176131 original size:73 final size:73
Alignment explanation
Indices: 176036--176183 Score: 260
Period size: 73 Copynumber: 2.0 Consensus size: 73
176026 GGCTTTACAT
176036 GATTTGAGTGAAAAAAGACTAGACTAAATAAATGGAAAAATAATAGGGGTAAAATTATGATTTTC
1 GATTTGAGTGAAAAAAGACTAGACTAAATAAATGGAAAAATAATAGGGGTAAAATTATGATTTTC
176101 CCAAAAAG
66 CCAAAAAG
* * * *
176109 GATTTGAGTGAAAGAAGACTAGATTGAATAAATGGAAAAATAATAGGGGTAAAATTGTGATTTTC
1 GATTTGAGTGAAAAAAGACTAGACTAAATAAATGGAAAAATAATAGGGGTAAAATTATGATTTTC
176174 CCAAAAAG
66 CCAAAAAG
176182 GA
1 GA
176184 CTAAATTGTG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (73 bp):
GATTTGAGTGAAAAAAGACTAGACTAAATAAATGGAAAAATAATAGGGGTAAAATTATGATTTTC
CCAAAAAG
Found at i:177458 original size:21 final size:21
Alignment explanation
Indices: 177434--177490 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
177424 GAAGAAATAT
*
177434 TTGTTTCGGTAGAAGAGTCAC
1 TTGTATCGGTAGAAGAGTCAC
* **
177455 TTGTATCGGTGGAACTGTCAC
1 TTGTATCGGTAGAAGAGTCAC
*
177476 TTGTATCAGTAGAAG
1 TTGTATCGGTAGAAG
177491 TCTGCACTAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGTATCGGTAGAAGAGTCAC
Found at i:179367 original size:27 final size:28
Alignment explanation
Indices: 179319--179376 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
179309 TGAGCATTGG
* *
179319 AATTTAGTTTTAGCTTAAAC-TTAGATT
1 AATTTAGTTTTAGATTAAACTTTAGAGT
*
179346 AATTTAG-TTTAGATTAGTACTTTAGAGT
1 AATTTAGTTTTAGATTA-AACTTTAGAGT
179374 AAT
1 AAT
179377 ATCCTTCACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 9 0.35
28 9 0.35
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (28 bp):
AATTTAGTTTTAGATTAAACTTTAGAGT
Found at i:179861 original size:26 final size:24
Alignment explanation
Indices: 179796--179862 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 24
179786 ACTTAATGAA
* *
179796 GAAACGGTGCGTTTTGGGTTTAAT
1 GAAACGGAGCATTTTGGGTTTAAT
*
179820 GAAACGGAGCACTTTGGAGTTTAAGT
1 GAAACGGAGCATTTTGG-GTTTAA-T
*
179846 TAAAC-GAGGCATTTTGG
1 GAAACGGA-GCATTTTGG
179863 TGTCTGAGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 14 0.40
25 8 0.23
26 13 0.37
ACGTcount: A:0.27, C:0.10, G:0.31, T:0.31
Consensus pattern (24 bp):
GAAACGGAGCATTTTGGGTTTAAT
Found at i:181863 original size:50 final size:50
Alignment explanation
Indices: 181679--181865 Score: 147
Period size: 50 Copynumber: 3.8 Consensus size: 50
181669 CATTTTTCCT
* * * * *
181679 TAAGTCTCCCCTCATGCGTCTAGGAGTAAGGCCTTTATTA-C---TTTTCA
1 TAAGCCTCCCC-CATGTGTTTAGGAGCAAGGACTTTATTACCATGTTTTCA
* * * *
181726 TGAGCCTCCCTCTATGTGTTTAGGAGCAAGGCCTTTATTACCATGTTTT-G
1 TAAGCCTCCC-CCATGTGTTTAGGAGCAAGGACTTTATTACCATGTTTTCA
** * *
181776 TAAGCCTCCCCACATGCATCTGGGAGCAAGGTA-TTTATTACCAT-TTTTCA
1 TAAGCCTCCCC-CATGTGTTTAGGAGCAAGG-ACTTTATTACCATGTTTTCA
181826 TAAGCCTCCTCCCATGTGTTTAGGAG-AAGAGACTTTATTA
1 TAAGCCTCC-CCCATGTGTTTAGGAGCAAG-GACTTTATTA
181866 TCTTCAGTGA
Statistics
Matches: 110, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
47 32 0.29
48 2 0.02
49 9 0.08
50 61 0.55
51 6 0.05
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.35
Consensus pattern (50 bp):
TAAGCCTCCCCCATGTGTTTAGGAGCAAGGACTTTATTACCATGTTTTCA
Found at i:188421 original size:3 final size:3
Alignment explanation
Indices: 188413--188448 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
188403 TGAAAGAGAT
188413 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
188449 AACATAGTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:190993 original size:5 final size:5
Alignment explanation
Indices: 190983--191011 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
190973 TATTAAATAT
190983 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA
191012 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:194819 original size:15 final size:14
Alignment explanation
Indices: 194786--194821 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
194776 ACCAGGAAGC
194786 GAAAAAATACCCAA
1 GAAAAAATACCCAA
194800 GAAAAAATACCCAA
1 GAAAAAATACCCAA
194814 GAAAAAAT
1 GAAAAAAT
194822 CCACCTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.67, C:0.17, G:0.08, T:0.08
Consensus pattern (14 bp):
GAAAAAATACCCAA
Found at i:200694 original size:24 final size:24
Alignment explanation
Indices: 200667--200721 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
200657 CTACGAGCTT
* *
200667 AGATAGGTTAGCTC-TTATGAGCCC
1 AGATAGATTAGCTCATT-CGAGCCC
*
200691 AGATAAATTAGCTCATTCGAGCCC
1 AGATAGATTAGCTCATTCGAGCCC
200715 AGATAGA
1 AGATAGA
200722 GTTTAACTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (24 bp):
AGATAGATTAGCTCATTCGAGCCC
Found at i:204934 original size:10 final size:10
Alignment explanation
Indices: 204915--204944 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
204905 AAAATTGAGG
204915 GAAG-AAGAA
1 GAAGAAAGAA
204924 GAAGAAAGAA
1 GAAGAAAGAA
204934 GAAGAAAGAA
1 GAAGAAAGAA
204944 G
1 G
204945 GGAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (10 bp):
GAAGAAAGAA
Found at i:205039 original size:11 final size:11
Alignment explanation
Indices: 205023--205054 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
205013 ATTTTTAGAT
205023 TATGACATCAC
1 TATGACATCAC
205034 TATGACATCAC
1 TATGACATCAC
*
205045 CATGACATCA
1 TATGACATCA
205055 TTTATGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.38, C:0.28, G:0.09, T:0.25
Consensus pattern (11 bp):
TATGACATCAC
Found at i:206117 original size:32 final size:32
Alignment explanation
Indices: 206076--206547 Score: 439
Period size: 32 Copynumber: 14.8 Consensus size: 32
206066 TGAAACAATA
*
206076 TTCATAGATTGATAGCTCCTACGAGCTTATTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
206108 TTCACAGATTGATAGCTCGCTGA-GAGCTTATTG
1 TTCACAGATTGATAGCTC-CT-ACGAGCTTATTG
206141 TTCA-AGATTGATAGCTCCTACGAGCTTATTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * *
206172 TTCACATATTGGTAGCTCCTACAACCTTATTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * *
206204 TTCATATATTGACAGCTTCTACGAGCTTATTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * *
206236 TTCATAGACTGACAGCTCCTACAAGCTTATTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * *
206268 TTCATAGATTGATAGCTCCTACGAACTTACTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * *
206300 TTCACAGATTGGTAGCTCTTGCGAGCTTATTA
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * *
206332 TTCACAAATTGATAGCTCTTACGAGCTTACTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * * *
206364 TTCACAGATTGATAGCTCTTATGAGCATACTA
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * *
206396 TTCAAAGATTGATAGCTCTTATGAG-TATACTG
1 TTCACAGATTGATAGCTCCTACGAGCT-TATTG
* * * * * * * *
206428 TTTATAGATTAATAACTCTTATGAGCATACTG
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * *
206460 TTCACAGATTGATAGCTCCTATGAGCTAATTA
1 TTCACAGATTGATAGCTCCTACGAGCTTATTG
* * * *
206492 ATCACAGATTGATAGCTCTTATGAGC-AATCTG
1 TTCACAGATTGATAGCTCCTACGAGCTTAT-TG
* *
206524 TTCATAGATTGATAGCTCTTACGA
1 TTCACAGATTGATAGCTCCTACGA
206548 TTATACTATT
Statistics
Matches: 374, Mismatches: 59, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
30 1 0.00
31 19 0.05
32 337 0.90
33 16 0.04
34 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (32 bp):
TTCACAGATTGATAGCTCCTACGAGCTTATTG
Found at i:206565 original size:32 final size:32
Alignment explanation
Indices: 206076--206681 Score: 301
Period size: 32 Copynumber: 18.9 Consensus size: 32
206066 TGAAACAATA
* * *
206076 TTCATAGATTGATAGCTCCTACGAGCT-TATTG
1 TTCACAGATTGATAGCTCTTACGAG-TATACTG
* *
206108 TTCACAGATTGATAGCTCGCTGA-GAGCT-TATTG
1 TTCACAGATTGATAGCT--CTTACGAG-TATACTG
* *
206141 TTCA-AGATTGATAGCTCCTACGAGCT-TATTG
1 TTCACAGATTGATAGCTCTTACGAG-TATACTG
* * * * * *
206172 TTCACATATTGGTAGCTCCTACAACCT-TATTG
1 TTCACAGATTGATAGCTCTTACGA-GTATACTG
* * * *
206204 TTCATATATTGACAGCT-TCTACGAGCT-TATTG
1 TTCACAGATTGATAGCTCT-TACGAG-TATACTG
* * * * * *
206236 TTCATAGACTGACAGCTCCTACAAGCT-TATTG
1 TTCACAGATTGATAGCTCTTACGAG-TATACTG
* * *
206268 TTCATAGATTGATAGCTCCTACGAACT-TACTG
1 TTCACAGATTGATAGCTCTTACG-AGTATACTG
* * * *
206300 TTCACAGATTGGTAGCTCTTGCGAGCT-TATTA
1 TTCACAGATTGATAGCTCTTACGAG-TATACTG
*
206332 TTCACAAATTGATAGCTCTTACGAGCT-TACTG
1 TTCACAGATTGATAGCTCTTACGAG-TATACTG
* * *
206364 TTCACAGATTGATAGCTCTTATGAGCATACTA
1 TTCACAGATTGATAGCTCTTACGAGTATACTG
* *
206396 TTCAAAGATTGATAGCTCTTATGAGTATACTG
1 TTCACAGATTGATAGCTCTTACGAGTATACTG
* * * * * *
206428 TTTATAGATTAATAACTCTTATGAGCATACTG
1 TTCACAGATTGATAGCTCTTACGAGTATACTG
* * * *
206460 TTCACAGATTGATAGCTCCTATGAGCTA-ATTA
1 TTCACAGATTGATAGCTCTTACGAG-TATACTG
* * *
206492 ATCACAGATTGATAGCTCTTATGAGCA-ATCTG
1 TTCACAGATTGATAGCTCTTACGAGTATA-CTG
* * *
206524 TTCATAGATTGATAGCTCTTACGATTATACTA
1 TTCACAGATTGATAGCTCTTACGAGTATACTG
* * * * *
206556 TTCAAAGATTAATAACTCTTACTAGCATACTG
1 TTCACAGATTGATAGCTCTTACGAGTATACTG
* * * * *
206588 TTCATAGATTAATAACT-TATACGAATATATTGG
1 TTCACAGATTGATAGCTCT-TACGAGTATACT-G
* * *
206621 GT-ACTA-ATTGGTTAGCTCTTACGAGCATACTG
1 TTCAC-AGATT-GATAGCTCTTACGAGTATACTG
* * * * *
206653 TTCATAGATTAATAACTCATACGAATATA
1 TTCACAGATTGATAGCTCTTACGAGTATA
206682 TTGGGTACTA
Statistics
Matches: 458, Mismatches: 95, Indels: 42
0.77 0.16 0.07
Matches are distributed among these distances:
30 2 0.00
31 18 0.04
32 398 0.87
33 37 0.08
34 3 0.01
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (32 bp):
TTCACAGATTGATAGCTCTTACGAGTATACTG
Found at i:206565 original size:64 final size:64
Alignment explanation
Indices: 206076--206681 Score: 394
Period size: 64 Copynumber: 9.5 Consensus size: 64
206066 TGAAACAATA
* * * * *
206076 TTCATAGATTGATAGCTCCTACGAGCT-TATTGTTCACAGATTGATAGCTCGCTGA-GAGCTTAT
1 TTCATAGATTGATAGCTCTTACGA-CTATACTGTTCACAGATTGATAGCT--CTTATGAGCATAC
206139 TG
63 TG
* * * * * ** * * *
206141 TTCA-AGATTGATAGCTCCTACGAGCT-TATTGTTCACATATTGGTAGCTCCTACAACCTTATTG
1 TTCATAGATTGATAGCTCTTACGA-CTATACTGTTCACAGATTGATAGCTCTTATGAGCATACTG
* * * * * * * ** * *
206204 TTCATATATTGACAGCT-TCTACGAGCT-TATTGTTCATAGACTGACAGCTCCTACAAGCTTATT
1 TTCATAGATTGATAGCTCT-TACGA-CTATACTGTTCACAGATTGATAGCTCTTATGAGCATACT
206267 G
64 G
* * ** * * *
206268 TTCATAGATTGATAGCTCCTACGAACT-TACTGTTCACAGATTGGTAGCTCTTGCGAGCTTATTA
1 TTCATAGATTGATAGCTCTTACG-ACTATACTGTTCACAGATTGATAGCTCTTATGAGCATACTG
* * *
206332 TTCACAAATTGATAGCTCTTACGAGCT-TACTGTTCACAGATTGATAGCTCTTATGAGCATACTA
1 TTCATAGATTGATAGCTCTTACGA-CTATACTGTTCACAGATTGATAGCTCTTATGAGCATACTG
* * * * * * *
206396 TTCAAAGATTGATAGCTCTTATGAGTATACTGTTTATAGATTAATAACTCTTATGAGCATACTG
1 TTCATAGATTGATAGCTCTTACGACTATACTGTTCACAGATTGATAGCTCTTATGAGCATACTG
* * * * **
206460 TTCACAGATTGATAGCTCCTATGAGCTA-ATTAATCACAGATTGATAGCTCTTATGAGCA-ATCT
1 TTCATAGATTGATAGCTCTTACGA-CTATACTGTTCACAGATTGATAGCTCTTATGAGCATA-CT
206523 G
64 G
* * * * *
206524 TTCATAGATTGATAGCTCTTACGATTATACTATTCAAAGATTAATAACTCTTACT-AGCATACTG
1 TTCATAGATTGATAGCTCTTACGACTATACTGTTCACAGATTGATAGCTCTTA-TGAGCATACTG
* * * * * * *
206588 TTCATAGATTAATAACT-TATACGAATATATTGGGT-ACTA-ATTGGTTAGCTCTTACGAGCATA
1 TTCATAGATTGATAGCTCT-TACGACTATACT-GTTCAC-AGATT-GATAGCTCTTATGAGCATA
206650 CTG
62 CTG
* * * *
206653 TTCATAGATTAATAACTCATACGAATATA
1 TTCATAGATTGATAGCTCTTACGACTATA
206682 TTGGGTACTA
Statistics
Matches: 448, Mismatches: 75, Indels: 36
0.80 0.13 0.06
Matches are distributed among these distances:
62 2 0.00
63 18 0.04
64 373 0.83
65 55 0.12
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (64 bp):
TTCATAGATTGATAGCTCTTACGACTATACTGTTCACAGATTGATAGCTCTTATGAGCATACTG
Found at i:206654 original size:65 final size:65
Alignment explanation
Indices: 206571--206716 Score: 247
Period size: 65 Copynumber: 2.2 Consensus size: 65
206561 AGATTAATAA
* * *
206571 CTCTTACTAGCATACTGTTCATAGATTAATAACTTATACGAATATATTGGGTACTAATTGGTTAG
1 CTCTTACGAGCATACTGTTCATAGATTAATAACTCATACGAATATATTGGGTACTAAATGGTTAG
206636 CTCTTACGAGCATACTGTTCATAGATTAATAACTCATACGAATATATTGGGTACTAAATGGTTAG
1 CTCTTACGAGCATACTGTTCATAGATTAATAACTCATACGAATATATTGGGTACTAAATGGTTAG
* *
206701 CTCTTATGAGCTTACT
1 CTCTTACGAGCATACT
206717 ATGAAAATTA
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
65 76 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (65 bp):
CTCTTACGAGCATACTGTTCATAGATTAATAACTCATACGAATATATTGGGTACTAAATGGTTAG
Found at i:217089 original size:18 final size:18
Alignment explanation
Indices: 217068--217115 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
217058 GTCCTTGCAT
*
217068 TTGTGGTTGCAAGCTTGA
1 TTGTGGTTGCAAGCGTGA
* * *
217086 TTGTGGTGGTAATCGTGA
1 TTGTGGTTGCAAGCGTGA
217104 TTGTGGTTGCAA
1 TTGTGGTTGCAA
217116 TTAACTATGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.35, T:0.40
Consensus pattern (18 bp):
TTGTGGTTGCAAGCGTGA
Found at i:231674 original size:17 final size:18
Alignment explanation
Indices: 231654--231691 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
231644 AGTTTTAATT
231654 CATTTT-TATTATCACTG
1 CATTTTATATTATCACTG
* *
231671 CATTTTATTTTGTCACTG
1 CATTTTATATTATCACTG
231689 CAT
1 CAT
231692 CATTTTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.21, C:0.18, G:0.08, T:0.53
Consensus pattern (18 bp):
CATTTTATATTATCACTG
Found at i:236377 original size:15 final size:16
Alignment explanation
Indices: 236357--236388 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
236347 TATCATAAAT
236357 TTTTTCTT-CTTTTTC
1 TTTTTCTTCCTTTTTC
236372 TTTTTCTTCCTTTTTC
1 TTTTTCTTCCTTTTTC
236388 T
1 T
236389 CATTTTTCTT
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:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTCTTCCTTTTTC
Found at i:242423 original size:21 final size:21
Alignment explanation
Indices: 242397--242449 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
242387 TAGTACAGAT
* *
242397 TTCTACCGATACAAGTGA-TAG
1 TTCTACCGATACAAGAGACT-C
242418 TTCTACCGATACAAGAGACTC
1 TTCTACCGATACAAGAGACTC
242439 TTCTACCGATA
1 TTCTACCGATA
242450 TAGGTTTCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 28 0.97
22 1 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGAGACTC
Found at i:243350 original size:156 final size:156
Alignment explanation
Indices: 243104--243391 Score: 414
Period size: 156 Copynumber: 1.8 Consensus size: 156
243094 ATTGGAAATC
*
243104 ATATACTCACGATGACACATAGTCAGCGGACCTCATAATCCATAAAGGATTCATATACTCACGAT
1 ATATACTCACGATGACACATAGTCAGCGGACCTCATAATCCATAAAGGATTCATATACTCACAAT
* * * * * * * *
243169 GAAAAATAGTCATCGAACCTTATAATCCGTAGAGGATTCATATTCTCATGATGAGACAAAATCAT
66 GAAAAATAGTCATCAAACCTCATAATCCATAAAAGATTCATATACTCACGATGACACAAAATCAT
243234 CGGACCTCATAATCTGTAAATCATTT
131 CGGACCTCATAATCTGTAAATCATTT
** * * * *
243260 ATATACTCACGATGACACATAGTCTTCGGATCTCATAATCCGTAAAGTATTTATATACTCACAAT
1 ATATACTCACGATGACACATAGTCAGCGGACCTCATAATCCATAAAGGATTCATATACTCACAAT
* * *
243325 GACACATAGTCATCAAACCTCATAATCCATAAAAGATTCATATACTCACGATGACACATAATCAT
66 GAAAAATAGTCATCAAACCTCATAATCCATAAAAGATTCATATACTCACGATGACACAAAATCAT
243390 CG
131 CG
243392 AGCCTATTTC
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
156 114 1.00
ACGTcount: A:0.38, C:0.22, G:0.12, T:0.28
Consensus pattern (156 bp):
ATATACTCACGATGACACATAGTCAGCGGACCTCATAATCCATAAAGGATTCATATACTCACAAT
GAAAAATAGTCATCAAACCTCATAATCCATAAAAGATTCATATACTCACGATGACACAAAATCAT
CGGACCTCATAATCTGTAAATCATTT
Found at i:243381 original size:52 final size:52
Alignment explanation
Indices: 243054--243391 Score: 338
Period size: 52 Copynumber: 6.5 Consensus size: 52
243044 TGCACTTTTG
* * * * *** *
243054 ATACTCACGATGACATAGAGTCATCGGACC-CTTAATCCATATTGGAAATCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAG-ATTCAT
* * *
243106 ATACTCACGATGACACATAGTCAGCGGACCTCATAATCCATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * * * * *
243158 ATACTCACGATGAAAAATAGTCATCGAACCTTATAATCCGTAGAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * * * * * ** *
243210 ATTCTCATGATGAGACAAAATCATCGGACCTCATAATCTGTAAATCATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
* * *
243262 ATACTCACGATGACACATAGTCTTCGGATCTCATAATCCGT-AAAGTATTTAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAG-ATTCAT
* ** *
243314 ATACTCACAATGACACATAGTCATCAAACCTCATAATCCATAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
*
243366 ATACTCACGATGACACATAATCATCG
1 ATACTCACGATGACACATAGTCATCG
243392 AGCCTATTTC
Statistics
Matches: 236, Mismatches: 47, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
51 2 0.01
52 218 0.92
53 16 0.07
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAAGATTCAT
Found at i:279944 original size:21 final size:23
Alignment explanation
Indices: 279904--279949 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
279894 TTTTCTCTCA
*
279904 TTTTCTCTCTTGTCAAACACCAT
1 TTTTCTCTCTTGTAAAACACCAT
279927 TTTTCT-TCTT-TAAAACACCAT
1 TTTTCTCTCTTGTAAAACACCAT
279948 TT
1 TT
279950 ATAAACATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 4 0.18
23 6 0.27
ACGTcount: A:0.24, C:0.26, G:0.02, T:0.48
Consensus pattern (23 bp):
TTTTCTCTCTTGTAAAACACCAT
Found at i:280567 original size:21 final size:23
Alignment explanation
Indices: 280541--280586 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
280531 ATCTACTTAT
*
280541 AAATGGTGTTTTG-AAG-AAGAA
1 AAATGGTGTTTGGCAAGAAAGAA
280562 AAATGGTGTTTGGCAAGAAAGAA
1 AAATGGTGTTTGGCAAGAAAGAA
280585 AA
1 AA
280587 TGAGAGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.55
22 3 0.14
23 7 0.32
ACGTcount: A:0.46, C:0.02, G:0.28, T:0.24
Consensus pattern (23 bp):
AAATGGTGTTTGGCAAGAAAGAA
Found at i:281664 original size:28 final size:28
Alignment explanation
Indices: 281587--281731 Score: 96
Period size: 28 Copynumber: 5.1 Consensus size: 28
281577 CCAAACCCAA
* *
281587 AATAATGCTCTTTCGATCCAG-ATACAG
1 AATAACGCTCTTTCGAGCCAGAATACAG
* * * *
281614 AATAACACTCTTTCAATCTAGAATACAG
1 AATAACGCTCTTTCGAGCCAGAATACAG
* *
281642 AGTAACGCTCTTTCGAGCCAGAATACGG
1 AATAACGCTCTTTCGAGCCAGAATACAG
** * * * *
281670 AGCAATGCTCTCTCTTGAGCCAAAATACAA
1 AATAACGCTCT-T-TCGAGCCAGAATACAG
* * *
281700 AATATA-ACTCTTTCGAGCTAGAATACAA
1 AATA-ACGCTCTTTCGAGCCAGAATACAG
281728 AATA
1 AATA
281732 TTTCTTAAGC
Statistics
Matches: 92, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
27 17 0.18
28 54 0.59
29 2 0.02
30 18 0.20
31 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
AATAACGCTCTTTCGAGCCAGAATACAG
Found at i:283337 original size:16 final size:17
Alignment explanation
Indices: 283316--283350 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
283306 TTTGAAGAGT
283316 ATTAATCTAAA-TAAAA
1 ATTAATCTAAATTAAAA
283332 ATTAATCTAAATTAAAA
1 ATTAATCTAAATTAAAA
283349 AT
1 AT
283351 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAATCTAAATTAAAA
Found at i:286647 original size:21 final size:23
Alignment explanation
Indices: 286606--286648 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
286596 TTTCTTAGAA
*
286606 TTAGGTTTTAGTTATTTTCATTC
1 TTAGGTTTTAGCTATTTTCATTC
286629 TTAGG-TTTAGCTA-TTTCATT
1 TTAGGTTTTAGCTATTTTCATT
286649 TTGTTCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 7 0.37
23 5 0.26
ACGTcount: A:0.19, C:0.09, G:0.14, T:0.58
Consensus pattern (23 bp):
TTAGGTTTTAGCTATTTTCATTC
Found at i:288550 original size:21 final size:21
Alignment explanation
Indices: 288521--288561 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
288511 AAAATGAGAG
288521 TTGACTAAGTACGCATTTACT
1 TTGACTAAGTACGCATTTACT
* *
288542 TTGATTAAGTAGGCATTTAC
1 TTGACTAAGTACGCATTTAC
288562 CAAGGGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGACTAAGTACGCATTTACT
Found at i:289771 original size:19 final size:18
Alignment explanation
Indices: 289735--289773 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
289725 TAATGAATGT
**
289735 AATTGAGGTCAATTTTAA
1 AATTGAGGTCAAAATTAA
289753 AATTGAAGGTCAAAATTAA
1 AATTG-AGGTCAAAATTAA
289772 AA
1 AA
289774 GTTATGACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (18 bp):
AATTGAGGTCAAAATTAA
Found at i:292006 original size:14 final size:14
Alignment explanation
Indices: 291987--292020 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
291977 TTTCACCAAT
*
291987 TTTTTCTTTTTTTC
1 TTTTTCTTTTCTTC
292001 TTTTTC-TTTCTTC
1 TTTTTCTTTTCTTC
292014 TTTTTCT
1 TTTTTCT
292021 CATTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTTCTTC
Found at i:292643 original size:17 final size:16
Alignment explanation
Indices: 292621--292663 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
292611 AAACTAAAAT
292621 AAATGCAATG-ACAATGA
1 AAATGCAA-GCACAAT-A
292638 AAATGCAAGCACAATA
1 AAATGCAAGCACAATA
292654 AGAATGCAAG
1 A-AATGCAAG
292664 AAAACTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.53, C:0.14, G:0.19, T:0.14
Consensus pattern (16 bp):
AAATGCAAGCACAATA
Found at i:299322 original size:16 final size:18
Alignment explanation
Indices: 299286--299324 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
299276 ATACAGACTG
299286 TTGTGGTTATGATCTTGA
1 TTGTGGTTATGATCTTGA
*
299304 TTGTGGTTGT-ATC-TGA
1 TTGTGGTTATGATCTTGA
299320 TTGTG
1 TTGTG
299325 TGACTGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 3 0.15
18 9 0.45
ACGTcount: A:0.13, C:0.05, G:0.31, T:0.51
Consensus pattern (18 bp):
TTGTGGTTATGATCTTGA
Found at i:311830 original size:84 final size:82
Alignment explanation
Indices: 311691--311856 Score: 296
Period size: 84 Copynumber: 2.0 Consensus size: 82
311681 ATATTCAATG
*
311691 ATAGTTTCCATACAAACACTATTCAATTTCCTTGTGGGTTCCGTCTCTCCCTCTCTCTCTCTCTC
1 ATAGTATCCATACAAACACTATTCAATTTCCTTGTGGGTTCCGTCTCTCCCTCTCTCTCTCTCT-
311756 ACCTTTTTTATTTTTATAT
65 -CCTTTTTTATTTTTATAT
*
311775 ATAGTATCCATACAAACACTATTCAATTTCCTTGTGGTTTCCGTCTCTCCCTCTCTCTCTCTCTC
1 ATAGTATCCATACAAACACTATTCAATTTCCTTGTGGGTTCCGTCTCTCCCTCTCTCTCTCTCTC
311840 CTTTTTTATTTTTATAT
66 CTTTTTTATTTTTATAT
311857 TATTATTCGT
Statistics
Matches: 80, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
82 18 0.22
84 62 0.77
ACGTcount: A:0.18, C:0.28, G:0.07, T:0.47
Consensus pattern (82 bp):
ATAGTATCCATACAAACACTATTCAATTTCCTTGTGGGTTCCGTCTCTCCCTCTCTCTCTCTCTC
CTTTTTTATTTTTATAT
Found at i:314654 original size:19 final size:19
Alignment explanation
Indices: 314617--314654 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
314607 CACACTTAAT
*
314617 AATATTTATATAGATATAA
1 AATATTTATATAGAAATAA
314636 AATATTTATGATA-AAATAA
1 AATATTTAT-ATAGAAATAA
314655 TTTGTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
AATATTTATATAGAAATAA
Found at i:315453 original size:16 final size:16
Alignment explanation
Indices: 315432--315475 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
315422 TGGTGGCAAT
315432 ATTTTAAAATTAAAAA
1 ATTTTAAAATTAAAAA
* **
315448 ATTTTAAAAATAAATT
1 ATTTTAAAATTAAAAA
*
315464 ATTTTATAATTA
1 ATTTTAAAATTA
315476 TTTGTGTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATTTTAAAATTAAAAA
Found at i:315929 original size:21 final size:20
Alignment explanation
Indices: 315892--315972 Score: 56
Period size: 21 Copynumber: 3.8 Consensus size: 20
315882 ATAATTGAAG
315892 TCTAAAAATCTAAAATAAAA
1 TCTAAAAATCTAAAATAAAA
* *
315912 TCTAATAAATTTACAATAAACA
1 TCTAA-AAATCTAAAATAAA-A
*
315934 GTATTAAAAATCTATAAAATCAAAA
1 -T-CTAAAAATC--TAAAAT-AAAA
*
315959 TC-AAGAATCTAAAA
1 TCTAAAAATCTAAAA
315973 GCTTGAAAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 14
0.69 0.10 0.21
Matches are distributed among these distances:
20 10 0.21
21 12 0.26
22 7 0.15
23 5 0.11
24 4 0.09
25 6 0.13
26 3 0.06
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (20 bp):
TCTAAAAATCTAAAATAAAA
Found at i:316052 original size:16 final size:15
Alignment explanation
Indices: 316007--316073 Score: 57
Period size: 16 Copynumber: 4.5 Consensus size: 15
315997 AAATTCATTG
*
316007 ATCTAAAAGCCTAAAA
1 ATCTAAAA-TCTAAAA
* *
316023 ATCTAATATTTAAAA
1 ATCTAAAATCTAAAA
*
316038 ATCCTAAAATCTAAAG
1 AT-CTAAAATCTAAAA
*
316054 A-CTAAGATCT-AAA
1 ATCTAAAATCTAAAA
316067 ATCTAAA
1 ATCTAAA
316074 TAAATAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
13 3 0.08
14 12 0.30
15 7 0.17
16 18 0.45
ACGTcount: A:0.54, C:0.15, G:0.04, T:0.27
Consensus pattern (15 bp):
ATCTAAAATCTAAAA
Found at i:319354 original size:30 final size:30
Alignment explanation
Indices: 319311--319602 Score: 189
Period size: 30 Copynumber: 9.7 Consensus size: 30
319301 TATTTTCTTT
* *
319311 AAAAATCTA-ATTTTTACCCTCGAGCTTCTA
1 AAAAAT-TACATTTTAACCCTCGAACTTCTA
* *
319341 AAAAATTACATTTTGACCCTCGAACTTCTC
1 AAAAATTACATTTTAACCCTCGAACTTCTA
* *
319371 AAAAATTACATTTTAACCCTCGAACTACTT
1 AAAAATTACATTTTAACCCTCGAACTTCTA
* * * *
319401 AAAAATCACATATTATCCCTCAAAACTTCTCAA
1 AAAAATTACATTTTAACCCTC-GAACTTCT--A
** *
319434 AAAAATTACATTTTAACCCTTAAACTT-TCC
1 AAAAATTACATTTTAACCCTCGAACTTCT-A
* * *
319464 AAAAATTACATTTTAACCC-CAAACTTTTC
1 AAAAATTACATTTTAACCCTCGAACTTCTA
* * * *
319493 TAAAATTACATTATAAACCC-CAAACTTCTT
1 AAAAATTACATT-TTAACCCTCGAACTTCTA
* * * * *
319523 TAAAATTACATTTTGACACCT-AAACTTTTC
1 AAAAATTACATTTTAAC-CCTCGAACTTCTA
* * * * *
319553 CAAAATCACATTTTCACCCTTGAACTTCTC
1 AAAAATTACATTTTAACCCTCGAACTTCTA
* * *
319583 TAAAATTATATTTTGACCCT
1 AAAAATTACATTTTAACCCT
319603 AAACTTTTCT
Statistics
Matches: 217, Mismatches: 36, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
29 26 0.12
30 161 0.74
31 7 0.03
32 6 0.03
33 17 0.08
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTACATTTTAACCCTCGAACTTCTA
Found at i:319405 original size:60 final size:60
Alignment explanation
Indices: 319311--319631 Score: 262
Period size: 60 Copynumber: 5.3 Consensus size: 60
319301 TATTTTCTTT
* * * *
319311 AAAAATCTA-ATTTTTACCCTCGAGCTTCTAAAAAATTACATTTTGACCCTCGAACTTCTC
1 AAAAAT-TACATTTTAACCCTCGAACTTCTTAAAAATTACATTTTGACCCTCAAACTTCTC
* * *
319371 AAAAATTACATTTTAACCCTCGAACTACTTAAAAATCACATATT-ATCCCTCAAAACTTCTC
1 AAAAATTACATTTTAACCCTCGAACTTCTTAAAAATTACATTTTGA-CCCTC-AAACTTCTC
** * * *
319432 AAAAAAATTACATTTTAACCCTTAAACTT-TCCAAAAATTACATTTTAACCC-CAAACTTTTC
1 --AAAAATTACATTTTAACCCTCGAACTTCT-TAAAAATTACATTTTGACCCTCAAACTTCTC
* * * * *
319493 TAAAATTACATTATAAACCC-CAAACTTCTTTAAAATTACATTTTGACACCT-AAACTTTTC
1 AAAAATTACATT-TTAACCCTCGAACTTCTTAAAAATTACATTTTGAC-CCTCAAACTTCTC
* * * * * *
319553 CAAAATCACATTTTCACCCTTGAACTTCTCT-AAAATTATATTTTGACCCT-AAACTTTTC
1 AAAAATTACATTTTAACCCTCGAACTTCT-TAAAAATTACATTTTGACCCTCAAACTTCTC
* * * *
319612 TAAAATCATATTTTCACCCT
1 AAAAATTACATTTTAACCCT
319632 AAATTTTTCC
Statistics
Matches: 219, Mismatches: 29, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
59 70 0.32
60 90 0.41
61 17 0.08
62 2 0.01
63 39 0.18
64 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (60 bp):
AAAAATTACATTTTAACCCTCGAACTTCTTAAAAATTACATTTTGACCCTCAAACTTCTC
Found at i:319518 original size:59 final size:59
Alignment explanation
Indices: 319342--319654 Score: 249
Period size: 59 Copynumber: 5.2 Consensus size: 59
319332 GAGCTTCTAA
* * * ** *
319342 AAAATTACATTTTGACCCTCGAACTTCTCAAAAATTACATTTTAACCCTCGAACTACT-T
1 AAAATTACATTTTGACCCT-AAACTTTTCTAAAATTACATTTTAACCCTTAAACTTCTCT
* * * *
319401 AAAAATCACATATT-ATCCCTCAAAACTTCTCAAAAAAATTACATTTTAACCCTTAAACTT-TCC
1 -AAAATTACATTTTGA-CCCT--AAACTTTTC--TAAAATTACATTTTAACCCTTAAACTTCT-C
*
319464 A
59 T
* * * * *
319465 AAAATTACATTTTAACCCCAAACTTTTCTAAAATTACATTATAAACCC-CAAACTTCTTT
1 AAAATTACATTTTGACCCTAAACTTTTCTAAAATTACATT-TTAACCCTTAAACTTCTCT
* * * *
319524 AAAATTACATTTTGACACCTAAACTTTTCCAAAATCACATTTTCACCCTTGAACTTCTCT
1 AAAATTACATTTTGAC-CCTAAACTTTTCTAAAATTACATTTTAACCCTTAAACTTCTCT
* * * * * * *
319584 AAAATTATATTTTGACCCTAAACTTTTCTAAAATCATATTTTCACCC-TAAATTTTTCC
1 AAAATTACATTTTGACCCTAAACTTTTCTAAAATTACATTTTAACCCTTAAACTTCTCT
*
319642 AAAATTACTTTTT
1 AAAATTACATTTT
319655 TCCCCCGAAA
Statistics
Matches: 207, Mismatches: 35, Indels: 24
0.78 0.13 0.09
Matches are distributed among these distances:
58 18 0.09
59 67 0.32
60 66 0.32
61 16 0.08
62 1 0.00
63 38 0.18
64 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTGACCCTAAACTTTTCTAAAATTACATTTTAACCCTTAAACTTCTCT
Found at i:319617 original size:29 final size:29
Alignment explanation
Indices: 319342--319654 Score: 225
Period size: 30 Copynumber: 10.4 Consensus size: 29
319332 GAGCTTCTAA
* * * *
319342 AAAATTACATTTTGACCCTCGAACTTCTCA
1 AAAATTACATTTTAACCCT-AAACTTTTCT
* * *
319372 AAAATTACATTTTAACCCTCGAACTACTT-A
1 AAAATTACATTTTAACCCT-AAACT-TTTCT
* * * * *
319402 AAAATCACATATTATCCCTCAAAACTTCTCAAA
1 AAAATTACATTTTAACCCT--AAACTTTTC--T
* *
319435 AAAATTACATTTTAACCCTTAAACTTTCCA
1 AAAATTACATTTTAACCC-TAAACTTTTCT
*
319465 AAAATTACATTTTAACCCCAAACTTTTCT
1 AAAATTACATTTTAACCCTAAACTTTTCT
* *
319494 AAAATTACATTATAAACCCCAAACTTCTT-T
1 AAAATTACATT-TTAACCCTAAACTT-TTCT
* *
319524 AAAATTACATTTTGACACCTAAACTTTTCC
1 AAAATTACATTTTAAC-CCTAAACTTTTCT
* * * *
319554 AAAATCACATTTTCACCCTTGAACTTCTCT
1 AAAATTACATTTTAACCC-TAAACTTTTCT
* *
319584 AAAATTATATTTTGACCCTAAACTTTTCT
1 AAAATTACATTTTAACCCTAAACTTTTCT
* * * * *
319613 AAAATCATATTTTCACCCTAAATTTTTCC
1 AAAATTACATTTTAACCCTAAACTTTTCT
*
319642 AAAATTACTTTTT
1 AAAATTACATTTT
319655 TCCCCCGAAA
Statistics
Matches: 232, Mismatches: 40, Indels: 23
0.79 0.14 0.08
Matches are distributed among these distances:
29 70 0.30
30 131 0.56
31 7 0.03
32 7 0.03
33 16 0.07
34 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTAAACTTTTCT
Found at i:319736 original size:29 final size:29
Alignment explanation
Indices: 319662--319761 Score: 123
Period size: 30 Copynumber: 3.5 Consensus size: 29
319652 TTTTCCCCCG
* *
319662 AAAATTACCATTTGA-CCTCAAACATCTA
1 AAAATTACCATTTTACCCTCAAACATCCA
*
319690 AAAATTACCATTATTACCCTCGAACATCCA
1 AAAATTACCATT-TTACCCTCAAACATCCA
**
319720 AAAATTACCATTTTACCCTCAAATTTCCA
1 AAAATTACCATTTTACCCTCAAACATCCA
*
319749 AAAATCA-CATTTT
1 AAAATTACCATTTT
319762 TAACTTCAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
28 18 0.29
29 22 0.35
30 23 0.37
ACGTcount: A:0.41, C:0.26, G:0.02, T:0.31
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTCAAACATCCA
Found at i:319762 original size:29 final size:30
Alignment explanation
Indices: 319662--319780 Score: 111
Period size: 29 Copynumber: 4.1 Consensus size: 30
319652 TTTTCCCCCG
* ** *
319662 AAAATTACCA-TTTGA-CCTCAAACATCTA
1 AAAATTACCATTTTTACCCTCAAATTTCCA
* * **
319690 AAAATTACCATTATTACCCTCGAACATCCA
1 AAAATTACCATTTTTACCCTCAAATTTCCA
319720 AAAATTACCA-TTTTACCCTCAAATTTCCA
1 AAAATTACCATTTTTACCCTCAAATTTCCA
* * *
319749 AAAATCA-CATTTTTAACTTCAAATTTCCA
1 AAAATTACCATTTTTACCCTCAAATTTCCA
319778 AAA
1 AAA
319781 GTTTGATTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 12 0.16
29 44 0.57
30 21 0.27
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAATTACCATTTTTACCCTCAAATTTCCA
Found at i:323298 original size:16 final size:18
Alignment explanation
Indices: 323267--323299 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
323257 GAAAAATAAC
323267 TAACCACTTGTAAGACTT
1 TAACCACTTGTAAGACTT
323285 TAACCA-TT-TAAGACT
1 TAACCACTTGTAAGACT
323300 GACACCTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (18 bp):
TAACCACTTGTAAGACTT
Found at i:325129 original size:17 final size:16
Alignment explanation
Indices: 325091--325142 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
325081 AAAAATAAAT
*
325091 AAAAAAA-GAAAGAAAA
1 AAAAAAAGGAAA-AAGA
325107 ATAAAAAAGGAAACAAGA
1 A-AAAAAAGGAAA-AAGA
325125 AAAAAAGAGGAAAAAGA
1 AAAAAA-AGGAAAAAGA
325142 A
1 A
325143 GAGGTCGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 1 0.03
17 16 0.52
18 14 0.45
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAAAGGAAAAAGA
Found at i:325130 original size:18 final size:17
Alignment explanation
Indices: 325080--325142 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 17
325070 CGGATTCGAT
* *
325080 GAAAAATAAATAAAAAAA
1 GAAAAAGAAA-AAAAAAG
325098 GAAAGAA-AAATAAAAAAG
1 GAAA-AAGAAA-AAAAAAG
*
325116 GAAACAAGAAAAAAAGAG
1 GAAA-AAGAAAAAAAAAG
325134 GAAAAAGAA
1 GAAAAAGAA
325143 GAGGTCGAGG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
17 5 0.12
18 30 0.75
19 5 0.12
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.05
Consensus pattern (17 bp):
GAAAAAGAAAAAAAAAG
Found at i:326200 original size:49 final size:50
Alignment explanation
Indices: 326085--326292 Score: 197
Period size: 50 Copynumber: 4.2 Consensus size: 50
326075 AAGATTTAAA
* * * * * *
326085 GGGAAAAGTTGAGGCCACAACGGCAAACCCGGTACCATAGGAGATGTGAT
1 GGGAAAGGTTGAGGCCGCGACGGCGAATCCGGTACCATAGAAGATGTGAT
* * * *
326135 GGG-AAGGATTAAGGCCGTGACGGCGAATTCGGTACCAT-GAAGTTGTGAT
1 GGGAAAGG-TTGAGGCCGCGACGGCGAATCCGGTACCATAGAAGATGTGAT
* * * * *
326184 GGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCGACGGCGAATCCGGTACCATAGAAGATGTGAT
* * * * *
326234 GAGAATGATTGAGGTCGCGACGGCGAATCCGGTACCAT-GAAGCTGTGAT
1 GGGAAAGGTTGAGGCCGCGACGGCGAATCCGGTACCATAGAAGATGTGAT
*
326283 GGTAAAGGTT
1 GGGAAAGGTT
326293 AAGGTAGCAA
Statistics
Matches: 122, Mismatches: 33, Indels: 7
0.75 0.20 0.04
Matches are distributed among these distances:
49 53 0.43
50 69 0.57
ACGTcount: A:0.30, C:0.17, G:0.34, T:0.19
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCGCGACGGCGAATCCGGTACCATAGAAGATGTGAT
Found at i:326214 original size:99 final size:99
Alignment explanation
Indices: 326085--326325 Score: 295
Period size: 99 Copynumber: 2.4 Consensus size: 99
326075 AAGATTTAAA
* * * * *
326085 GGGAAAAGTTGAGGCCACAACGGCAAACCCGGTACCATAGGAGATGTGATGGGAAGGATTAAGGC
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGTGATGAGAAGGATTAAGGC
* * *
326150 CGTGACGGCGAATTCGGTACCATGAAGTTGTGAT
66 CGCGACGGCGAATCCGGTACCATGAAGCTGTGAT
* * * * * *
326184 GGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTGATGAGAATGATTGAGGT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGTGATGAGAAGGATTAAGGC
326249 CGCGACGGCGAATCCGGTACCATGAAGCTGTGAT
66 CGCGACGGCGAATCCGGTACCATGAAGCTGTGAT
* * ** * *
326283 GGTAAAGGTTAAGGTAGCAATGGCGAACCTGGTACCAT-GAAGA
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGA
326326 GTTGAAGGAA
Statistics
Matches: 119, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
98 5 0.04
99 114 0.96
ACGTcount: A:0.31, C:0.17, G:0.34, T:0.18
Consensus pattern (99 bp):
GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATAGAAGATGTGATGAGAAGGATTAAGGC
CGCGACGGCGAATCCGGTACCATGAAGCTGTGAT
Found at i:326308 original size:49 final size:48
Alignment explanation
Indices: 326086--326351 Score: 194
Period size: 49 Copynumber: 5.4 Consensus size: 48
326076 AGATTTAAAG
* * * * * *
326086 GGAAAAGTTGAGGCCACAACGGCAAACCCGGTACCATAGGAGATGTGAT
1 GGAAAGGTTGAGGTCGCAACGGCGAATCCGGTACCAT-GAAGATGTGAT
* * * ** * *
326135 GGGAAGGATTAAGGCCGTGACGGCGAATTCGGTACCATGAAGTTGTGAT
1 GGAAAGG-TTGAGGTCGCAACGGCGAATCCGGTACCATGAAGATGTGAT
* * * * *
326184 GGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCTTAGAAGATGTGAT
1 -GGAAAGGTTGAGGTCGCAACGGCGAATCCGGTACCAT-GAAGATGTGAT
* * * *
326234 GAGAATGATTGAGGTCGCGACGGCGAATCCGGTACCATGAAGCTGTGAT
1 G-GAAAGGTTGAGGTCGCAACGGCGAATCCGGTACCATGAAGATGTGAT
* * * *
326283 GGTAAAGGTTAAGGTAGCAATGGCGAA-CCTGGTACCATGAAGA-GTTGAA
1 GG-AAAGGTTGAGGTCGCAACGGCGAATCC-GGTACCATGAAGATG-TGAT
*
326332 GGAAAATGTTGAGGTCGCAA
1 GG-AAAGGTTGAGGTCGCAA
326352 AGACGAACCT
Statistics
Matches: 168, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
48 4 0.02
49 97 0.58
50 67 0.40
ACGTcount: A:0.31, C:0.17, G:0.33, T:0.19
Consensus pattern (48 bp):
GGAAAGGTTGAGGTCGCAACGGCGAATCCGGTACCATGAAGATGTGAT
Found at i:326876 original size:155 final size:156
Alignment explanation
Indices: 326637--326976 Score: 468
Period size: 155 Copynumber: 2.2 Consensus size: 156
326627 CACAGTCATC
**
326637 CGATCTTTTACCCCGAGCCTGAAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCATGGGGCA
1 CGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCATGGGGCA
* * * * *
326702 GATCACAATCATCAAATCTTTTACCTCGAGCATGGGGCAGATCA-CATCAACCAATCTCTAATCC
66 GATCACAACCATCAAATCTTTTACCCCGAGCATGGGGCAAATCACCATAAACCAATCTCTAACCC
326766 TGAGCTTGGGGCAAATAGCAGCCATT
131 TGAGCTTGGGGCAAATAGCAGCCATT
* * *
326792 CGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGTCAATCTCTTACCTCGAGCCTGGGGCA
1 CGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCATGGGGCA
* ** * * *
326857 GAT-AGTAACCATCCGATCTTTTACCCCGAGCCTGGGGCAAATCACCATAAACTAATCTCTTACC
66 GATCA-CAACCATCAAATCTTTTACCCCGAGCATGGGGCAAATCACCATAAACCAATCTCTAACC
* *
326921 CTGAGCTTGGGGCAGATTGCAGCCATT
130 CTGAGCTTGGGGCAAATAGCAGCCATT
* * *
326948 CGATATTTTACCCTGAGCTTGGGGCAGAT
1 CGATCTTTTACCCCGAGCCTGGGGCAGAT
326977 TGCAGCCATT
Statistics
Matches: 162, Mismatches: 21, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
154 1 0.01
155 95 0.59
156 66 0.41
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (156 bp):
CGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTACCCCGAGCATGGGGCA
GATCACAACCATCAAATCTTTTACCCCGAGCATGGGGCAAATCACCATAAACCAATCTCTAACCC
TGAGCTTGGGGCAAATAGCAGCCATT
Found at i:327014 original size:195 final size:195
Alignment explanation
Indices: 326764--327171 Score: 642
Period size: 195 Copynumber: 2.1 Consensus size: 195
326754 AATCTCTAAT
* * *
326764 CCTGAGCTTGGGGCAAATAGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCA
1 CCTGAGCTTGGGGCAGATAGCAGCCATTCGACCTTTTACCCCGAGCCTAGGGCAGATCACCATCA
*
326829 GTCAATCTCTTACC-TCGAGCCTGGGGCAGATAGTAACCATCCGATCTTTTACCCCGAGCCTGGG
66 GCCAATCTCTTACCAT-GAGCCTGGGGCAGATAGTAACCATCCGATCTTTTACCCCGAGCCTGGG
*
326893 GCAAATCACCA-TAAACTAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGCCAT-TCGATATTT
130 GCAAATCACCACT-AACCAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGCCATCT-GATATTT
326956 TAC
193 TAC
*
326959 CCTGAGCTTGGGGCAGATTGCAGCCATTCGACCTTTTACCCCGAGCCTAGGGCAGATCACCATCA
1 CCTGAGCTTGGGGCAGATAGCAGCCATTCGACCTTTTACCCCGAGCCTAGGGCAGATCACCATCA
* * * *
327024 GCCAATCTCTTACCATGAGCTTGGGGCAGATTGTAGCCATCCGATCTTTTACCCCGAGCTTGGGG
66 GCCAATCTCTTACCATGAGCCTGGGGCAGATAGTAACCATCCGATCTTTTACCCCGAGCCTGGGG
* * *
327089 CAAATCACCACTAGCCAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGTCATCTGATCTTTTAC
131 CAAATCACCACTAACCAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGCCATCTGATATTTTAC
*
327154 CTTGAGCTTGGGGCAGAT
1 CCTGAGCTTGGGGCAGAT
327172 CACCATCAGC
Statistics
Matches: 196, Mismatches: 14, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
195 193 0.98
196 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (195 bp):
CCTGAGCTTGGGGCAGATAGCAGCCATTCGACCTTTTACCCCGAGCCTAGGGCAGATCACCATCA
GCCAATCTCTTACCATGAGCCTGGGGCAGATAGTAACCATCCGATCTTTTACCCCGAGCCTGGGG
CAAATCACCACTAACCAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGCCATCTGATATTTTAC
Found at i:327256 original size:78 final size:78
Alignment explanation
Indices: 326962--327265 Score: 436
Period size: 78 Copynumber: 3.9 Consensus size: 78
326952 ATTTTACCCT
* * *
326962 GAGCTTGGGGCAGATTGCAGCCATTCGACCTTTTACCCCGAGCCTAGGGCAGATCACCATCAGCC
1 GAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCC
327027 AATCTCTTACCAT-
66 AATCTCTTACC-TC
* * *
327040 GAGCTTGGGGCAGATTGTAGCCATCCGATCTTTTACCCCGAGCTTGGGGCAAATCACCA-CTAGC
1 GAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATC-AGC
327104 CAATCTCTTACC-C
65 CAATCTCTTACCTC
* **
327117 TGAGCTTGGGGCAGATTGCAGTCA-TCTGATCTTTTACCTTGAGCTTGGGGCAGATCACCATCAG
1 -GAGCTTGGGGCAGATTGCAGCCATTC-GATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAG
327181 CCAATCTCTTACCTC
64 CCAATCTCTTACCTC
* * *
327196 GAGCTTGGGACAGATTGCAGCCATTCGATCTTTTGCCCCGAGCTTGGGGTAGATCACCATCAGCC
1 GAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCC
327261 AATCT
66 AATCT
327266 TTAGATTGCA
Statistics
Matches: 201, Mismatches: 18, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
77 2 0.01
78 195 0.97
79 4 0.02
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (78 bp):
GAGCTTGGGGCAGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGGGGCAGATCACCATCAGCC
AATCTCTTACCTC
Found at i:327266 original size:39 final size:39
Alignment explanation
Indices: 326617--327267 Score: 390
Period size: 39 Copynumber: 16.7 Consensus size: 39
326607 ACCTCGATCA
* * *
326617 TGGGGCAGATCA-CAGTCATCCGATCTTTTACCCCGAGCC
1 TGGGGCAGATCACCA-TCAGCCAATCTTTTACCCCGAGCT
** * *
326656 TGAAGCAGATCACCATCAGCCAATCTCTTACCCCGAGCA
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
* * * * *
326695 TGGGGCAGATCACAATCATCAAATCTTTTACCTCGAGCA
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
* * * * *
326734 TGGGGCAGATCA-CATCAACCAATCTCTAATCCTGAGCT
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
* * * ** * *
326772 TGGGGCAAAT-AGCAGCCATTCGATCTTTTACCCCGAGCC
1 TGGGGCAGATCACCA-TCAGCCAATCTTTTACCCCGAGCT
* * * *
326811 TGGGGCAGATCACCATCAGTCAATCTCTTACCTCGAGCC
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
** * * * *
326850 TGGGGCAGAT-AGTAACCATCCGATCTTTTACCCCGAGCC
1 TGGGGCAGATCA-CCATCAGCCAATCTTTTACCCCGAGCT
* * * * * *
326889 TGGGGCAAATCACCATAAACTAATCTCTTACCCTGAGCT
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
* *
326928 TGGGGCAGATTGCAGCCATTC-G---ATATTTTACCCTGAGCT
1 TGGGGCAGA-T-CA-CCA-TCAGCCAATCTTTTACCCCGAGCT
* *
326967 TGGGGCAGATTGCAGCCATTC-G---ACCTTTTACCCCGAGCC
1 TGGGGCAGA-T-CA-CCA-TCAGCCAATCTTTTACCCCGAGCT
* * **
327006 TAGGGCAGATCACCATCAGCCAATCTCTTACCATGAGCT
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
* *
327045 TGGGGCAGATTGTAGCCAT---CCGATCTTTTACCCCGAGCT
1 TGGGGCAGA-T-CA-CCATCAGCCAATCTTTTACCCCGAGCT
* * *
327084 TGGGGCAAATCACCA-CTAGCCAATCTCTTACCCTGAGCT
1 TGGGGCAGATCACCATC-AGCCAATCTTTTACCCCGAGCT
** * ** **
327123 TGGGGCAGAT-TGCAGTCATCTGATCTTTTACCTTGAGCT
1 TGGGGCAGATCACCA-TCAGCCAATCTTTTACCCCGAGCT
* *
327162 TGGGGCAGATCACCATCAGCCAATCTCTTACCTCGAGCT
1 TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
* *
327201 TGGGACAGATTGCAGCCATTC-G---ATCTTTTGCCCCGAGCT
1 TGGGGCAGA-T-CA-CCA-TCAGCCAATCTTTTACCCCGAGCT
*
327240 TGGGGTAGATCACCATCAGCCAATCTTT
1 TGGGGCAGATCACCATCAGCCAATCTTT
327268 AGATTGCAGT
Statistics
Matches: 475, Mismatches: 105, Indels: 64
0.74 0.16 0.10
Matches are distributed among these distances:
35 4 0.01
36 11 0.02
37 6 0.01
38 34 0.07
39 389 0.82
40 12 0.03
41 5 0.01
42 11 0.02
43 3 0.01
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
TGGGGCAGATCACCATCAGCCAATCTTTTACCCCGAGCT
Found at i:327267 original size:117 final size:117
Alignment explanation
Indices: 326600--327265 Score: 498
Period size: 117 Copynumber: 5.7 Consensus size: 117
326590 GAAAATGTCG
* * ** * **
326600 ATCTCTTACCTCGATCATGGGGCAGATCACAGTCATCCGATCTTTTACCCCGAGCCTGAAGCAGA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
* * * * *
326665 TCACCATCAGCCAATCTCTTACCCCGAGCATGGGGCAGATCACAATCATCAA
66 TCACCATCAGCCAATCTCTTACCCTGAGCTTGGGGCAGATCACCATCAGCCA
* * ** * * * * * * * * *
326717 ATCTTTTACCTCGAGCATGGGGCAGATCACA-TCAACCAATCTCTAATCCTGAGCTTGGGGCAAA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
* * ** * * * * *
326781 T-AGCAGCCATTCGATCTTTTACCCCGAGCCTGGGGCAGATCACCATCAGTCA
66 TCACCA-TCAGCCAATCTCTTACCCTGAGCTTGGGGCAGATCACCATCAGCCA
* * * * *
326833 ATCTCTTACCTCGAGCCTGGGGCAGATAGTAACCATCCGATCTTTTACCCCGAGCCTGGGGCAAA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
* * *
326898 TCACCATAAACTAATCTCTTACCCTGAGCTTGGGGCAGATTGCAGCCATTC-G--A
66 TCACCATCAGCCAATCTCTTACCCTGAGCTTGGGGCAGA-T-CA-CCA-TCAGCCA
* * *
326951 TAT-T-TTACC-CTGAGCTTGGGGCAGATTGCAGCCATTCGACCTTTTACCCCGAGCCTAGGGCA
1 -ATCTCTTACCTC-GAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCA
* * *
327013 GATCACCATCAGCCAATCTCTTACCATGAGCTTGGGGCAGATTGTAGCCAT---CCG
64 GATCACCATCAGCCAATCTCTTACCCTGAGCTTGGGGCAGA-T-CA-CCATCAGCCA
* * * * * * *
327067 ATCTTTTACCCCGAGCTTGGGGCA-AAT-CA-CCACTAGCCAATCTCTTACCCTGAGCTTGGGGC
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCA-T--CCGATCTTTTACCCCGAGCCTGGGGC
** * ** * *
327129 AGAT-TGCAGTCATCTGATCTTTTACCTTGAGCTTGGGGCAGATCACCATCAGCCA
63 AGATCACCA-TCAGCCAATCTCTTACCCTGAGCTTGGGGCAGATCACCATCAGCCA
* * * * *
327184 ATCTCTTACCTCGAGCTTGGGACAGATTGCAGCCATTCGATCTTTTGCCCCGAGCTTGGGGTAGA
1 ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
327249 TCACCATCAGCCAATCT
66 TCACCATCAGCCAATCT
327266 TTAGATTGCA
Statistics
Matches: 432, Mismatches: 92, Indels: 50
0.75 0.16 0.09
Matches are distributed among these distances:
114 7 0.02
115 9 0.02
116 94 0.22
117 295 0.68
118 11 0.03
119 7 0.02
120 7 0.02
121 2 0.00
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (117 bp):
ATCTCTTACCTCGAGCTTGGGGCAGATTGCAGCCATCCGATCTTTTACCCCGAGCCTGGGGCAGA
TCACCATCAGCCAATCTCTTACCCTGAGCTTGGGGCAGATCACCATCAGCCA
Found at i:329328 original size:25 final size:25
Alignment explanation
Indices: 329300--329373 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 25
329290 GTGCCCAAAA
329300 ATTTTAAATAATTTTCACTTTAGTC
1 ATTTTAAATAATTTTCACTTTAGTC
* * * *
329325 ATTTGAAATAA-TTT-ATTTTAAATA
1 ATTTTAAATAATTTTCACTTT-AGTC
329349 ATTTTAAATAATTTTCACTTTAGTC
1 ATTTTAAATAATTTTCACTTTAGTC
329374 CCTTTAGTCC
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
23 4 0.11
24 15 0.39
25 15 0.39
26 4 0.11
ACGTcount: A:0.36, C:0.08, G:0.04, T:0.51
Consensus pattern (25 bp):
ATTTTAAATAATTTTCACTTTAGTC
Found at i:329352 original size:10 final size:10
Alignment explanation
Indices: 329339--329363 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
329329 GAAATAATTT
329339 ATTTTAAATA
1 ATTTTAAATA
329349 ATTTTAAATA
1 ATTTTAAATA
329359 ATTTT
1 ATTTT
329364 CACTTTAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
ATTTTAAATA
Found at i:329491 original size:30 final size:30
Alignment explanation
Indices: 329433--329690 Score: 131
Period size: 30 Copynumber: 8.5 Consensus size: 30
329423 TATTTTATTT
* * *
329433 AAAAATCCCATTTTTACCC-CTAAGCTTCTC
1 AAAAATCACATTTTAACCCTC-AAACTTCTC
* * * *
329463 AAGAATTATATTTTAACCCTCAAACTTCTT
1 AAAAATCACATTTTAACCCTCAAACTTCTC
* *
329493 AAAAATCACATTTTAACACTTAAACTTCTC
1 AAAAATCACATTTTAACCCTCAAACTTCTC
* *
329523 AAAAATCACATTTTGACCCCAAACTTCCCTAAACTTCTT
1 AAAAATCACATTTT-A-ACC---C-T--C-AAACTTCTC
* * **
329562 AAAAATTACCTTTTATACCT-AAACTT-TCC
1 AAAAATCACATTTTAACCCTCAAACTTCT-C
* *
329591 AAAAATTACATTTTAACCCAT-AAAATTCTC
1 AAAAATCACATTTTAACCC-TCAAACTTCTC
* * *
329621 TAAAATTACATTTTGATCCCT--AACTTCTTC
1 AAAAATCACATTTT-AACCCTCAAACTTC-TC
*
329651 -AAAATTACATTTTAACCC-CAAACTT-TC
1 AAAAATCACATTTTAACCCTCAAACTTCTC
329678 -AAAATCACATTTT
1 AAAAATCACATTTT
329691 TTACCCTAAA
Statistics
Matches: 180, Mismatches: 31, Indels: 37
0.73 0.12 0.15
Matches are distributed among these distances:
27 14 0.08
28 5 0.03
29 45 0.25
30 82 0.46
31 7 0.04
32 1 0.01
33 1 0.01
34 1 0.01
35 1 0.01
36 1 0.01
37 1 0.01
38 1 0.01
39 20 0.11
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (30 bp):
AAAAATCACATTTTAACCCTCAAACTTCTC
Found at i:329524 original size:60 final size:59
Alignment explanation
Indices: 329431--329690 Score: 158
Period size: 59 Copynumber: 4.3 Consensus size: 59
329421 CTTATTTTAT
* * * * * * *
329431 TTAAAAATCCCATTTTTACCCCTAAGCTTCTCAAGAATTATATTTTAACCCTCAAACTTC
1 TTAAAAATCACATTTTAACACCTAAACTTCTCAAAAATCACATTTTAACCC-CAAACTTC
*
329491 TTAAAAATCACATTTTAACACTTAAACTTCTCAAAAATCACATTTTGACCCCAAACTTCCCTAAA
1 TTAAAAATCACATTTTAACACCTAAACTTCTCAAAAATCACATTTT-------AAC--CCC-AAA
329556 CTTC
56 CTTC
* * * * * *
329560 TTAAAAATTACCTTTT-ATACCTAAACTT-TCCAAAAATTACATTTTAACCCATAAAATTC
1 TTAAAAATCACATTTTAACACCTAAACTTCT-CAAAAATCACATTTTAACCC-CAAACTTC
* * *
329619 TCT-AAAATTACATTTTGATC-CCT-AACTTCTTC-AAAATTACATTTTAACCCCAAAC-T-
1 T-TAAAAATCACATTTT-AACACCTAAACTTC-TCAAAAATCACATTTTAACCCCAAACTTC
*
329675 TTCAAAATCACATTTT
1 TTAAAAATCACATTTT
329691 TTACCCTAAA
Statistics
Matches: 161, Mismatches: 21, Indels: 40
0.73 0.09 0.18
Matches are distributed among these distances:
55 1 0.01
56 13 0.08
57 1 0.01
58 3 0.02
59 44 0.27
60 43 0.27
61 4 0.02
67 4 0.02
68 25 0.16
69 23 0.14
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.36
Consensus pattern (59 bp):
TTAAAAATCACATTTTAACACCTAAACTTCTCAAAAATCACATTTTAACCCCAAACTTC
Found at i:329624 original size:69 final size:69
Alignment explanation
Indices: 329479--329624 Score: 172
Period size: 69 Copynumber: 2.1 Consensus size: 69
329469 TATATTTTAA
*
329479 CCCTCAAACTTCTTAAAAATCACATTTTAACACTTAAACTTCTCAAAAATCACATTTTGACCCCA
1 CCCT-AAACTTCTTAAAAATCACATTTTAACACTTAAACTTCTCAAAAATCACATTTTAACCCCA
*
329544 AACTT
65 AAATT
* * *
329549 CCCTAAACTTCTTAAAAATTACCTTTTATAC-C-TAAACTT-TCCAAAAATTACATTTTAACCCA
1 CCCTAAACTTCTTAAAAATCACATTTTA-ACACTTAAACTTCT-CAAAAATCACATTTTAACCC-
*
329611 TAAAATT
63 CAAAATT
*
329618 CTCTAAA
1 CCCTAAA
329625 ATTACATTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
67 1 0.02
68 25 0.38
69 34 0.52
70 6 0.09
ACGTcount: A:0.40, C:0.26, G:0.01, T:0.34
Consensus pattern (69 bp):
CCCTAAACTTCTTAAAAATCACATTTTAACACTTAAACTTCTCAAAAATCACATTTTAACCCCAA
AATT
Found at i:329658 original size:29 final size:29
Alignment explanation
Indices: 329548--329714 Score: 139
Period size: 29 Copynumber: 5.8 Consensus size: 29
329538 ACCCCAAACT
* *
329548 TCCCTAAACTTCTTAAAAATTACCTTTTA
1 TCCCTAAACTTCTTCAAAATTACATTTTA
* *
329577 TACCTAAACTT-TCCAAAAATTACATTTTA
1 TCCCTAAACTTCTTC-AAAATTACATTTTA
* *
329606 ACCCATAAAATTC-TCTAAAATTACATTTTGA
1 TCCC-TAAACTTCTTC-AAAATTACATTTT-A
329637 TCCCT-AACTTCTTCAAAATTACATTTTA
1 TCCCTAAACTTCTTCAAAATTACATTTTA
* * * *
329665 ACCCCAAAC-T-TTCAAAATCACATTTTT
1 TCCCTAAACTTCTTCAAAATTACATTTTA
*
329692 TACCCTAAACCT-TTCTAAAATTA
1 T-CCCTAAACTTCTTC-AAAATTA
329715 AAGTTCTACC
Statistics
Matches: 111, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
27 15 0.14
28 13 0.12
29 50 0.45
30 29 0.26
31 4 0.04
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.38
Consensus pattern (29 bp):
TCCCTAAACTTCTTCAAAATTACATTTTA
Done.