Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 145 of 153
Found at i:45324299 original size:13 final size:13
Alignment explanation
Indices: 45324262--45324301 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
45324252 CAACTCTGAA
*
45324262 ATTTTCGTTTTCT
1 ATTTTCGTTTTTT
*
45324275 ATTTTCTTTTTTT
1 ATTTTCGTTTTTT
45324288 ATTTTCGTTTTTT
1 ATTTTCGTTTTTT
45324301 A
1 A
45324302 AAAATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.75
Consensus pattern (13 bp):
ATTTTCGTTTTTT
Found at i:45325311 original size:17 final size:17
Alignment explanation
Indices: 45325289--45325322 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
45325279 TTCGATAATT
45325289 AATTAAAA-ATGTAAAAG
1 AATTAAAAGATG-AAAAG
45325306 AATTAAAAGATGAAAAG
1 AATTAAAAGATGAAAAG
45325323 GCTATCATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.21
Consensus pattern (17 bp):
AATTAAAAGATGAAAAG
Found at i:45328237 original size:24 final size:24
Alignment explanation
Indices: 45328205--45328254 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
45328195 TCTTTTTTTT
45328205 TTGTGGAATGCTACTCTCGCCAAA
1 TTGTGGAATGCTACTCTCGCCAAA
45328229 TTGTGGAATGCTACTCTCGCCAAA
1 TTGTGGAATGCTACTCTCGCCAAA
45328253 TT
1 TT
45328255 CTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (24 bp):
TTGTGGAATGCTACTCTCGCCAAA
Found at i:45329095 original size:17 final size:17
Alignment explanation
Indices: 45329073--45329107 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
45329063 GGCACCCTCT
45329073 GGTCTCCCAGGCTCTTA
1 GGTCTCCCAGGCTCTTA
45329090 GGTCTCCCAGGCTCTTA
1 GGTCTCCCAGGCTCTTA
45329107 G
1 G
45329108 TCGCTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.34, G:0.26, T:0.29
Consensus pattern (17 bp):
GGTCTCCCAGGCTCTTA
Found at i:45329503 original size:78 final size:78
Alignment explanation
Indices: 45329374--45329532 Score: 300
Period size: 78 Copynumber: 2.0 Consensus size: 78
45329364 TTTCGGAGGC
* *
45329374 ATTTTTGATAAAATTTCTAACTAGGGAGACTAACTTAATGTCAAACAATATATTTCTAATGCAAC
1 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
45329439 AGTAAAAGTTTTA
66 AGTAAAAGTTTTA
45329452 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
1 ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
45329517 AGTAAAAGTTTTA
66 AGTAAAAGTTTTA
45329530 ATT
1 ATT
45329533 GGAACATTTA
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (78 bp):
ATTTTTGATAAAATTTCTAACTAGAGAGACTAACTTAATGTCAAACAATATATTTCTAACGCAAC
AGTAAAAGTTTTA
Found at i:45335919 original size:25 final size:25
Alignment explanation
Indices: 45335891--45335944 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
45335881 TTAAGTGTTT
* *
45335891 TCAGTACAGCCTATCTATAGTAGTC
1 TCAGTACAGACTACCTATAGTAGTC
* * *
45335916 TCAGTATATACTACCTATAGTAGTT
1 TCAGTACAGACTACCTATAGTAGTC
45335941 TCAG
1 TCAG
45335945 GATATACTAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (25 bp):
TCAGTACAGACTACCTATAGTAGTC
Found at i:45335949 original size:25 final size:25
Alignment explanation
Indices: 45335905--45335953 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
45335895 TACAGCCTAT
*
45335905 CTATAGTAGTCTCAGTATATACTAC
1 CTATAGTAGTCTCAGGATATACTAC
*
45335930 CTATAGTAGTTTCAGGATATACTA
1 CTATAGTAGTCTCAGGATATACTA
45335954 TCAAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (25 bp):
CTATAGTAGTCTCAGGATATACTAC
Found at i:45336157 original size:25 final size:25
Alignment explanation
Indices: 45336123--45336170 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
45336113 AACCTGACTC
45336123 TGATACCACTAAATGTAACACCCTT
1 TGATACCACTAAATGTAACACCCTT
*
45336148 TGATACCACTAAATTTAACACCC
1 TGATACCACTAAATGTAACACCC
45336171 CAACTCAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.29, G:0.06, T:0.27
Consensus pattern (25 bp):
TGATACCACTAAATGTAACACCCTT
Found at i:45336855 original size:18 final size:20
Alignment explanation
Indices: 45336832--45336870 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
45336822 GGCCCATTAC
45336832 AGTAACA-ATAAT-CAGTAT
1 AGTAACAGATAATACAGTAT
*
45336850 AGTAACAGATTATACAGTAT
1 AGTAACAGATAATACAGTAT
45336870 A
1 A
45336871 CAAGTCCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 4 0.22
20 7 0.39
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AGTAACAGATAATACAGTAT
Found at i:45341316 original size:22 final size:22
Alignment explanation
Indices: 45341291--45341339 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
45341281 TCCAAGTTAG
*
45341291 ATAAAATAATTAAAATA-AATAA
1 ATAAAATAAATAAAATAGAA-AA
*
45341313 ATAAGATAAATAAAATAGAAAA
1 ATAAAATAAATAAAATAGAAAA
45341335 ATAAA
1 ATAAA
45341340 GAAGAGAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (22 bp):
ATAAAATAAATAAAATAGAAAA
Found at i:45341579 original size:27 final size:25
Alignment explanation
Indices: 45341525--45341579 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
45341515 TAAACTCTTC
* *
45341525 TAAAAGAAAACTCAAGAGAAATTCT
1 TAAAAGAAAACCCAAGAGAAATTAT
*
45341550 TAAAAGAAAAACCCAAAGAGAATTTAT
1 TAAAAG-AAAACCC-AAGAGAAATTAT
45341577 TAA
1 TAA
45341580 CTCGAAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.24
26 6 0.24
27 13 0.52
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.20
Consensus pattern (25 bp):
TAAAAGAAAACCCAAGAGAAATTAT
Found at i:45345662 original size:29 final size:30
Alignment explanation
Indices: 45345611--45345670 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
45345601 AAAATGGACA
*
45345611 GTGACGACCATGAATAATGAAAAA-GGATG
1 GTGACGACCATGAATAATAAAAAAGGGATG
*
45345640 GTGACGACCATCGAAT-TTAAAAAAGGGATG
1 GTGACGACCAT-GAATAATAAAAAAGGGATG
45345670 G
1 G
45345671 CTTCGGCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.42, C:0.12, G:0.28, T:0.18
Consensus pattern (30 bp):
GTGACGACCATGAATAATAAAAAAGGGATG
Found at i:45345694 original size:30 final size:30
Alignment explanation
Indices: 45345660--45345791 Score: 82
Period size: 30 Copynumber: 4.5 Consensus size: 30
45345650 TCGAATTTAA
45345660 AAAAGGGATGGCTTCGGCTATCAAATTATG
1 AAAAGGGATGGCTTCGGCTATCAAATTATG
**
45345690 AAAAGGGATGG-TGAGGAC-ATCAACA--ATG
1 AAAAGGGATGGCTTCGG-CTATCAA-ATTATG
* *
45345718 AAAAGGGATGG--T-GACAATAATTAAATTATG
1 AAAAGGGATGGCTTCGGC--T-ATCAAATTATG
* *
45345748 AAAAGGGATGGC-TCTGGCTATCAAAATACG
1 AAAAGGGATGGCTTC-GGCTATCAAATTATG
* *
45345778 GAAAGGGATAGCTT
1 AAAAGGGATGGCTT
45345792 GAACTATCGA
Statistics
Matches: 79, Mismatches: 11, Indels: 23
0.70 0.10 0.20
Matches are distributed among these distances:
25 1 0.01
26 1 0.01
28 15 0.19
29 12 0.15
30 45 0.57
31 3 0.04
33 2 0.03
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (30 bp):
AAAAGGGATGGCTTCGGCTATCAAATTATG
Found at i:45353094 original size:30 final size:30
Alignment explanation
Indices: 45353054--45353466 Score: 342
Period size: 30 Copynumber: 13.8 Consensus size: 30
45353044 TCATCGACTA
* *
45353054 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
45353084 ATGGAAAGGGATGGCTTCGACTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
45353114 ATGGAAAGAGATGAG-TTC-ATCTATCAAATT
1 ATGAAAAGGGATG-GCTTCGA-CTATCAAATT
**
45353144 ATGAAAAGGGATAACTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * * *
45353174 ATGAAAAGGGGTAGCTTCGGCTATCGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * **
45353204 ATGAAAAGGGATAGCTTCAACTATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
*
45353234 ATGAAAAGGGATGGCTTCGGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
45353264 ATGAAAAGGGATGG-TAACAACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGACTATCAA-ATT
* * * *
45353293 ATGAAAAGAGATGG-TCACGACCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
*
45353323 ATGACAAGGGATGGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* * *
45353353 ATGAAAAGGGATGG-TAACAACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGACTATCAA-ATT
* * *
45353382 ATGAAAAGAGATGG-TGACGACCATCAAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* * *
45353412 ATGACAAGGGATGGCTTCAACTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
** * *
45353442 ATGGGAAGGGATAGCTTCGGCTATC
1 ATGAAAAGGGATGGCTTCGACTATC
45353467 GAACTATAAA
Statistics
Matches: 317, Mismatches: 52, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.01
29 50 0.16
30 259 0.82
31 6 0.02
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCAAATT
Found at i:45353335 original size:89 final size:89
Alignment explanation
Indices: 45353229--45353453 Score: 378
Period size: 89 Copynumber: 2.5 Consensus size: 89
45353219 TTCAACTATT
* *
45353229 GAATTATGAAAAGGGATGGCTTCGGCTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
1 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
45353294 TGAAAAGAGATGGTCACGACCATC
66 TGAAAAGAGATGGTCACGACCATC
45353318 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
1 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
*
45353383 TGAAAAGAGATGGTGACGACCATC
66 TGAAAAGAGATGGTCACGACCATC
* * * **
45353407 AAATTATGACAAGGGATGGCTTCAACTATCAAAATATGGGAAGGGAT
1 GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGAT
45353454 AGCTTCGGCT
Statistics
Matches: 128, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 128 1.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (89 bp):
GAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAACAA
TGAAAAGAGATGGTCACGACCATC
Found at i:45353425 original size:119 final size:117
Alignment explanation
Indices: 45353196--45353497 Score: 290
Period size: 119 Copynumber: 2.5 Consensus size: 117
45353186 AGCTTCGGCT
* * * ** *
45353196 ATCGAATTATGAAAAGGGATAGCTTCAACTATTGAATTATGAAAAGGGATGGCT-TCGGCTATCA
1 ATCGAATTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGG-TAACAACCATCA
*
45353260 AATTATGAAAAGGGATGGTAACAACCATCAACAATGAAAAGAGATGG-TCACGACC
65 AA-TATGAAAAGAGATGGTAACAACCATCAACAATGAAAAGAGATGGCTCA--ACC
* * *
45353315 ATCGAATTATGACAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGATGGTAACAACCATCAA
1 ATCGAATTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTAACAACCATCAA
* * * * *
45353380 CA-ATGAAAAGAGATGGTGACGACCATCAA-ATTATGACAAGGGATGGCTTCAACT
66 -ATATGAAAAGAGATGGTAACAACCATCAACA--ATGAAAAGAGATGGC-TCAACC
* * ** * * *
45353434 ATCAAAATATGGGAAGGGATAGCTTCGGCTATCGAACTATAAAAAGTGGA-GGTAACAACCATCA
1 ATCGAATTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAG-GGATGGTAACAACCATCA
45353498 TGATTTCACT
Statistics
Matches: 152, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
117 1 0.01
118 25 0.16
119 119 0.78
120 4 0.03
121 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (117 bp):
ATCGAATTATGAAAAGGGATAGCTTCGACTATCGAATTATGAAAAGGGATGGTAACAACCATCAA
ATATGAAAAGAGATGGTAACAACCATCAACAATGAAAAGAGATGGCTCAACC
Found at i:45357292 original size:17 final size:17
Alignment explanation
Indices: 45357272--45357337 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
45357262 AACTGAAAAG
45357272 AAAATAAACATTATCCC
1 AAAATAAACATTATCCC
* *
45357289 AAAAAAAAAATTATCCC
1 AAAATAAACATTATCCC
* *
45357306 AAAATTAATACA-AACTCCA
1 AAAA-TAA-ACATTA-TCCC
45357325 AAAATAAACATTA
1 AAAATAAACATTA
45357338 AAAATTACAA
Statistics
Matches: 38, Mismatches: 7, Indels: 7
0.73 0.13 0.13
Matches are distributed among these distances:
17 22 0.58
18 7 0.18
19 9 0.24
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATAAACATTATCCC
Found at i:45367715 original size:41 final size:41
Alignment explanation
Indices: 45367525--45367715 Score: 228
Period size: 41 Copynumber: 4.7 Consensus size: 41
45367515 CATTGAATGT
* * *
45367525 AAGGGGCTGCTAAGTGCAG-TTCCCCGAATCACTGATCAAAA
1 AAGGGGTTGCTAAGTGCAGATTACCCGAAACACTGAT-AAAA
* * *
45367566 AA-GGGTTGCTAAATGCAGA-TACCCCAAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTACCCGAAA-CACTGATAAAA
*
45367606 AAGGGGTTGCTAAGTGCAGATT-CCCTGAAACTCTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATTACCC-GAAACACTGATAAAA
* * * *
45367647 ATGGGGTTGCTAAGTGCAAATTCCCCGAAACTCTGATAAAA
1 AAGGGGTTGCTAAGTGCAGATTACCCGAAACACTGATAAAA
45367688 AAGGGGTTGCTAAGTGCAGATTACCCGA
1 AAGGGGTTGCTAAGTGCAGATTACCCGA
45367716 GGGGTTGCTA
Statistics
Matches: 129, Mismatches: 15, Indels: 12
0.83 0.10 0.08
Matches are distributed among these distances:
40 25 0.19
41 97 0.75
42 7 0.05
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTACCCGAAACACTGATAAAA
Found at i:45367777 original size:42 final size:42
Alignment explanation
Indices: 45367718--45367823 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 42
45367708 TTACCCGAGG
* * * *
45367718 GGTTGCTAAGTGGTGATTCCATGAATTATTTATTCTAAAGTT
1 GGTTGCTAAGTGCTGATTCCACGAATTATCTATTCTAAAGGT
* * *
45367760 GGTTGGTAAGTGTTGATTCCCCGAATTATCTATTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCACGAATTATCTATTCTAAAGGT
45367802 GGTTGCTAAGTGCTGATTCCAC
1 GGTTGCTAAGTGCTGATTCCAC
45367824 CGTATCCTTG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 55 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.39
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCACGAATTATCTATTCTAAAGGT
Found at i:45369641 original size:24 final size:24
Alignment explanation
Indices: 45369608--45369661 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
45369598 GGCCGTAAGT
* *
45369608 GAATCTTTTGTTTGGTCAGTTGTAG
1 GAAT-TTTTGTTTGGCCACTTGTAG
45369633 GAATTTTTGTTTGGCCACTTGTAG
1 GAATTTTTGTTTGGCCACTTGTAG
45369657 GAATT
1 GAATT
45369662 CATTTCCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (24 bp):
GAATTTTTGTTTGGCCACTTGTAG
Found at i:45371443 original size:51 final size:52
Alignment explanation
Indices: 45371359--45371486 Score: 188
Period size: 52 Copynumber: 2.5 Consensus size: 52
45371349 CGGATACCCG
* * *
45371359 GTGGCCTGCACATAGTACCACCCTTGTAGCCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTATAGCCAAAGCTATCCTTCTTCACAAA
* *
45371410 GTGGCCTTCACATAATACCACACTTAT-GACCAAAGCTATCTTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTATAG-CCAAAGCTATCCTTCTTCACAAA
45371462 GTGGCCTTCACATAGTACCACACTT
1 GTGGCCTTCACATAGTACCACACTT
45371487 GAGTCACTAG
Statistics
Matches: 69, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 1 0.01
51 32 0.46
52 36 0.52
ACGTcount: A:0.29, C:0.31, G:0.13, T:0.27
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTATAGCCAAAGCTATCCTTCTTCACAAA
Found at i:45373433 original size:40 final size:40
Alignment explanation
Indices: 45373389--45373652 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
45373379 GCTCCTCGTT
* *
45373389 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
45373429 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
45373469 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
45373509 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
45373549 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
45373588 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
45373629 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45373653 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:45381663 original size:40 final size:40
Alignment explanation
Indices: 45381619--45381880 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
45381609 GCTCCTCGTT
* *
45381619 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
45381659 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45381699 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45381738 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
45381777 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
45381816 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
45381857 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45381881 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:45385271 original size:27 final size:27
Alignment explanation
Indices: 45385241--45385443 Score: 239
Period size: 27 Copynumber: 7.5 Consensus size: 27
45385231 GATTTGTGGG
* * *
45385241 AAAATGACCAAAATACCCTCGATGGTT
1 AAAATGACCGAAATACCCTCGAAGGGT
** *
45385268 AAAAAAATCGAAATATCCCT-GAAGGGT
1 AAAATGACCGAAATA-CCCTCGAAGGGT
* * *
45385295 GAAATGATCGAAATACCTTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
*
45385322 AAAATGACCGAAATACCCTCGAAAGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
45385349 AAAATGACCGAAATACCCTCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* *
45385376 AAAATGACCGAAATACCCTAG-AGAGT
1 AAAATGACCGAAATACCCTCGAAGGGT
* * *
45385402 AAAATGGCCGAAATACCCCCCATAGGGT
1 AAAATGACCGAAATACCCTCGA-AGGGT
45385430 AAAATGACCGAAAT
1 AAAATGACCGAAAT
45385444 GCCCCCATAG
Statistics
Matches: 149, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.16
27 104 0.70
28 21 0.14
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (27 bp):
AAAATGACCGAAATACCCTCGAAGGGT
Found at i:45385456 original size:27 final size:26
Alignment explanation
Indices: 45385289--45385464 Score: 174
Period size: 27 Copynumber: 6.5 Consensus size: 26
45385279 AATATCCCTG
* * * *
45385289 AAGGGTGAAATGATCGAAATACCTTCG
1 AAGGGTAAAATGACCGAAATACC-CCC
*
45385316 AAGGGTAAAATGACCGAAATACCCTCG
1 AAGGGTAAAATGACCGAAATACCC-CC
* *
45385343 AAAGGTAAAATGACCGAAATACCCTCG
1 AAGGGTAAAATGACCGAAATACCC-CC
*
45385370 AAGGGTAAAATGACCGAAATA-CCCT
1 AAGGGTAAAATGACCGAAATACCCCC
* *
45385395 AGAGAGTAAAATGGCCGAAATACCCCCC
1 A-AGGGTAAAATGACCGAAATA-CCCCC
*
45385423 ATAGGGTAAAATGACCGAAATGCCCCC
1 A-AGGGTAAAATGACCGAAATACCCCC
*
45385450 ATAGGGTAGAATGAC
1 A-AGGGTAAAATGAC
45385465 TGTTATACCC
Statistics
Matches: 131, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
25 2 0.02
26 20 0.15
27 88 0.67
28 21 0.16
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (26 bp):
AAGGGTAAAATGACCGAAATACCCCC
Found at i:45385456 original size:81 final size:81
Alignment explanation
Indices: 45385276--45385464 Score: 213
Period size: 81 Copynumber: 2.3 Consensus size: 81
45385266 TTAAAAAAAT
* * * * * *
45385276 CGAAATATCCCT-GAAGGGTGAAATGATCGAAATACCTTCGAAGGGTAAAATGACCGAAATACCC
1 CGAAATA-CCCTCCAAGGGTAAAATGACCGAAATACCCTAGAAGAGTAAAATGACCGAAATACCC
* *
45385340 TCGAAAGGTAAAATGAC
65 CCCAAAGGTAAAATGAC
* *
45385357 CGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCTAG-AGAGTAAAATGGCCGAAATACCCC
1 CGAAATACCCTCCAAGGGTAAAATGACCGAAATACCCTAGAAGAGTAAAATGACCGAAATACCCC
*
45385421 CCATAGGGTAAAATGAC
66 CCA-AAGGTAAAATGAC
* *
45385438 CGAAATGCCC-CCATAGGGTAGAATGAC
1 CGAAATACCCTCCA-AGGGTAAAATGAC
45385465 TGTTATACCC
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
80 29 0.31
81 64 0.69
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (81 bp):
CGAAATACCCTCCAAGGGTAAAATGACCGAAATACCCTAGAAGAGTAAAATGACCGAAATACCCC
CCAAAGGTAAAATGAC
Found at i:45387227 original size:50 final size:50
Alignment explanation
Indices: 45387055--45387346 Score: 209
Period size: 50 Copynumber: 5.8 Consensus size: 50
45387045 GGGAATGAGA
* * *
45387055 TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCATTGAGATTATGAAAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATC---GAGA-TA--AGAGG
* * * * *
45387111 TCCCATGTAAGACCATGTCT-GGATATGGTGCTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
*
45387160 TCCCATGTTAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
** * * * * * **
45387210 TCCCCCGTAAGAACATGTCTGGGACATGGC-ATGCGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTG-GCATCGAGATAAGAGG
* * * * **
45387260 TCCCATGTAAAACCATATCTGGGATC-TGACATTGGCAGTAC-AGA-AA-ACA
1 TCCCATGTAAGACCATGTCTGGGA-CATGGCGTTGGCA-T-CGAGATAAGAGG
* * *
45387309 TCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAT
45387347 GTATTATCAG
Statistics
Matches: 187, Mismatches: 42, Indels: 22
0.75 0.17 0.09
Matches are distributed among these distances:
48 2 0.01
49 55 0.29
50 87 0.47
51 6 0.03
52 5 0.03
55 12 0.06
56 20 0.11
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATAAGAGG
Found at i:45387281 original size:100 final size:101
Alignment explanation
Indices: 45387055--45387296 Score: 251
Period size: 100 Copynumber: 2.4 Consensus size: 101
45387045 GGGAATGAGA
* *
45387055 TCCCATGTAAGACCATGTCTGAGACATGGCATTGGCATCATTGAGATTATGAAAGGTCCCATGTA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC--TGAGATTA-GAAAGGTCCCACGTA
* * **
45387120 AGACCATGTCTGGATATGGTGCTGGCACCGAGATGAGAGG
63 AGAACATGTCTGGACATGGTGC-GGCACCGAGATGAGAAC
* * * *
45387160 TCCCATGTTAGACCATGTCTGGGACATGGCGTTGGCATC-GAGA-TA-AGAGGTCCCCCGTAAGA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATTAGAAAGGTCCCACGTAAGA
*
45387222 ACATGTCTGGGACATGGCATGC-GCACCGATATGAGAAC
66 ACATGTCT-GGACATGG--TGCGGCACCGAGATGAGAAC
* * *
45387260 TCCCATGTAAAACCATATCTGGGATC-TGACATTGGCA
1 TCCCATGTAAGACCATGTCTGGGA-CATGGCATTGGCA
45387297 GTACAGAAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
99 21 0.18
100 50 0.43
101 3 0.03
102 7 0.06
105 36 0.31
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (101 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCTGAGATTAGAAAGGTCCCACGTAAGA
ACATGTCTGGACATGGTGCGGCACCGAGATGAGAAC
Found at i:45387562 original size:12 final size:12
Alignment explanation
Indices: 45387545--45387583 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45387535 ATGAGTTATT
45387545 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
45387557 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
45387569 TAAGTGAGTAAG
1 TAAGTAAGCAAG
45387581 TAA
1 TAA
45387584 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:45388693 original size:28 final size:28
Alignment explanation
Indices: 45388661--45388730 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 28
45388651 GTGTTATAGG
*
45388661 CCACACTGCTACTGTATTGGGCTAAGGC
1 CCACACTGCTACTGTATCGGGCTAAGGC
*
45388689 CCACATTGCTACTGTATCGGGCTAAGGC
1 CCACACTGCTACTGTATCGGGCTAAGGC
45388717 CCACACTG-TACTGT
1 CCACACTGCTACTGT
45388731 TACTGAATAG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 6 0.15
28 33 0.85
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (28 bp):
CCACACTGCTACTGTATCGGGCTAAGGC
Found at i:45389957 original size:50 final size:50
Alignment explanation
Indices: 45389840--45390026 Score: 169
Period size: 50 Copynumber: 3.6 Consensus size: 50
45389830 GAGATACCAT
* * *
45389840 GTAAGACCATGTCTGAGACATGGCATTGGCATCATTGAGATTATGAAAGGTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCATC---GAG---ATGAGAGGTCCCAC
* *
45389896 GTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCAC
* * * * * ** *
45389946 GTAAGAACATGTCGGGGACATGGCATGGGCACCGATATGAGAACTCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCAC
* *
45389996 GTAAGACCATATCTGGGATC-TGACATTGGCA
1 GTAAGACCATGTCTGGGA-CATGGCATTGGCA
45390027 GTACAGAAAA
Statistics
Matches: 110, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
50 75 0.68
51 1 0.01
53 3 0.03
56 31 0.28
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCATCGAGATGAGAGGTCCCAC
Found at i:45390292 original size:12 final size:12
Alignment explanation
Indices: 45390275--45390313 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
45390265 ATGAGTTATT
45390275 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
45390287 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
45390299 TAAGTGAGTAAG
1 TAAGTAAGCAAG
45390311 TAA
1 TAA
45390314 AGAAGTGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:45390301 original size:20 final size:20
Alignment explanation
Indices: 45390276--45390319 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
45390266 TGAGTTATTT
45390276 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
** *
45390296 AAGTAAGTGAGTAAGTAAAG
1 AAGTAAGCAAGTAAGTAAAC
45390316 AAGT
1 AAGT
45390320 GAGTAAAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.52, C:0.05, G:0.25, T:0.18
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:45391447 original size:33 final size:33
Alignment explanation
Indices: 45391396--45391460 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
45391386 ACAGGCTCAC
* *
45391396 ACTGCTACTGTATTGGGCT-AAGGCCCACACTGT
1 ACTGCTACTGAATAGGGCTCAA-GCCCACACTGT
* *
45391429 ACTGTTACTGAATAGGGCTCAAGCCCAGACTG
1 ACTGCTACTGAATAGGGCTCAAGCCCACACTG
45391461 CTATTGCATG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.25, C:0.26, G:0.25, T:0.25
Consensus pattern (33 bp):
ACTGCTACTGAATAGGGCTCAAGCCCACACTGT
Found at i:45393560 original size:20 final size:20
Alignment explanation
Indices: 45393535--45393576 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
45393525 CTCCCTCTCA
45393535 CTTTCT-TCTATTTTTCATTT
1 CTTTCTCTCTATTTTTC-TTT
45393555 CTTTCTCTCTATTTTTCTTT
1 CTTTCTCTCTATTTTTCTTT
45393575 CT
1 CT
45393577 AGTTTTCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.07, C:0.24, G:0.00, T:0.69
Consensus pattern (20 bp):
CTTTCTCTCTATTTTTCTTT
Found at i:45395933 original size:25 final size:24
Alignment explanation
Indices: 45395856--45395936 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 24
45395846 AAGTGATCTT
*
45395856 TAGA-TGTGAAAACAACAGAAACTA
1 TAGATTGTGAAAA-AATAGAAACTA
* ** *
45395880 TAAATTGTGAAACTATAGGAAGCTA
1 TAGATTGTGAAAAAATA-GAAACTA
*
45395905 TAGATTGTGAAAAAGATAGAAACTT
1 TAGATTGTGAAAAA-ATAGAAACTA
45395930 TAGATTG
1 TAGATTG
45395937 AGACAAACTC
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
24 5 0.11
25 36 0.82
26 3 0.07
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.26
Consensus pattern (24 bp):
TAGATTGTGAAAAAATAGAAACTA
Found at i:45401580 original size:17 final size:17
Alignment explanation
Indices: 45401560--45401620 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
45401550 AATAACTAAT
45401560 ATAAATAAAATAGAAAA
1 ATAAATAAAATAGAAAA
*
45401577 ATAAATCAATGATTAGAAAA
1 ATAAAT-AA--AATAGAAAA
* * *
45401597 ATAAATAAGAGAAAAAA
1 ATAAATAAAATAGAAAA
45401614 ATAAATA
1 ATAAATA
45401621 TATGGAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
17 18 0.50
18 2 0.06
19 2 0.06
20 14 0.39
ACGTcount: A:0.70, C:0.02, G:0.08, T:0.20
Consensus pattern (17 bp):
ATAAATAAAATAGAAAA
Found at i:45401807 original size:27 final size:26
Alignment explanation
Indices: 45401777--45401827 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
45401767 AAAATATTGT
45401777 TAAACTCTTCTAAAAT-AAAACTCAAGA
1 TAAACTC-T-TAAAATAAAAACTCAAGA
*
45401804 TAAATTCTTAAAATAAAAACTCAA
1 TAAACTCTTAAAATAAAAACTCAA
45401828 AGAGAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 10 0.45
27 6 0.27
ACGTcount: A:0.55, C:0.16, G:0.02, T:0.27
Consensus pattern (26 bp):
TAAACTCTTAAAATAAAAACTCAAGA
Found at i:45401841 original size:27 final size:25
Alignment explanation
Indices: 45401787--45401841 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
45401777 TAAACTCTTC
* *
45401787 TAAAATAAAACTCAAGATAAATTCT
1 TAAAATAAAACTCAAGAGAAATTAT
*
45401812 TAAAATAAAAACTCAAAGAGAATTTAT
1 TAAAAT-AAAACTC-AAGAGAAATTAT
45401839 TAA
1 TAA
45401842 CTCAAAAGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.24
26 7 0.28
27 12 0.48
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.27
Consensus pattern (25 bp):
TAAAATAAAACTCAAGAGAAATTAT
Found at i:45406054 original size:30 final size:30
Alignment explanation
Indices: 45405860--45406253 Score: 156
Period size: 30 Copynumber: 13.2 Consensus size: 30
45405850 TGATTGACCA
* * *
45405860 ATGAAAAGGGATGGCTTGGGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
45405890 ATGGAAAA-GGATGCCTTCGACTATCAAAAT
1 AT-GAAAAGGGATGGCTTCGACTATCAAATT
* * * *
45405920 ACGGAAAGGGATAGCTT-TAGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGA-CTATCAAATT
* *** * *
45405950 ATGAGAAGGGGACAACTTTGACTATCGAATT
1 ATGA-AAAGGGATGGCTTCGACTATCAAATT
* ** ** **
45405981 ATGAAAAGGGATAGCTTTAAAAATTGAATT
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
45406011 ATGAAAAGTGATGGCTTCGACTATCAAATC
1 ATGAAAAGGGATGGCTTCGACTATCAAATT
* *
45406041 ATGAAAAGGGATGG-TAAT-GACCATTAACA--
1 ATGAAAAGGGATGGCT--TCGACTATCAA-ATT
* * * * *
45406070 ATGAAAAGAGATGG-TGACGGCCATCGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* *
45406100 ATGAAAAGGGATGG-TGACGACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGACTATCAA-ATT
* *
45406129 ATGAAAAGGGATGG-TGACGACCATCAACA--
1 ATGAAAAGGGATGGCT-TCGACTATCAA-ATT
* * **
45406158 ATGAAAAGGGATGG-TGACGACCATTGAATT
1 ATGAAAAGGGATGGCT-TCGACTATCAAATT
* *
45406188 ATGAAAATGGATGGCTTC-AGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGA-CTATCAAATT
* *
45406218 ATGGAAAGGGATAGCTTCGGA-TATCAAATT
1 ATGAAAAGGGATGGCTTC-GACTATCAAATT
45406248 AT-AAAA
1 ATGAAAA
45406254 TGGGGTGGTA
Statistics
Matches: 289, Mismatches: 57, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
28 2 0.01
29 84 0.29
30 169 0.58
31 32 0.11
32 2 0.01
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGACTATCAAATT
Found at i:45406082 original size:29 final size:29
Alignment explanation
Indices: 45406041--45406181 Score: 210
Period size: 29 Copynumber: 4.8 Consensus size: 29
45406031 CTATCAAATC
* * *
45406041 ATGAAAAGGGATGGTAATGACCATTAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* * **
45406070 ATGAAAAGAGATGGTGACGGCCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATC-AACA
45406100 ATGAAAAGGGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
45406129 ATGAAAAGGGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
45406158 ATGAAAAGGGATGGTGACGACCAT
1 ATGAAAAGGGATGGTGACGACCAT
45406182 TGAATTATGA
Statistics
Matches: 100, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
29 75 0.75
30 25 0.25
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.17
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACA
Found at i:45406104 original size:59 final size:58
Alignment explanation
Indices: 45406041--45406182 Score: 212
Period size: 59 Copynumber: 2.4 Consensus size: 58
45406031 CTATCAAATC
* * * **
45406041 ATGAAAAGGGATGGTAATGACCATTAACAATGAAAAGAGATGGTGACGGCCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATTAACAATGAAAAGAGATGGTGACGACCATC-AACA
* *
45406100 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATTAACAATGAAAAGAGATGGTGACGACCATCAACA
45406158 ATGAAAAGGGATGGTGACGACCATT
1 ATGAAAAGGGATGGTGACGACCATT
45406183 GAATTATGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
58 26 0.35
59 49 0.65
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATTAACAATGAAAAGAGATGGTGACGACCATCAACA
Found at i:45406192 original size:59 final size:58
Alignment explanation
Indices: 45406041--45406201 Score: 200
Period size: 59 Copynumber: 2.8 Consensus size: 58
45406031 CTATCAAATC
* * * * *
45406041 ATGAAAAGGGATGGTAATGACCATT-AACAATGAAAAGAGATGGTGACGGCCATCGAATT
1 ATGAAAAGGGATGGTGACGACCATTGAACAATGAAAAGGGATGGTGACGACCATC-AA-A
*
45406100 ATGAAAAGGGATGGTGACGACCA-TCAACAATGAAAAGGGATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATTGAACAATGAAAAGGGATGGTGACGACCATCAA-A
** *
45406158 ATGAAAAGGGATGGTGACGACCATTGAATTATGAAAATGGATGG
1 ATGAAAAGGGATGGTGACGACCATTGAACAATGAAAAGGGATGG
45406202 CTTCAGCTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
58 26 0.29
59 64 0.71
ACGTcount: A:0.40, C:0.12, G:0.29, T:0.19
Consensus pattern (58 bp):
ATGAAAAGGGATGGTGACGACCATTGAACAATGAAAAGGGATGGTGACGACCATCAAA
Found at i:45406214 original size:88 final size:88
Alignment explanation
Indices: 45406003--45406229 Score: 275
Period size: 88 Copynumber: 2.6 Consensus size: 88
45405993 AGCTTTAAAA
* *
45406003 ATTGAATTATGAAAAGTGATGGCTTC-GACTATCAAATCATGAAAAGGGATGGTAATGACCATTA
1 ATTGAATTATGAAAAG-GATGGCTTCAGACTATCAAAT-ATGAAAAGGGATGGTAACGACCATCA
*
45406067 ACAATGAAAAGAGATGGTGACGGCC
64 ACAATGAAAAGAGATGGTGACGACC
* * * *
45406092 ATCGAATTATGAAAAGGGATGG--TGACGACCATCAACA-ATGAAAAGGGATGGTGACGACCATC
1 ATTGAATTATGAAAA-GGATGGCTTCA-GACTATCAA-ATATGAAAAGGGATGGTAACGACCATC
*
45406154 AACAATGAAAAGGGATGGTGACGACC
63 AACAATGAAAAGAGATGGTGACGACC
*
45406180 ATTGAATTATGAAAATGGATGGCTTCAG-CTATCAAAATATGGAAAGGGAT
1 ATTGAATTATGAAAA-GGATGGCTTCAGACTATC-AAATATGAAAAGGGAT
45406230 AGCTTCGGAT
Statistics
Matches: 117, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
87 1 0.01
88 71 0.61
89 41 0.35
90 4 0.03
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.22
Consensus pattern (88 bp):
ATTGAATTATGAAAAGGATGGCTTCAGACTATCAAATATGAAAAGGGATGGTAACGACCATCAAC
AATGAAAAGAGATGGTGACGACC
Found at i:45413717 original size:30 final size:30
Alignment explanation
Indices: 45413665--45413989 Score: 201
Period size: 30 Copynumber: 10.8 Consensus size: 30
45413655 TCATCGACCA
* * *
45413665 ATGAAAATGGATGGATTTGGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
*
45413695 ATGGAAAGGGATGGCTTCGGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
* * * *
45413725 ATGGAAATGGATGGCTTCAGCTATCAAATT
1 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
** * * *
45413755 ATGAAAAAAAGATAGCTTCGACTATCAAATT
1 ATG-AAAAGGGATGGCTTCGGCTATCAAAAT
* ** * *
45413786 ATGAAAAGGGATAGCTTCAAACAATCAACA-
1 ATGAAAAGGGATGGCTTC-GGCTATCAAAAT
* * * * *
45413816 ATGAAAAGAGATGG-TGACGACTATCGAATT
1 ATGAAAAGGGATGGCT-TCGGCTATCAAAAT
* *
45413846 ATGAAAAGGGATGGCTTCGACTATCAAATT
1 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
* * * *
45413876 ATGAAAAGGGATGG-TGACGACAATCAACA-
1 ATGAAAAGGGATGGCT-TCGGCTATCAAAAT
* * * * * *
45413905 ATGAAAAGAGATGG-TGACAGCCATCGAATT
1 ATGAAAAGGGATGGCT-TCGGCTATCAAAAT
* * *
45413935 ATGAAAACGGATGACTTCAGCTATCAAAAT
1 ATGAAAAGGGATGGCTTCGGCTATCAAAAT
* * *
45413965 ATGGAAAGGGATAGCTTTGGCTATC
1 ATGAAAAGGGATGGCTTCGGCTATC
45413990 GAACAATAAA
Statistics
Matches: 233, Mismatches: 54, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
29 30 0.13
30 170 0.73
31 33 0.14
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATGGCTTCGGCTATCAAAAT
Found at i:45413931 original size:89 final size:90
Alignment explanation
Indices: 45413742--45413980 Score: 306
Period size: 89 Copynumber: 2.7 Consensus size: 90
45413732 TGGATGGCTT
* * * *
45413742 CAGCTATCAAATTATGAAAAAAAGATAGCTTCGACTATCAAATTATGAAAAGGGATAGCTTCAAA
1 CAGCTATCGAATTATG-AAAAAGGATGGCTTCGACTATCAAATTATGAAAAGGGATAGCTACAAA
45413807 CAATCAACAATGAAAAGAGATGGTGA
65 CAATCAACAATGAAAAGAGATGGTGA
* * *
45413833 C-GACTATCGAATTATGAAAAGGGATGGCTTCGACTATCAAATTATGAAAAGGGAT-GGTGAC-G
1 CAG-CTATCGAATTATGAAAAAGGATGGCTTCGACTATCAAATTATGAAAAGGGATAGCT-ACAA
45413895 ACAATCAACAATGAAAAGAGATGGTGA
64 ACAATCAACAATGAAAAGAGATGGTGA
* * * * *
45413922 CAGCCATCGAATTATGAAAACGGATGACTTC-AGCTATCAAAATATGGAAAGGGATAGCT
1 CAGCTATCGAATTATGAAAAAGGATGGCTTCGA-CTATCAAATTATGAAAAGGGATAGCT
45413981 TTGGCTATCG
Statistics
Matches: 130, Mismatches: 13, Indels: 11
0.84 0.08 0.07
Matches are distributed among these distances:
88 1 0.01
89 75 0.58
90 41 0.32
91 13 0.10
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.22
Consensus pattern (90 bp):
CAGCTATCGAATTATGAAAAAGGATGGCTTCGACTATCAAATTATGAAAAGGGATAGCTACAAAC
AATCAACAATGAAAAGAGATGGTGA
Found at i:45424046 original size:54 final size:53
Alignment explanation
Indices: 45423874--45424024 Score: 196
Period size: 54 Copynumber: 2.8 Consensus size: 53
45423864 ACAAGCGAAC
* * *
45423874 ACCATATAGTGTAATGCCTTGCCATTAGCTATGACATCATCT-GGAAATGAAG
1 ACCATATAGTGTAAGGCCTAGCCATTAGCTATGACATCATATAGGAAATGAAG
* * * * * *
45423926 ACCATATAGTGTAAGTCCTAGTCGTTAGCTACGGCGTCATATAAGGAAATGAAG
1 ACCATATAGTGTAAGGCCTAGCCATTAGCTATGACATCATAT-AGGAAATGAAG
*
45423980 ACCATATAGTGTAAGGCCTAGCCATTAGCTATAACATCATATAGG
1 ACCATATAGTGTAAGGCCTAGCCATTAGCTATGACATCATATAGG
45424025 GAAAGGACGG
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 33 0.41
53 3 0.04
54 45 0.56
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (53 bp):
ACCATATAGTGTAAGGCCTAGCCATTAGCTATGACATCATATAGGAAATGAAG
Found at i:45424238 original size:29 final size:29
Alignment explanation
Indices: 45424206--45424272 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
45424196 ACTAAATCTA
* * **
45424206 TTATATGTTAGTCTTTGTGGTTGAACCTG
1 TTATATGTGAGCCTTTGTGGCAGAACCTG
*
45424235 TTATATGTGAGCCTTTGTTGCAGAACCTG
1 TTATATGTGAGCCTTTGTGGCAGAACCTG
45424264 TTATATGTG
1 TTATATGTG
45424273 GAAGCATTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.24, T:0.45
Consensus pattern (29 bp):
TTATATGTGAGCCTTTGTGGCAGAACCTG
Found at i:45429979 original size:41 final size:41
Alignment explanation
Indices: 45429922--45430000 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
45429912 TTTAACATAT
*
45429922 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCCAA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCCAA
*
45429963 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTC
1 TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTC
45430001 AGATCAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAACCTGATTCCAA
Found at i:45441433 original size:50 final size:50
Alignment explanation
Indices: 45441308--45441493 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
45441298 GATAATAACA
* * * *
45441308 TGCCAAAGCCATGTCCCAGACATGGTCTCACATGGGATGTT-TCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* * *
45441357 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* ** ** *
45441407 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* *
45441457 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
45441494 TCTCGTTACC
Statistics
Matches: 113, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
48 4 0.04
49 36 0.32
50 73 0.65
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:45446161 original size:47 final size:47
Alignment explanation
Indices: 45446098--45446448 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
45446088 CCCTTCGGGA
* * * *
45446098 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45446145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45446192 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45446239 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45446286 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
45446333 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
45446380 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
45446429 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
45446449 GTACATCAAT
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:45452011 original size:50 final size:50
Alignment explanation
Indices: 45451886--45452125 Score: 214
Period size: 50 Copynumber: 4.7 Consensus size: 50
45451876 GATAATAACA
* * ** * * *
45451886 TGCCAAAGCCATGTCCCAGACATGGTCTCACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * **
45451935 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** *
45451985 TACCCATGCCATGTGCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
45452035 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
45452091 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG
45452126 TATCTCTTTA
Statistics
Matches: 151, Mismatches: 32, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
48 1 0.01
49 37 0.25
50 77 0.51
53 2 0.01
56 34 0.23
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:45453788 original size:35 final size:35
Alignment explanation
Indices: 45453726--45453804 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
45453716 TTTTATGTGT
*
45453726 TTTA-ATTATATAATTAATGATATTTAAA-TATAA
1 TTTATATTATATAATTAATGATAATTAAATTATAA
*
45453759 TTTATATTATATGAATTTATGATAATTAAATTATAA
1 TTTATATTATAT-AATTAATGATAATTAAATTATAA
*
45453795 -TGATATTATA
1 TTTATATTATA
45453805 GTATTAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
33 4 0.10
34 7 0.17
35 24 0.60
36 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (35 bp):
TTTATATTATATAATTAATGATAATTAAATTATAA
Found at i:45454354 original size:16 final size:17
Alignment explanation
Indices: 45454333--45454365 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
45454323 CAGGGGAGAA
45454333 AGAAAGAAA-GAAAAAG
1 AGAAAGAAAGGAAAAAG
45454349 AGAAAGAAAGGAAAAAG
1 AGAAAGAAAGGAAAAAG
45454366 TAGGGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAGGAAAAAG
Found at i:45455377 original size:45 final size:45
Alignment explanation
Indices: 45455304--45455404 Score: 136
Period size: 45 Copynumber: 2.2 Consensus size: 45
45455294 TATGCGCCGA
*
45455304 TTACTGTTACTGTTACCAATTCGACACTTTGTGTG-TCAGATAGTG
1 TTACTGTTACTGTTACCAATTCGACACTTTGTGTGTTCA-ATACTG
*
45455349 TTACCGTTACTGTTA-CAGATTC-AGCACTTTGTGTGTTCAATACTG
1 TTACTGTTACTGTTACCA-ATTCGA-CACTTTGTGTGTTCAATACTG
45455394 TTACTGTTACT
1 TTACTGTTACT
45455405 AATTACTGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
44 3 0.06
45 44 0.88
46 3 0.06
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.42
Consensus pattern (45 bp):
TTACTGTTACTGTTACCAATTCGACACTTTGTGTGTTCAATACTG
Found at i:45455413 original size:19 final size:19
Alignment explanation
Indices: 45455389--45455433 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
45455379 GTGTGTTCAA
45455389 TACTGTTACT-GTTACTAAT
1 TACTGTT-CTCGTTACTAAT
*
45455408 TACTGTTCTCGTTACTGAT
1 TACTGTTCTCGTTACTAAT
45455427 TACTGTT
1 TACTGTT
45455434 TAGGTACTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (19 bp):
TACTGTTCTCGTTACTAAT
Found at i:45459734 original size:25 final size:26
Alignment explanation
Indices: 45459706--45459764 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
45459696 CAGCTCTTAT
*
45459706 GAGCTTACCGATACTT-AGCTCAGAA
1 GAGCTTACCGATACTTCAGCTCAAAA
* **
45459731 GAGCTTA-CTATTGTTCAGCTCAAAA
1 GAGCTTACCGATACTTCAGCTCAAAA
45459756 GAGCTTACC
1 GAGCTTACC
45459765 CGGAAGAGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 5 0.18
25 22 0.79
26 1 0.04
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.27
Consensus pattern (26 bp):
GAGCTTACCGATACTTCAGCTCAAAA
Found at i:45460002 original size:26 final size:26
Alignment explanation
Indices: 45459964--45460015 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
45459954 CACAGGTATT
45459964 TACATGAGATATATGA-AAATGATTTG
1 TACATGAGATATA-GATAAATGATTTG
*
45459990 TACATGATG-TATAGATACATGATTTG
1 TACATGA-GATATAGATAAATGATTTG
45460016 GAAATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.09
26 20 0.87
27 1 0.04
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (26 bp):
TACATGAGATATAGATAAATGATTTG
Found at i:45466984 original size:6 final size:6
Alignment explanation
Indices: 45466975--45467021 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
45466965 TAGTTTTATA
* *
45466975 TTTTTG TTTTTG TTTTTG TTTGTG TTTGTG TTTTTG TTTTTG TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
45467022 TATTTTTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:45467027 original size:18 final size:17
Alignment explanation
Indices: 45466975--45467040 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 17
45466965 TAGTTTTATA
45466975 TTTTTGTTTTTGTTTTTG
1 TTTTTGTTTTT-TTTTTG
* *
45466993 TTTGTGTTTGTGTTTTTG
1 TTTTTGTTT-TTTTTTTG
45467011 TTTTTGTTTTTTATTTT-
1 TTTTTGTTTTTT-TTTTG
*
45467028 TATTTTATTTTTT
1 T-TTTTGTTTTTT
45467041 GATTTGATTC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 3 0.08
18 36 0.90
19 1 0.03
ACGTcount: A:0.05, C:0.00, G:0.14, T:0.82
Consensus pattern (17 bp):
TTTTTGTTTTTTTTTTG
Found at i:45467070 original size:10 final size:10
Alignment explanation
Indices: 45467025--45467079 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
45467015 TGTTTTTTAT
*
45467025 TTTTATTTTA
1 TTTTATTTGA
45467035 -TTT-TTTGA
1 TTTTATTTGA
* *
45467043 TTTGATTCGA
1 TTTTATTTGA
*
45467053 TTTGATTTGA
1 TTTTATTTGA
*
45467063 TTTTATTTTA
1 TTTTATTTGA
45467073 TTTTATT
1 TTTTATT
45467080 ATGCGTTGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
8 4 0.11
9 5 0.14
10 28 0.76
ACGTcount: A:0.18, C:0.02, G:0.09, T:0.71
Consensus pattern (10 bp):
TTTTATTTGA
Found at i:45468136 original size:71 final size:70
Alignment explanation
Indices: 45468055--45468199 Score: 218
Period size: 70 Copynumber: 2.1 Consensus size: 70
45468045 TTTTTATTTC
* * *
45468055 TTGTTCATGTTAATTATTTTAATTCAGCATTTGATTTTTTTAGTTTGACAATTTATCAACTCGAT
1 TTGTTCATGTTAATTACTTTAATTAAGCATTTGA-TTTTTTAGTTTGACAATTTATCAACTCAAT
45468120 TATCGA
65 TATCGA
* * *
45468126 TTGTTGATGTTAATTACTTTAATTAAGCATTTGATTTTTTAGTTTGGCAGTTTATCAACTCAATT
1 TTGTTCATGTTAATTACTTTAATTAAGCATTTGATTTTTTAGTTTGACAATTTATCAACTCAATT
*
45468191 CTCGA
66 ATCGA
45468196 TTGT
1 TTGT
45468200 AACCAACTTT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
70 36 0.54
71 31 0.46
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (70 bp):
TTGTTCATGTTAATTACTTTAATTAAGCATTTGATTTTTTAGTTTGACAATTTATCAACTCAATT
ATCGA
Found at i:45473420 original size:29 final size:28
Alignment explanation
Indices: 45473354--45473459 Score: 83
Period size: 29 Copynumber: 3.8 Consensus size: 28
45473344 AAGGTGTTAT
** **
45473354 TTTAACAGA-ATTTCCACAAAGCATTTA
1 TTTAACAGAGATAGCCACAAAGCATCCA
* *
45473381 TTTAGCTGAGATAGCCACAAAGACATCCA
1 TTTAACAGAGATAGCCACAAAG-CATCCA
*
45473410 TTTAACAGAGATCGCCACAAATGCATCC-
1 TTTAACAGAGATAGCCACAAA-GCATCCA
*
45473438 TTTAAACAGTGATCA-CCACAAA
1 TTT-AACAGAGAT-AGCCACAAA
45473460 AGCTTCTATT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
27 7 0.11
28 13 0.21
29 42 0.67
30 1 0.02
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.25
Consensus pattern (28 bp):
TTTAACAGAGATAGCCACAAAGCATCCA
Found at i:45483270 original size:3 final size:3
Alignment explanation
Indices: 45483262--45483376 Score: 67
Period size: 3 Copynumber: 38.3 Consensus size: 3
45483252 AAAAAAGAAA
* *
45483262 AAT AAT AAT ATT AAT AAT AAT AAT AAT AAT AA- AAG AAT AA- AGAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
* * ** * * *
45483306 AAT AGT AAT CAT GGT AGT AAGT AAT AAT ACA- ACT -AT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT
* *
45483351 AAT AAT ATT AAT CAAT GAT AAT AAT A
1 AAT AAT AAT AAT -AAT AAT AAT AAT A
45483377 TCAATAATTA
Statistics
Matches: 86, Mismatches: 18, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
2 4 0.05
3 74 0.86
4 8 0.09
ACGTcount: A:0.57, C:0.03, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:45485934 original size:20 final size:20
Alignment explanation
Indices: 45485909--45485956 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
45485899 CTTGTATAGG
45485909 ATTGCACTACCACGCCTCTA
1 ATTGCACTACCACGCCTCTA
* * * *
45485929 ATTGCACTTCGATGCCTGTA
1 ATTGCACTACCACGCCTCTA
45485949 ATTGCACT
1 ATTGCACT
45485957 TCGGTGCCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.31
Consensus pattern (20 bp):
ATTGCACTACCACGCCTCTA
Found at i:45485957 original size:20 final size:20
Alignment explanation
Indices: 45485922--45485967 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
45485912 GCACTACCAC
45485922 GCCTCTAATTGCACTTCGAT
1 GCCTCTAATTGCACTTCGAT
* *
45485942 GCCTGTAATTGCACTTCGGT
1 GCCTCTAATTGCACTTCGAT
45485962 GCCTCT
1 GCCTCT
45485968 GTTAGCAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.30, G:0.20, T:0.35
Consensus pattern (20 bp):
GCCTCTAATTGCACTTCGAT
Found at i:45501523 original size:20 final size:20
Alignment explanation
Indices: 45501495--45501537 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
45501485 CCTTTAAAAT
*
45501495 TTTCCTTATTTT-CATTTGCA
1 TTTCATTATTTTCCA-TTGCA
45501515 TTTCATTATTTTCCATTGCA
1 TTTCATTATTTTCCATTGCA
45501535 TTT
1 TTT
45501538 AGTCTCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.16, C:0.19, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTCATTATTTTCCATTGCA
Found at i:45502202 original size:25 final size:25
Alignment explanation
Indices: 45502174--45502265 Score: 89
Period size: 25 Copynumber: 3.7 Consensus size: 25
45502164 TCCTATACAT
*
45502174 GTATGCTCATACGAGCTATGAATTG
1 GTATGCTCATACGAGCTATGAATCG
*
45502199 GTATGCTC-TCACGAGCTGTGAATCG
1 GTATGCTCAT-ACGAGCTATGAATCG
* *
45502224 GTAAGCTCATACGAGTTGA-GAATCG
1 GTATGCTCATACGAGCT-ATGAATCG
* * *
45502249 ATAAGCTCATACAAGCT
1 GTATGCTCATACGAGCT
45502266 GAAAATCAGT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.02
25 54 0.96
26 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (25 bp):
GTATGCTCATACGAGCTATGAATCG
Found at i:45502272 original size:25 final size:25
Alignment explanation
Indices: 45502219--45502272 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
45502209 ACGAGCTGTG
* * * *
45502219 AATCGGTAAGCTCATACGAGTTGAG
1 AATCGATAAGCTCATACAAGCTGAA
45502244 AATCGATAAGCTCATACAAGCTGAA
1 AATCGATAAGCTCATACAAGCTGAA
45502269 AATC
1 AATC
45502273 AGTAAGATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (25 bp):
AATCGATAAGCTCATACAAGCTGAA
Found at i:45502278 original size:25 final size:24
Alignment explanation
Indices: 45502219--45502284 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
45502209 ACGAGCTGTG
* * *
45502219 AATCGGTAAGCTCATACGAGTTGAG
1 AATC-GTAAGCTCATACAAGCTGAA
45502244 AATCGATAAGCTCATACAAGCTGAA
1 AATCG-TAAGCTCATACAAGCTGAA
*
45502269 AATCAGTAAGATCATA
1 AATC-GTAAGCTCATA
45502285 AGAGTTGTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.03
25 33 0.94
26 1 0.03
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.23
Consensus pattern (24 bp):
AATCGTAAGCTCATACAAGCTGAA
Found at i:45503210 original size:5 final size:5
Alignment explanation
Indices: 45503200--45503231 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
45503190 AACATTTTGC
45503200 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
45503232 GTAAAATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:45504728 original size:29 final size:29
Alignment explanation
Indices: 45504671--45504729 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
45504661 TTATTCTATC
** * *
45504671 ATATGAGAGCCTTTGTGGTTGATTTTGTT
1 ATATGAGAGCCTTTGTGACTAATTCTGTT
45504700 ATATGAGAGCCTTTGTGACTAATTCTGTT
1 ATATGAGAGCCTTTGTGACTAATTCTGTT
45504729 A
1 A
45504730 AATGCGCTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.10, G:0.24, T:0.44
Consensus pattern (29 bp):
ATATGAGAGCCTTTGTGACTAATTCTGTT
Found at i:45507766 original size:29 final size:28
Alignment explanation
Indices: 45507730--45507807 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
45507720 TCATGAGATT
45507730 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
45507760 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
45507787 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
45507808 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:45508025 original size:174 final size:174
Alignment explanation
Indices: 45507760--45508087 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
45507750 AAATTGTACA
45507760 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
45507825 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
45507890 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
45507934 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
45507999 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
45508064 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
45508088 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:45523406 original size:21 final size:21
Alignment explanation
Indices: 45523382--45523440 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
45523372 ATAGTAGTCC
45523382 GAGTTGTATCGGTAGAACCTA-
1 GAGTTGTATCGGTAGAA-CTAG
45523403 GAGTTGTATCGGTAGAACTAG
1 GAGTTGTATCGGTAGAACTAG
* *
45523424 GAGTTCTACCGGTAGAA
1 GAGTTGTATCGGTAGAA
45523441 TTTTGTAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 3 0.09
21 32 0.91
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.27
Consensus pattern (21 bp):
GAGTTGTATCGGTAGAACTAG
Found at i:45528906 original size:9 final size:9
Alignment explanation
Indices: 45528892--45528928 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
45528882 TATAGTTTGA
45528892 TATTCGAAT
1 TATTCGAAT
45528901 TATTCGAAT
1 TATTCGAAT
*
45528910 TATTCGAGT
1 TATTCGAAT
*
45528919 TATTCTAAT
1 TATTCGAAT
45528928 T
1 T
45528929 CGAAAAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:45533928 original size:23 final size:23
Alignment explanation
Indices: 45533865--45533946 Score: 85
Period size: 23 Copynumber: 3.5 Consensus size: 23
45533855 ACATTGTTTG
* *
45533865 TGAACATATTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
* * *
45533889 TGAACATGTTTGTTTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
45533912 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
45533935 TGAACATGTTCG
1 TGAACATGTTCG
45533947 TGAACATTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.06
23 33 0.69
24 12 0.25
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:45533956 original size:23 final size:23
Alignment explanation
Indices: 45533912--45533958 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
45533902 TTAATGTTCG
* *
45533912 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
45533935 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
45533958 T
1 T
45533959 AAACGGACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:45547162 original size:20 final size:20
Alignment explanation
Indices: 45547139--45547176 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45547129 TAAATATTTT
45547139 CTATAATTTTTAT-ATTTTCC
1 CTAT-ATTTTTATAATTTTCC
*
45547159 CTATTTTTTTATAATTTT
1 CTATATTTTTATAATTTT
45547177 TATTGATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (20 bp):
CTATATTTTTATAATTTTCC
Found at i:45547270 original size:10 final size:9
Alignment explanation
Indices: 45547251--45547315 Score: 55
Period size: 10 Copynumber: 7.3 Consensus size: 9
45547241 ACATAAAAAC
45547251 TTATAATTT
1 TTATAATTT
45547260 TTATAATTTT
1 TTATAA-TTT
* *
45547270 TTTTAAATT
1 TTATAATTT
*
45547279 CTAT-ATTT
1 TTATAATTT
45547287 TTATATATTT
1 TTATA-ATTT
*
45547297 TAATAATTT
1 TTATAATTT
45547306 TT-T-ATTT
1 TTATAATTT
45547313 TTA
1 TTA
45547316 ATCTTTTATT
Statistics
Matches: 44, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
7 6 0.14
8 7 0.16
9 15 0.34
10 16 0.36
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
TTATAATTT
Found at i:45547304 original size:26 final size:25
Alignment explanation
Indices: 45547275--45547323 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
45547265 ATTTTTTTTA
45547275 AATTCTATATTTTTATATATTTTAAT
1 AATTCTATATTTTTA-ATATTTTAAT
* * *
45547301 AATTTTTTATTTTTAATCTTTTA
1 AATTCTATATTTTTAATATTTTA
45547324 TTGGTTTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (25 bp):
AATTCTATATTTTTAATATTTTAAT
Found at i:45547697 original size:21 final size:20
Alignment explanation
Indices: 45547671--45547709 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
45547661 ATTTTTATGG
45547671 ATTTATATATATTATTTTTGA
1 ATTTATATATA-TATTTTTGA
*
45547692 ATTTATTTATATATTTTT
1 ATTTATATATATATTTTT
45547710 AAAAAATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTATATATATATTTTTGA
Found at i:45549768 original size:8 final size:8
Alignment explanation
Indices: 45549736--45549777 Score: 57
Period size: 8 Copynumber: 4.9 Consensus size: 8
45549726 ATGAGCCTAA
45549736 TATTATATT
1 TATTAT-TT
45549745 TATTATTT
1 TATTATTT
45549753 CCTATTATTT
1 --TATTATTT
45549763 TATTATTT
1 TATTATTT
45549771 TATTATT
1 TATTATT
45549778 CCGAATTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.55
9 6 0.19
10 8 0.26
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (8 bp):
TATTATTT
Found at i:45549790 original size:25 final size:26
Alignment explanation
Indices: 45549736--45549794 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
45549726 ATGAGCCTAA
* *
45549736 TATTATATTTATTATTTCCTATTATTT
1 TATTAT-TTTATTATTTCCAATTATAT
45549763 TATTATTTTATTA-TTCCGAATT-TAT
1 TATTATTTTATTATTTCC-AATTATAT
45549788 TATTATT
1 TATTATT
45549795 AAGTATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 13 0.45
26 10 0.34
27 6 0.21
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTTATTATTTCCAATTATAT
Found at i:45554207 original size:50 final size:50
Alignment explanation
Indices: 45554141--45554364 Score: 171
Period size: 50 Copynumber: 4.5 Consensus size: 50
45554131 GGAGATAAGT
* * * *
45554141 GTAGCTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTC
1 GTAGCTTCAATCTGTTCAACTGCAATATCAGGGAAACAAGATCCGCCGTC
* * ** *** ** *
45554191 GTAACTTCAATCTGTTCCACCACACCGTCAGGGAAGTAAGATCCGTCG-C
1 GTAGCTTCAATCTGTTCAACTGCAATATCAGGGAAACAAGATCCGCCGTC
* * * * * *
45554240 TGTGGCTTCAATATTTTTAATTGCAATATCAGGGAAACAAGATCCGCCGTT
1 -GTAGCTTCAATCTGTTCAACTGCAATATCAGGGAAACAAGATCCGCCGTC
* * * * * * **
45554291 GTGGCTTCAATCTTTTTAATTGCAATATTAGGGAAACCAGATTTGCCGTC
1 GTAGCTTCAATCTGTTCAACTGCAATATCAGGGAAACAAGATCCGCCGTC
*
45554341 GTAGCTTCAATCTGTTCCACTGCA
1 GTAGCTTCAATCTGTTCAACTGCA
45554365 CTGCTAAGGA
Statistics
Matches: 133, Mismatches: 39, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
49 1 0.01
50 132 0.99
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (50 bp):
GTAGCTTCAATCTGTTCAACTGCAATATCAGGGAAACAAGATCCGCCGTC
Found at i:45554676 original size:132 final size:132
Alignment explanation
Indices: 45554522--45555249 Score: 1052
Period size: 132 Copynumber: 5.5 Consensus size: 132
45554512 CTTAGGGGGA
*
45554522 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGTAAAATCTGCCATCTTTGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATC
*
45554587 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAATCTATTCCGCTGCTGTCCAGGGA
66 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGA
45554652 AG
131 AG
* *
45554654 TAGAATTACTGGCTTCAGTGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATATTTGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATC
* * * * *
45554719 TGCTCCGCTACTGCTTAGGGAAACAATATCTAAAATCTTTAATCTATTCCGCTGCTGTCCAGGGA
66 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGA
45554784 AG
131 AG
*
45554786 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATCTTTGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATC
* * * *
45554851 TGCTCCACTGCTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCTGCTGCTATCCAGAGA
66 TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGA
45554916 AG
131 AG
* * *
45554918 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCGTCTTCGATC
1 TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATC
* * * * * *
45554983 TGCTTTGCTATCTA-TGC--AGGAAGACAAGATCTTAAATCTTCAGTCTATTCCACTGCTGCCCA
66 TGC--T-CCA-CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCA
45555045 GGG-AG
127 GGGAAG
* * * * *
45555050 ATAGAATTACTGACTTCAATGTACTCCACTGTAACCTCAAGGAGGTAAAATCCGCCATCTTCGAT
1 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGAT
* * * * * *
45555115 TTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCCTCAATCTATTCCACTGCTGCCCAGGG
65 CTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGG
45555180 -AG
130 AAG
*
45555182 ATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATTTGCCATCTTTGAT
1 -TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGAT
45555247 CTG
65 CTG
45555250 TTCTGCTGTT
Statistics
Matches: 534, Mismatches: 54, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
129 3 0.01
130 4 0.01
131 1 0.00
132 417 0.78
133 101 0.19
134 1 0.00
135 5 0.01
136 2 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGCCATCTTTGATC
TGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCCGCTGCTGTCCAGGGA
AG
Found at i:45555302 original size:265 final size:265
Alignment explanation
Indices: 45554501--45555279 Score: 1086
Period size: 265 Copynumber: 2.9 Consensus size: 265
45554491 TTTCGATTTG
* ** *
45554501 CTCCACTACTGCTTAGGGGGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCAC-AGGAAG
1 CTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGG-AG
45554565 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAAT
65 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAAT
*
45554630 CTATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAGTGTACTCCACTGTAACCACAGGG
130 CTATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
* * * * *
45554695 AGGTAAAATCTGCCATATTTGATCTGCTCCGCTACTGCT-TA-GGGAA-ACAATATCTAAAATCT
195 AGGTAAAATCTGCCATCTTTGATCTGTTCTGCTA-T-CTATACAGGAAGACAAGATCTAAAATCT
*
45554757 TTAATCTA
258 TCAATCTA
* * * *
45554765 TTCCGCTGCTGTCCAGGGA-AGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAG
1 CTCCACTGCTGCCCAGGGAGA-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAG
* * *
45554829 GTAAAATCTGTCATCTTTGATCTGCTCCACTGCTGCTTAGGGAGACAAGATCTGAAATCTTCAAT
65 GTAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAAT
* * *
45554894 CTATTCTGCTGCTATCCAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
130 CTATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
* * * * *
45554959 AGGTAAAATCTGTCGTCTTCGATCTGCTT-TGCTATCTATGCAGGAAGACAAGATCTTAAATCTT
195 AGGTAAAATCTGCCATCTTTGATCTG-TTCTGCTATCTATACAGGAAGACAAGATCTAAAATCTT
*
45555023 CAGTCTA
259 CAATCTA
* * *
45555030 TTCCACTGCTGCCCAGGGAGATAGAATTACTGACTTCAATGTACTCCACTGTAACCTCAAGGAGG
1 CTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGG
* * * * *
45555095 TAAAATCCGCCATCTTCGATTTGCTCCACTACTACTTAGGGAGATAAGATCTGAAATCCTCAATC
66 TAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAATC
* *
45555160 TATTCCACTGCTGCCCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
131 TATTCCGCTGCTGTCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGG
* * * *
45555224 AGGTAAAATTTGCCATCTTTGATCTGTTCTGCTGTTTATACAGGAAGGCAAGATCT
195 AGGTAAAATCTGCCATCTTTGATCTGTTCTGCTATCTATACAGGAAGACAAGATCT
45555280 GCTATCCTCA
Statistics
Matches: 453, Mismatches: 53, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
262 2 0.00
263 3 0.01
264 208 0.46
265 239 0.53
266 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (265 bp):
CTCCACTGCTGCCCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAAGGAGG
TAAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGAAATCCTCAATC
TATTCCGCTGCTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGA
GGTAAAATCTGCCATCTTTGATCTGTTCTGCTATCTATACAGGAAGACAAGATCTAAAATCTTCA
ATCTA
Found at i:45556445 original size:22 final size:22
Alignment explanation
Indices: 45556420--45556465 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
45556410 TTAGCCTCTC
*
45556420 CATTTTTA-CTTTTTCATTTTTT
1 CATTTTCATCTTTTT-ATTTTTT
45556442 CATTTTCATCTTTTTATTTTTT
1 CATTTTCATCTTTTTATTTTTT
45556464 CA
1 CA
45556466 CATCACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (22 bp):
CATTTTCATCTTTTTATTTTTT
Found at i:45560852 original size:15 final size:14
Alignment explanation
Indices: 45560828--45560859 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
45560818 AAAATATTTA
45560828 TATATATAAAAACG
1 TATATATAAAAACG
45560842 TATACTATAAAAACG
1 TATA-TATAAAAACG
45560857 TAT
1 TAT
45560860 GTACACTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (14 bp):
TATATATAAAAACG
Found at i:45565103 original size:24 final size:24
Alignment explanation
Indices: 45565066--45565118 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
45565056 TCAAAGAAGT
* * * *
45565066 TGATAGTAATAGTGCGAGCTATGA
1 TGATAATAACAGTGCAAACTATGA
45565090 TGATAATAACAGTGCAAACTATGA
1 TGATAATAACAGTGCAAACTATGA
45565114 TGATA
1 TGATA
45565119 GTGACAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (24 bp):
TGATAATAACAGTGCAAACTATGA
Found at i:45567634 original size:62 final size:62
Alignment explanation
Indices: 45567537--45567656 Score: 222
Period size: 62 Copynumber: 1.9 Consensus size: 62
45567527 CAATGGAAGC
45567537 ACACTTATAGTAGTGTGACTATTTGTATACTTACCCATAATTTAAATTGAAAATAAAAGGGT
1 ACACTTATAGTAGTGTGACTATTTGTATACTTACCCATAATTTAAATTGAAAATAAAAGGGT
* *
45567599 ACACTTATAGTAGTGTGACTATTTGTATATTTACCCATAATTTAACTTGAAAATAAAA
1 ACACTTATAGTAGTGTGACTATTTGTATACTTACCCATAATTTAAATTGAAAATAAAA
45567657 AGATGAGTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (62 bp):
ACACTTATAGTAGTGTGACTATTTGTATACTTACCCATAATTTAAATTGAAAATAAAAGGGT
Found at i:45571306 original size:222 final size:217
Alignment explanation
Indices: 45570883--45571321 Score: 691
Period size: 222 Copynumber: 2.0 Consensus size: 217
45570873 TATACTTTCT
* * *
45570883 ATTCCTATTATAATTTCATTGCAGATTTTGAATTTATTCAATTTAGTTCCTAATGTTACAAAGTT
1 ATTCCTAATATAATTTCATTACAGATTTTGAATTTATTCAATTTAGTTCATAATGTTACAAAGTT
* * *
45570948 ATCTATCAAGCTTATTTAGCTTTACAATTTTTATCATGATTTAAGCTTAATTTCTATAAATTTCA
66 ATCTATCAAGCTTATTTAGCCTTACAATTTTTATCATGATCTAAGCTTAATTTCTATAAATTGCA
45571013 AGCCTAATTCATCAATTTCTCAACAATGACAACTTGCTAAAAATTAAACAATTGAAAAAATTAAT
131 AGCCTAATTCATCAATTTCTCAACAATGACAACTTGCTAAAAATTAAACAATTGAAAAAATTAAT
*
45571078 ACATGGGCTAGCTAAATCAAGC
196 ACATGGGCTAGATAAATCAAGC
*
45571100 ATTCCTAATATAATTTCATTACAGATTTTGAATTTATTCAATTTAGTTCATAATGTTAGAAAGTT
1 ATTCCTAATATAATTTCATTACAGATTTTGAATTTATTCAATTTAGTTCATAATGTTACAAAGTT
* *
45571165 ATTTATCAAGCTTATTTAGCCTTACAATTTAGTTCTTGTCATGATCTAAGCTTAATTTCTATAAA
66 ATCTATCAAGCTTATTTAGCCTTACAA--T--TT-TTATCATGATCTAAGCTTAATTTCTATAAA
* * * *
45571230 TTGCAAGCCTAATTCATCAATTTTTCAACAATGACAACTT-CTTCAAAATTCAACAATTGAACAA
126 TTGCAAGCCTAATTCATCAATTTCTCAACAATGACAACTTGC-TAAAAATTAAACAATTGAAAAA
45571294 ATTAATACATGGGCTAGATAAATCAAGC
190 ATTAATACATGGGCTAGATAAATCAAGC
45571322 TCCCATGATC
Statistics
Matches: 202, Mismatches: 14, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
217 86 0.43
219 1 0.00
221 3 0.01
222 112 0.55
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (217 bp):
ATTCCTAATATAATTTCATTACAGATTTTGAATTTATTCAATTTAGTTCATAATGTTACAAAGTT
ATCTATCAAGCTTATTTAGCCTTACAATTTTTATCATGATCTAAGCTTAATTTCTATAAATTGCA
AGCCTAATTCATCAATTTCTCAACAATGACAACTTGCTAAAAATTAAACAATTGAAAAAATTAAT
ACATGGGCTAGATAAATCAAGC
Found at i:45580257 original size:40 final size:40
Alignment explanation
Indices: 45580213--45580476 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
45580203 GCTCCTCGTT
* *
45580213 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
45580253 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
45580293 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
45580333 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
45580373 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
45580412 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
45580453 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45580477 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:45591648 original size:46 final size:46
Alignment explanation
Indices: 45591595--45591868 Score: 476
Period size: 46 Copynumber: 6.0 Consensus size: 46
45591585 TTTTATATGT
*
45591595 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCTAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
45591641 TATAATGCTGTCCATTTTGAGTATATTGATGTTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
45591687 TATAATGCTGTACATTTTGAGCATATTGATACTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
*
45591733 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCTAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
* *
45591779 TATAATGCTGTACATTTTGACCATATTGATGCTGTCCAATTTGATG
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
45591825 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGA
1 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGA
45591869 GCATATTAAA
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (46 bp):
TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCAATTTGATG
Found at i:45591859 original size:162 final size:162
Alignment explanation
Indices: 45591691--45592075 Score: 550
Period size: 162 Copynumber: 2.4 Consensus size: 162
45591681 TTGATGTATA
* *
45591691 ATGCTGTACATTTTGAGCATATTGATA-CTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGC
1 ATGCTGTACAATTTGAGCATATT-AAAGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGC
* *
45591755 ATATTGATGCTGTCTAATTTGATGTATAATGCTGTAC-ATTTTGACCATATTGATGCTGTCCAAT
65 ATATTGATGCTGTCCAATTTGATGTATAATGCTGT-CTATTTAGACCATATTGATGCTGTCCAAT
45591819 TTGATGTATAATGCTGTCCATTTTGAGCATATTG
129 TTGATGTATAATGCTGTCCATTTTGAGCATATTG
* *
45591853 ATGCTGTCCAATTTGAGCATATTAAAGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGTA
1 ATGCTGTACAATTTGAGCATATTAAAGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGCA
* *
45591918 TATTGATGTTGTCCAATTTGATGTATAATGCTGTCTATTTAGAGCATATTGATGCTGTCCAATTT
66 TATTGATGCTGTCCAATTTGATGTATAATGCTGTCTATTTAGACCATATTGATGCTGTCCAATTT
*
45591983 GATGTATAATGCTGTCTATTTTGAGCATATTG
131 GATGTATAATGCTGTCCATTTTGAGCATATTG
* * * *
45592015 ATGCTAT-CAATTTGATG--TA-TAATGCTGTCCATTTTGA-GCATATTAATGCTGTCCAATTTG
1 ATGCTGTACAATTTGA-GCATATTAAAGCTGTCCAATTTGATG--TA-TAATGCTGTCCATTTTG
45592075 A
62 A
45592076 TGTATAAATG
Statistics
Matches: 204, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
158 1 0.00
159 16 0.08
160 4 0.02
161 28 0.14
162 155 0.76
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (162 bp):
ATGCTGTACAATTTGAGCATATTAAAGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGCA
TATTGATGCTGTCCAATTTGATGTATAATGCTGTCTATTTAGACCATATTGATGCTGTCCAATTT
GATGTATAATGCTGTCCATTTTGAGCATATTG
Found at i:45591903 original size:46 final size:46
Alignment explanation
Indices: 45591807--45592093 Score: 352
Period size: 46 Copynumber: 6.2 Consensus size: 46
45591797 GACCATATTG
* *
45591807 ATGCTGTCCAATTTGATG--TA-TAATGCTGTCCATTTTGA-GCATATTG
1 ATGCTGTCCAATTTGA-GCATATTAATGCTGTCCAATTTGATG--TA-TA
*
45591853 ATGCTGTCCAATTTGAGCATATTAAAGCTGTCCAATTTGATGTATA
1 ATGCTGTCCAATTTGAGCATATTAATGCTGTCCAATTTGATGTATA
* * * *
45591899 ATGCTGTCCATTTTGAGTATATTGATGTTGTCCAATTTGATGTATA
1 ATGCTGTCCAATTTGAGCATATTAATGCTGTCCAATTTGATGTATA
* *
45591945 ATGCTGT-CTATTTAGAGCATATTGATGCTGTCCAATTTGATGTATA
1 ATGCTGTCCAATTT-GAGCATATTAATGCTGTCCAATTTGATGTATA
* * * *
45591991 ATGCTGTCTATTTTGAGCATATTGATGCTAT-CAATTTGATGTATA
1 ATGCTGTCCAATTTGAGCATATTAATGCTGTCCAATTTGATGTATA
*
45592036 ATGCTGTCCATTTTGAGCATATTAATGCTGTCCAATTTGATGTATAA
1 ATGCTGTCCAATTTGAGCATATTAATGCTGTCCAATTTGATGTAT-A
45592083 ATGCTGTCCAA
1 ATGCTGTCCAA
45592094 AACAGGGTAG
Statistics
Matches: 213, Mismatches: 20, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
45 47 0.22
46 131 0.62
47 18 0.08
48 16 0.08
49 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.41
Consensus pattern (46 bp):
ATGCTGTCCAATTTGAGCATATTAATGCTGTCCAATTTGATGTATA
Found at i:45591903 original size:92 final size:91
Alignment explanation
Indices: 45591597--45592093 Score: 423
Period size: 92 Copynumber: 5.4 Consensus size: 91
45591587 TTATATGTTA
* * *
45591597 TAATGCTGTCCATTTTGA-GCATATTGATGCTGTCTAATTTGATGTATAATGCTGTCCATTTTGA
1 TAATGCTGTCCAATTTGATG--TA-TAATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGA
*
45591661 GTATATTGATGTTGTCCAATTTGATG--TA-
63 G-ATATTGATGCTGTCCAATTTGA-GCATAT
* * * *
45591689 TAATGCTGTACATTTTGA-GCATATTGATACTGTCCAATTTGATGTATAATGCTGTCCATTTTGA
1 TAATGCTGTCCAATTTGATG--TA-TAATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGA
*
45591753 GCATATTGATGCTGTCTAATTTGATG--TA-
63 G-ATATTGATGCTGTCCAATTTGA-GCATAT
* * ** *
45591781 TAATGCTGTACATTTTGACCATATTGATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAG
1 TAATGCTGTCCAATTTGA-TGTA-TAATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAG
45591846 CATATTGATGCTGTCCAATTTGAGCATAT
64 -ATATTGATGCTGTCCAATTTGAGCATAT
* * * *
45591875 TAAAGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGA-GTATATTGATGTTGTCCAATTTGA
1 TAATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTGATGTATA---ATGCTGTCCATTTTGA
* *
45591939 TG-TA-TAATGCTGT-CTATTTAGAGCATAT
63 -GATATTGATGCTGTCCAATTT-GAGCATAT
* * * * * *
45591967 TGATGCTGTCCAATTTGATGTATAATGCTGTCTATTTTGA-GCATATTGATGCTAT-CAATTTGA
1 TAATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTGATG--TA-TAATGCTGTCCATTTTGA
* *
45592030 TG-TA-TAATGCTGTCCATTTTGAGCATAT
63 -GATATTGATGCTGTCCAATTTGAGCATAT
45592058 TAATGCTGTCCAATTTGATGTATAAATGCTGTCCAA
1 TAATGCTGTCCAATTTGATGTAT-AATGCTGTCCAA
45592094 AACAGGGTAG
Statistics
Matches: 359, Mismatches: 31, Indels: 30
0.85 0.07 0.07
Matches are distributed among these distances:
91 62 0.17
92 258 0.72
93 6 0.02
94 31 0.09
95 2 0.01
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.42
Consensus pattern (91 bp):
TAATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGAT
ATTGATGCTGTCCAATTTGAGCATAT
Found at i:45591903 original size:138 final size:137
Alignment explanation
Indices: 45591595--45591919 Score: 442
Period size: 138 Copynumber: 2.4 Consensus size: 137
45591585 TTTTATATGT
* * * *
45591595 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCTAATTTGATGTATAATGCTGTCCATTTTG
1 TATAAAGCTGTCCAATTTGAG-ATATTAATGCTGTCTAATTTGATGTATAATGCTGTACATTTTG
** *
45591660 AGTATATTGATGTTGTCCAATTTGATGTATAATGCTGTACATTTTGAGCATATTGATACTGTCCA
65 ACCATATTGATGCTGTCCAATTTGATGTATAATGCTGTACATTTTGAGCATATTGATACTGTCCA
45591725 ATTTGATG
130 ATTTGATG
* * *
45591733 TATAATGCTGTCCATTTTGAGCATATTGATGCTGTCTAATTTGATGTATAATGCTGTACATTTTG
1 TATAAAGCTGTCCAATTTGAG-ATATTAATGCTGTCTAATTTGATGTATAATGCTGTACATTTTG
* *
45591798 ACCATATTGATGCTGTCCAATTTGATGTATAATGCTGTCCATTTTGAGCATATTGATGCTGTCCA
65 ACCATATTGATGCTGTCCAATTTGATGTATAATGCTGTACATTTTGAGCATATTGATACTGTCCA
45591863 ATTTGA-G
130 ATTTGATG
* *
45591870 CATATTAAAGCTGTCCAATTTGATG-TA-TAATGCTGTCCATTTTGA-GTATA
1 --TA-TAAAGCTGTCCAATTTGA-GATATTAATGCTGTCTAATTTGATGTATA
45591920 TTGATGTTGT
Statistics
Matches: 172, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
137 6 0.03
138 145 0.84
139 4 0.02
140 16 0.09
141 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (137 bp):
TATAAAGCTGTCCAATTTGAGATATTAATGCTGTCTAATTTGATGTATAATGCTGTACATTTTGA
CCATATTGATGCTGTCCAATTTGATGTATAATGCTGTACATTTTGAGCATATTGATACTGTCCAA
TTTGATG
Found at i:45593549 original size:12 final size:12
Alignment explanation
Indices: 45593528--45593594 Score: 66
Period size: 12 Copynumber: 5.3 Consensus size: 12
45593518 AATATTACAT
45593528 AAAA-AAAGAAA
1 AAAATAAAGAAA
45593539 AAAATAAAGAAA
1 AAAATAAAGAAA
45593551 AATAA-AAAGAAAATA
1 AA-AATAAAG--AA-A
*
45593566 AAAATAAAGAAG
1 AAAATAAAGAAA
45593578 AAAATAAGAGAAA
1 AAAATAA-AGAAA
45593591 AAAA
1 AAAA
45593595 CAAGTACAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
11 4 0.09
12 20 0.43
13 12 0.26
14 4 0.09
15 7 0.15
ACGTcount: A:0.82, C:0.00, G:0.10, T:0.07
Consensus pattern (12 bp):
AAAATAAAGAAA
Found at i:45593557 original size:17 final size:17
Alignment explanation
Indices: 45593530--45593581 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
45593520 TATTACATAA
* *
45593530 AAAAAGAAAAAAATAAAG
1 AAAAATAAAAAGA-AAAG
*
45593548 AAAAATAAAAAGAAAAT
1 AAAAATAAAAAGAAAAG
45593565 AAAAATAAAGAAGAAAA
1 AAAAATAAA-AAGAAAA
45593582 TAAGAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 12 0.40
18 18 0.60
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAG
Found at i:45593568 original size:27 final size:26
Alignment explanation
Indices: 45593526--45593594 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
45593516 TTAATATTAC
45593526 ATAAAAAAAGAAAAAAATAAAGAAAA
1 ATAAAAAAAGAAAAAAATAAAGAAAA
*
45593552 ATAAAAAGAA-AATAAAAATAAAGAAGA
1 ATAAAAA-AAGAA-AAAAATAAAGAAAA
* *
45593579 A-AATAAGAGAAAAAAA
1 ATAAAAAAAGAAAAAAA
45593595 CAAGTACAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
25 6 0.16
26 15 0.41
27 16 0.43
ACGTcount: A:0.81, C:0.00, G:0.10, T:0.09
Consensus pattern (26 bp):
ATAAAAAAAGAAAAAAATAAAGAAAA
Found at i:45593578 original size:18 final size:17
Alignment explanation
Indices: 45593548--45593584 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
45593538 AAAAATAAAG
45593548 AAAAATAAAAAGAAAAT
1 AAAAATAAAAAGAAAAT
45593565 AAAAATAAAGAAGAAAAT
1 AAAAATAAA-AAGAAAAT
45593583 AA
1 AA
45593585 GAGAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.81, C:0.00, G:0.08, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAAGAAAAT
Found at i:45597563 original size:21 final size:21
Alignment explanation
Indices: 45597514--45597565 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
45597504 GCTAATTCTA
* **
45597514 CATTTTCATAATTTCACTTTTT
1 CATTTTCA-AAATTCACTTTGC
*
45597536 CACTTTCAAAATTCACTTTGC
1 CATTTTCAAAATTCACTTTGC
45597557 CATTTTCAA
1 CATTTTCAA
45597566 GTCAATATTC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.27, C:0.23, G:0.02, T:0.48
Consensus pattern (21 bp):
CATTTTCAAAATTCACTTTGC
Found at i:45597837 original size:50 final size:50
Alignment explanation
Indices: 45597779--45598116 Score: 275
Period size: 51 Copynumber: 6.7 Consensus size: 50
45597769 TCATTCGATA
* *
45597779 CACGTAGTAGCCTTCACATAGTACTACACACTTGATCAAGTTTTATGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
*
45597829 CATGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
* * * * *
45597879 CACGTAGTAGCCTTCACAAAGTATTACACACGTGACCAAAGCTTTT-CTGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTT
* * * * * * *** * *
45597930 CACATAGTAGTCTTCACTTAGTACTAGACATGTGACCATCATTTATCGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
* * * * * * *
45597981 CACGTAGTATCCTTCACACAGTACTACACATGTGACCAAAGCTTCT-CAGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGGTT
* * * * * *** *
45598032 CACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTT
* *
45598083 CACGTAATAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
45598117 TTCATCGATA
Statistics
Matches: 229, Mismatches: 51, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
49 5 0.02
50 82 0.36
51 135 0.59
52 5 0.02
53 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
Found at i:45598009 original size:102 final size:102
Alignment explanation
Indices: 45597773--45598116 Score: 424
Period size: 102 Copynumber: 3.4 Consensus size: 102
45597763 CTTTTATCAT
* * * * * **
45597773 TCGATACACGTAGTAGCCTTCACATAGTACTACACACTTGATC-AAG-TTTTATGGTTCATGTAG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCT-GTACACATAG
* * * ***
45597836 TAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA
65 TAGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * *
45597874 -CGGTTCACGTAGTAGCCTTCACAAAGTATTACACACGTGACCAAAGCTTTTCTGTACACATAGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCTGTACACATAGT
* *
45597938 AGTCTTCACTTAGTACTAGACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* * * * *
45597975 TCGATACACGTAGTATCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCAGTACACATTGT
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCTGTACACATAGT
45598040 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
* *
45598077 TCGATTCACGTAATAGCCTTCACACAGTACTACACACGTG
1 TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTG
45598117 TTCATCGATA
Statistics
Matches: 207, Mismatches: 33, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
100 36 0.17
101 40 0.19
102 131 0.63
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATACACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTTTCTGTACACATAGT
AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
Found at i:45604745 original size:15 final size:16
Alignment explanation
Indices: 45604717--45604748 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
45604707 CTCTGCTTCT
45604717 TCTTCTTACTCTGTAG
1 TCTTCTTACTCTGTAG
45604733 TCTTCTT-CTCTGTAG
1 TCTTCTTACTCTGTAG
45604748 T
1 T
45604749 GGCTTCTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.25, G:0.12, T:0.53
Consensus pattern (16 bp):
TCTTCTTACTCTGTAG
Found at i:45607442 original size:29 final size:29
Alignment explanation
Indices: 45607410--45607681 Score: 221
Period size: 29 Copynumber: 9.4 Consensus size: 29
45607400 GGTCAAAACC
* *
45607410 ATCCGTTTTCATATTCAATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* * * *
45607439 ATCCCATTTC-TATTCGATGGCCGTCA-CC
1 ATCCCTTTTCATATTCGATAGCCG-AAGCT
* * *
45607467 ATCCCTTTTCATAATCGATAGCTGAAGTT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* * * *
45607496 GTCCCTTTTCATAATCGATAGTCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* *
45607525 ATCCCTTTCCATATTCGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* * *
45607554 ATCCCTTTTCATATTCGATAGTCGTTA-CC
1 ATCCCTTTTCATATTCGATAGCCG-AAGCT
* * * **
45607583 ATCCCTCTTCATATTTGATGGTTGTCAA-C-
1 ATCCCTTTTCATATTCGATAGCCG--AAGCT
* * *
45607612 GTCCTTTTTCATATTTGATAGCCGAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
* *
45607641 ATCCCTGTTCATATTCGATAGCCAAAGCT
1 ATCCCTTTTCATATTCGATAGCCGAAGCT
45607670 ATCCCTTTTCAT
1 ATCCCTTTTCAT
45607682 TATTTGAGGG
Statistics
Matches: 191, Mismatches: 45, Indels: 14
0.76 0.18 0.06
Matches are distributed among these distances:
27 2 0.01
28 23 0.12
29 163 0.85
30 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (29 bp):
ATCCCTTTTCATATTCGATAGCCGAAGCT
Found at i:45614986 original size:27 final size:27
Alignment explanation
Indices: 45614955--45615132 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
45614945 ATATTGAGTC
* *
45614955 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
45614982 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
45615009 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
45615037 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
45615064 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
45615091 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
45615118 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45615133 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45619114 original size:325 final size:325
Alignment explanation
Indices: 45618514--45619160 Score: 1231
Period size: 325 Copynumber: 2.0 Consensus size: 325
45618504 TCAAGCCAAC
45618514 GTCTTTGTCGCAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAAC
1 GTCTTTGTCGCAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAAC
45618579 ACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAG
66 ACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAG
45618644 TTCGAGATCATGGGTCGGATAATTTCTTTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAA
131 TTCGAGATCATGGGTCGGATAATTTCTTTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAA
* *
45618709 CTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGATGCGTCACTATAAATGACAAAC
196 CTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGAGGCATCACTATAAATGACAAAC
*
45618774 TCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATGAGTTTTCAGTTGATCGAA
261 TCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCGAA
45618839 GTCTTTGTCGCAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAAC
1 GTCTTTGTCGCAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAAC
45618904 ACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAG
66 ACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAG
45618969 TTCGAGATCATGGGTCGGATAATTTCTTTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAA
131 TTCGAGATCATGGGTCGGATAATTTCTTTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAA
45619034 CTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGAGGCATCACTATAAATGACAAAC
196 CTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGAGGCATCACTATAAATGACAAAC
* * * *
45619099 TCTTTGCCTGATTCGGGTTGCACTAAAATTGGAGCTTCAGTCAAATAAGTTTTTAGTTGATC
261 TCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATC
45619161 AAAACTTTTC
Statistics
Matches: 315, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
325 315 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (325 bp):
GTCTTTGTCGCAGATTCAAGTCTCGTTGAGTCATCAAATATTTGAGACTTTTGTGATCCGAAAAC
ACATGGCACTTCTCACCAAACAAATAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAG
TTCGAGATCATGGGTCGGATAATTTCTTTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAA
CTCGACCTTCTTGCATCAATACGCAACCCAACCCAAGTAGGGAGGCATCACTATAAATGACAAAC
TCTTTACCCGATTCGGGTTGCACCAAAATTGGAGCTTCAGTCAAATAAGTTTTCAGTTGATCGAA
Found at i:45623375 original size:27 final size:27
Alignment explanation
Indices: 45623345--45623522 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
45623335 ATATTGAGTC
* * *
45623345 CGCATACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** *
45623372 CGCACACTTAGTGCTACGCAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
45623399 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
45623427 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
45623454 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
45623481 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
45623508 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45623523 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45627195 original size:117 final size:117
Alignment explanation
Indices: 45626989--45627217 Score: 361
Period size: 117 Copynumber: 2.0 Consensus size: 117
45626979 ACCAAACAAA
* * *
45626989 TAATGTCGCCATATTTTCAATGCAAACACAATGGCGGCTAGTTCGAGATCATGGGTCGGATAATT
1 TAATGTCGCCATATTTTCAAAGCAAACACAATGGCAGCTAGTTCAAGATCATGGGTCGGATAATT
*
45627054 TCTTTCGTGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACATAAG
66 TCTTTCATGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACATAAG
* * *
45627106 TAATGTCGCCATATTTTTAAAGCAAATACGATGGCAGCTAGTTCAAGATCATGGGTCGGATAATT
1 TAATGTCGCCATATTTTCAAAGCAAACACAATGGCAGCTAGTTCAAGATCATGGGTCGGATAATT
* *
45627171 T-TTCTCATGTGGCTTTAATTGTCTCGACGCATAGGCCACCACTCGAC
66 TCTT-TCATGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGAC
45627218 CTTCTTGCAT
Statistics
Matches: 102, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 2 0.02
117 100 0.98
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (117 bp):
TAATGTCGCCATATTTTCAAAGCAAACACAATGGCAGCTAGTTCAAGATCATGGGTCGGATAATT
TCTTTCATGTGGCTTCAATTGTCTCGACGCATAGGCCACAACTCGACATAAG
Found at i:45632476 original size:15 final size:15
Alignment explanation
Indices: 45632456--45632510 Score: 69
Period size: 15 Copynumber: 3.8 Consensus size: 15
45632446 ACTCTCCTCA
*
45632456 TTCTTTTCTTTCTTT
1 TTCTTTTCTCTCTTT
*
45632471 TTCTTTTCACTCTTT
1 TTCTTTTCTCTCTTT
*
45632486 TTGTTTT-TCTCTTT
1 TTCTTTTCTCTCTTT
45632500 TTCTTTT-TCTC
1 TTCTTTTCTCTC
45632511 GATCAATAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 16 0.46
15 19 0.54
ACGTcount: A:0.02, C:0.22, G:0.02, T:0.75
Consensus pattern (15 bp):
TTCTTTTCTCTCTTT
Found at i:45634547 original size:10 final size:10
Alignment explanation
Indices: 45634527--45634558 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
45634517 TTTTAATCAC
45634527 TTCTCTTTTTT
1 TTCT-TTTTTT
45634538 TTCTTTTTTT
1 TTCTTTTTTT
45634548 TTCTTTTTTT
1 TTCTTTTTTT
45634558 T
1 T
45634559 AATTCCGAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTCTTTTTTT
Found at i:45645016 original size:4 final size:4
Alignment explanation
Indices: 45645007--45645038 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
45644997 TATTTTTATT
45645007 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
45645039 CTTAGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:45647551 original size:18 final size:19
Alignment explanation
Indices: 45647530--45647588 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 19
45647520 TGAAGGCAAA
45647530 GGAACAAAAAGAAAAGA-T
1 GGAACAAAAAGAAAAGAGT
*
45647548 GGAA-AAAGAAAAAAAGAGT
1 GGAACAAA-AAGAAAAGAGT
45647567 GAGAAAACAAAAAGAAAA-AGT
1 G-G--AACAAAAAGAAAAGAGT
45647588 G
1 G
45647589 AGTTGAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 3 0.09
18 12 0.36
19 2 0.06
20 1 0.03
21 4 0.12
22 8 0.24
23 3 0.09
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.05
Consensus pattern (19 bp):
GGAACAAAAAGAAAAGAGT
Found at i:45647590 original size:21 final size:21
Alignment explanation
Indices: 45647532--45647590 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
45647522 AAGGCAAAGG
45647532 AACAAAAAG-AAAAGATG-GAA
1 AACAAAAAGAAAAAG-TGAGAA
*
45647552 AA-AGAAAA-AAAGAGTGAGAA
1 AACA-AAAAGAAAAAGTGAGAA
45647572 AACAAAAAGAAAAAGTGAG
1 AACAAAAAGAAAAAGTGAG
45647591 TTGAAATTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
19 3 0.09
20 19 0.59
21 10 0.31
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.05
Consensus pattern (21 bp):
AACAAAAAGAAAAAGTGAGAA
Found at i:45653179 original size:39 final size:39
Alignment explanation
Indices: 45653125--45653202 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
45653115 AGTCTCCAAA
45653125 GCTAAGAATCTTCAAGGAAGCTTCAAGGAACGTTCTAGG
1 GCTAAGAATCTTCAAGGAAGCTTCAAGGAACGTTCTAGG
*
45653164 GCTAAGAATCTTCAAGGAAGCTTCAAGGGACGTTCTAGG
1 GCTAAGAATCTTCAAGGAAGCTTCAAGGAACGTTCTAGG
45653203 AAGCTACATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (39 bp):
GCTAAGAATCTTCAAGGAAGCTTCAAGGAACGTTCTAGG
Found at i:45656814 original size:45 final size:45
Alignment explanation
Indices: 45656684--45656941 Score: 348
Period size: 45 Copynumber: 5.8 Consensus size: 45
45656674 TTTTATCAAA
* * * **
45656684 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
* * *
45656726 TCACCGGCATT-TCGCCTGCTAGGCTC-GAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
45656769 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
45656814 TCACCGGCGTTATAGCCTGCTAGGCTCAAAGGCCCGAAGAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
45656859 TCACCGGCGTTATAGCCTGCTAGGCTCAAAGGCCCGAAGAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
45656904 TCACCGGCGTTATAGCCTGCTAGGCTCAAAGGCCCGAA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAA
45656942 AGTCTCGGAT
Statistics
Matches: 199, Mismatches: 12, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
41 8 0.04
42 24 0.12
43 12 0.06
44 14 0.07
45 141 0.71
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:45660923 original size:19 final size:19
Alignment explanation
Indices: 45660886--45660923 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45660876 ACCTGTCAGA
*
45660886 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
45660905 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
45660924 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:45671644 original size:37 final size:37
Alignment explanation
Indices: 45671594--45671672 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
45671584 TTATTACGAA
* *
45671594 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
45671631 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
45671668 GTCTT
1 GTCTT
45671673 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Done.