Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 88 of 344
Found at i:29290892 original size:30 final size:30
Alignment explanation
Indices: 29290851--29290912 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
29290841 GCTAGGATTC
* * *
29290851 TTCAACTCTTTAACTAGTCATATTGAGAAG
1 TTCAACTCTTTAAATAGCCAAATTGAGAAG
* *
29290881 TTCAGCTCTTTAAATGGCCAAATTGAGAAG
1 TTCAACTCTTTAAATAGCCAAATTGAGAAG
29290911 TT
1 TT
29290913 TAAAGTAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (30 bp):
TTCAACTCTTTAAATAGCCAAATTGAGAAG
Found at i:29292185 original size:14 final size:14
Alignment explanation
Indices: 29292167--29292208 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
29292157 CTTTATTAAT
29292167 ATATTTTATTTGGG
1 ATATTTTATTTGGG
* *
29292181 TTATTTTATTTAGG
1 ATATTTTATTTGGG
29292195 ATATTTTATGTTGG
1 ATATTTTAT-TTGG
29292209 AAAAATTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (14 bp):
ATATTTTATTTGGG
Found at i:29298455 original size:47 final size:47
Alignment explanation
Indices: 29298380--29298595 Score: 204
Period size: 47 Copynumber: 4.7 Consensus size: 47
29298370 GGTAAGGTAC
* *
29298380 CGATGCAATGTCCTAGACACGGTTTTACACT-ATCTCATATCTCAAGT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGA-CTCATATCTCAAGT
*
29298427 CGATGCCATGT-CTCAGACATGGTCTTACACTGACT-ATCATCTC--GT
1 CGATGCCATGTCCT-AGACACGGTCTTACACTGACTCAT-ATCTCAAGT
29298472 --A--CCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
* * * **
29298515 CGATGCCATGTCCCAGACATGGTCTTACATTGACT-ATCATCTTGTAGT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGACTCAT-ATC-TCAAGT
* * *
29298563 TGATG-CATGTCGTAGACA-TGTCTTACACTGACT
1 CGATGCCATGTCCTAGACACGGTCTTACACTGACT
29298596 TATGTCTCGA
Statistics
Matches: 142, Mismatches: 14, Indels: 27
0.78 0.08 0.15
Matches are distributed among these distances:
41 31 0.22
42 4 0.03
43 3 0.02
45 3 0.02
46 19 0.13
47 73 0.51
48 9 0.06
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (47 bp):
CGATGCCATGTCCTAGACACGGTCTTACACTGACTCATATCTCAAGT
Found at i:29298536 original size:88 final size:88
Alignment explanation
Indices: 29298387--29298556 Score: 297
Period size: 88 Copynumber: 1.9 Consensus size: 88
29298377 TACCGATGCA
* *
29298387 ATGTCCTAGACACGGTTTTACACTATCTCATATCTCAAGTCGATGCCATGTCTCAGACATGGTCT
1 ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
29298452 TACACTGACTATCATCTCGTACC
66 TACACTGACTATCATCTCGTACC
29298475 ATGTCCTAGACACGGTCTTACACTGA-CTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 ATGTCCTAGACACGGTCTTACACT-ATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
*
29298539 TTACATTGACTATCATCT
65 TTACACTGACTATCATCT
29298557 TGTAGTTGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
88 77 0.99
89 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.15, T:0.31
Consensus pattern (88 bp):
ATGTCCTAGACACGGTCTTACACTATCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTCT
TACACTGACTATCATCTCGTACC
Found at i:29300258 original size:18 final size:18
Alignment explanation
Indices: 29300237--29300271 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
29300227 CTAGTTTTGT
29300237 ATCTGAATCTGAATATGC
1 ATCTGAATCTGAATATGC
* *
29300255 ATCTGTATCTGATTATG
1 ATCTGAATCTGAATATG
29300272 AAAATACATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (18 bp):
ATCTGAATCTGAATATGC
Found at i:29300295 original size:24 final size:24
Alignment explanation
Indices: 29300268--29300323 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
29300258 TGTATCTGAT
*
29300268 TATGAAAATACATTTGATTTTGTA
1 TATGAAAATACATTTGAATTTGTA
* *
29300292 TATGAGAATATATTTGAATTTGTA
1 TATGAAAATACATTTGAATTTGTA
*
29300316 TTTGAAAA
1 TATGAAAA
29300324 AGTATCTCTT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (24 bp):
TATGAAAATACATTTGAATTTGTA
Found at i:29301303 original size:28 final size:28
Alignment explanation
Indices: 29301258--29301314 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
29301248 GAAGGCAAAT
*
29301258 ACAGTCTGGGCCTAAGCCCTTTTCAGTA
1 ACAGTCTGGGCCTAAGCCCATTTCAGTA
* * *
29301286 ACAGTTTGGGCTTTAGCCCATTTCAGTA
1 ACAGTCTGGGCCTAAGCCCATTTCAGTA
29301314 A
1 A
29301315 AGAGACAGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.32
Consensus pattern (28 bp):
ACAGTCTGGGCCTAAGCCCATTTCAGTA
Found at i:29302807 original size:22 final size:22
Alignment explanation
Indices: 29302782--29302823 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29302772 AATCCTTACT
29302782 CCTTAAT-TTCCTCACCAAAATC
1 CCTTAATCTT-CTCACCAAAATC
*
29302804 CCTTAATCTTCTCCCCAAAA
1 CCTTAATCTTCTCACCAAAA
29302824 CCGTCCACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (22 bp):
CCTTAATCTTCTCACCAAAATC
Found at i:29308301 original size:79 final size:79
Alignment explanation
Indices: 29308199--29308421 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 79
29308189 GCTCCTCGTT
* * *
29308199 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29308264 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
29308279 CAAATGCCTTCGGGCTTAGCCC-GAAATTAGT-ATCTCGCACAAATGCCTTTGGG-CTTAGCCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCG
*
29308341 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * * *
29308357 CAAATGCCTTCGGATCTTAGTCCGAATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
29308420 GA
64 GA
29308422 CATCATCTAA
Statistics
Matches: 121, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
78 47 0.39
79 52 0.43
80 21 0.17
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:29308320 original size:39 final size:40
Alignment explanation
Indices: 29308199--29308419 Score: 226
Period size: 39 Copynumber: 5.6 Consensus size: 40
29308189 GCTCCTCGTT
* **
29308199 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAAT-TAGT-ATCTCGCA
* * * *
29308239 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
29308279 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
* *
29308318 CAAATGCCTTTGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
* *
29308357 CAAATGCCTTC-GGATCTTAGTCCGAATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGAA-ATTAGT-ATC-TCGCA
29308398 C-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
29308420 GACATCATCT
Statistics
Matches: 158, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
38 2 0.01
39 83 0.53
40 62 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAAATTAGTATCTCGCA
Found at i:29316203 original size:40 final size:40
Alignment explanation
Indices: 29316159--29316250 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
29316149 GCTCCTCGTT
* *
29316159 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGTAACTCGCA
*
29316199 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
29316239 CAAATG-CTTCGG
1 CAAATGCCTTCGG
29316251 CTTACCATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 6 0.12
40 40 0.83
41 2 0.04
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:29316332 original size:39 final size:38
Alignment explanation
Indices: 29316263--29316401 Score: 162
Period size: 39 Copynumber: 3.6 Consensus size: 38
29316253 TACCATTTTT
29316263 CAATGCCTTC-GGCTTAGCCC-GAATTAGTATCTCGCA
1 CAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
29316299 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 C-AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
29316338 CAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
29316378 CAA-GCCTTCGGGACTTAGCCCGGA
1 CAATGCCTTCGGG-CTTAGCCCGGA
29316402 CATCATTCAA
Statistics
Matches: 90, Mismatches: 5, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
36 1 0.01
37 9 0.10
38 21 0.23
39 48 0.53
40 11 0.12
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (38 bp):
CAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:29321360 original size:26 final size:28
Alignment explanation
Indices: 29321315--29321462 Score: 200
Period size: 27 Copynumber: 5.5 Consensus size: 28
29321305 ATATTAAGTC
*
29321315 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
29321342 CGCACA-TTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
29321369 CGCACACTTAGTGCTACATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
29321396 -GCACACTTAGTGCTA-ATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
29321422 CGCACACTTAGTGCTGTACATTTAAAC-
1 CGCACACTTAGTGCTATATAATCAAACT
29321449 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29321463 CAATCTCATG
Statistics
Matches: 110, Mismatches: 6, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
25 6 0.05
26 34 0.31
27 48 0.44
28 22 0.20
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:29339861 original size:6 final size:6
Alignment explanation
Indices: 29339831--29339961 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
29339821 AAGAAACATT
* * * *
29339831 ATCAGA A-CTAGA ATCAAA ATGAGA ATTAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
29339880 ATCAGA ATCAGA ATCAGA ATCAGA ATTAGGTG AT-AGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
* *
29339929 ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
29339962 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 15, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
5 6 0.06
6 80 0.81
7 9 0.09
8 4 0.04
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:29339893 original size:31 final size:31
Alignment explanation
Indices: 29339852--29339961 Score: 112
Period size: 31 Copynumber: 3.4 Consensus size: 31
29339842 AATCAAAATG
*
29339852 AGAATTAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
29339883 AGAATCAGAATCAGAATCAGAATTAGGTGATAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* *
29339920 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
29339951 AAAATCAGAAT
1 AGAATCAGAAT
29339962 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
31 37 0.57
37 28 0.43
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:29339893 original size:37 final size:37
Alignment explanation
Indices: 29339840--29339939 Score: 137
Period size: 37 Copynumber: 2.7 Consensus size: 37
29339830 TATCAGAACT
* * *
29339840 AGAATCAAAATGAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
29339877 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
29339914 AGAATTAGAATCAGAATCAGTATCAG
1 AGAATCAGAATCAGAATCAGAATCAG
29339940 GTAACAGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:29339961 original size:37 final size:37
Alignment explanation
Indices: 29339840--29339961 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 37
29339830 TATCAGAACT
* * *
29339840 AGAATCAAAATGAGAATTAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* *
29339877 AGAATCAGAATCAGAATCAGAATCAGAATTAGGT---
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
29339911 -G-AT-AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
29339945 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
29339962 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
31 25 0.36
32 2 0.03
33 1 0.01
35 1 0.01
36 2 0.03
37 39 0.56
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:29340245 original size:67 final size:69
Alignment explanation
Indices: 29340107--29340248 Score: 198
Period size: 67 Copynumber: 2.1 Consensus size: 69
29340097 TCACCAGATA
* * * *
29340107 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTTGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAGA-ATATATATG-TGCGAAGCCACCAGATTACAGCGA
29340172 GGCTGC
64 GGCTGC
* *
29340178 CAGATATTGTGACGAAGTCACCAGAACAG-ATATATATG-GCGAGGCCACCAGATTACAGCGAGG
1 CAGATATTGTGACGAAGCCACCAGAACAGAATATATATGTGCGAAGCCACCAGATTACAGCGAGG
29340241 CTGC
66 CTGC
29340245 CAGA
1 CAGA
29340249 ACGCTTCCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
67 31 0.48
69 9 0.14
71 25 0.38
ACGTcount: A:0.32, C:0.23, G:0.27, T:0.19
Consensus pattern (69 bp):
CAGATATTGTGACGAAGCCACCAGAACAGAATATATATGTGCGAAGCCACCAGATTACAGCGAGG
CTGC
Found at i:29340495 original size:27 final size:27
Alignment explanation
Indices: 29340465--29340956 Score: 434
Period size: 27 Copynumber: 18.2 Consensus size: 27
29340455 TAACACCCTA
* * *
29340465 AGGGTAAAACGGTAATTTCATAAATTG
1 AGGGTAAAACAGTAATTTCGTAAATCG
*
29340492 AGGGTAAAAC-GATAACTTT-GTAAATTG
1 AGGGTAAAACAG-TAA-TTTCGTAAATCG
* *
29340519 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTCGTAAATCG
* *
29340546 AGGGTAAAATAGTAA-TTCTATAAATCG
1 AGGGTAAAACAGTAATTTC-GTAAATCG
*
29340573 AGGGTAAAACAGTAA-TTC-TATCAATAG
1 AGGGTAAAACAGTAATTTCGTA--AATCG
* **
29340600 AGGGTAAAA-TGATAATTTTATAAATCG
1 AGGGTAAAACAG-TAATTTCGTAAATCG
* *
29340627 AGGGTAAAACAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTTCGTAAATCG
* *
29340654 AGGGTAAAACAGTAA-TTCTTTAAATAG
1 AGGGTAAAACAGTAATTTC-GTAAATCG
* * * *
29340681 AGGGTAAAATAATAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTTCGTAAATCG
*
29340708 AGGGTAAAACAATAA-TTC-TATCAATCG
1 AGGGTAAAACAGTAATTTCGTA--AATCG
* *
29340735 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTCGTAAATCG
* *
29340762 AGGGTAAAATAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTCGTAAATCG
* * *
29340789 AGGGTAAAATAGTAA-CTCTGTAAAAT-A
1 AGGGTAAAACAGTAATTTC-GT-AAATCG
* *
29340816 AGGGTAAAACAGTAA-TTCTATAAATCA
1 AGGGTAAAACAGTAATTTC-GTAAATCG
* * *
29340843 AGGGTAAAATAGTAATTTTGTAAATCA
1 AGGGTAAAACAGTAATTTCGTAAATCG
* *
29340870 AGGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTCGTAAATCG
29340897 AGGGTAAAACAGTAA-TTCTGTAAATCG
1 AGGGTAAAACAGTAATTTC-GTAAATCG
** *
29340924 AGGGTAAAACAGTAATTTTTTAATTCG
1 AGGGTAAAACAGTAATTTCGTAAATCG
29340951 AGGGTA
1 AGGGTA
29340957 CTTTGATAAT
Statistics
Matches: 394, Mismatches: 48, Indels: 46
0.81 0.10 0.09
Matches are distributed among these distances:
25 4 0.01
26 18 0.05
27 349 0.89
28 19 0.05
29 4 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACAGTAATTTCGTAAATCG
Found at i:29340534 original size:54 final size:55
Alignment explanation
Indices: 29340465--29340956 Score: 538
Period size: 54 Copynumber: 9.1 Consensus size: 55
29340455 TAACACCCTA
* ** * * *
29340465 AGGGTAAAACGGTAATTTCATAAATTGAGGGTAAAACGA-TAACTT-TGTAAATTG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAA-TTCTATAAATCG
* *
29340519 AGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * * * * *
29340573 AGGGTAAAACAGTAATTCTATCAATAGAGGGTAAAATGA-TAATTTTATAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * *
29340627 AGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAAC-AGTAATTCTTTAAATAG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * * * *
29340681 AGGGTAAAATAATAATTTTGTAAATCAAGGGTAAAAC-AATAATTCTATCAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * * *
29340735 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * * * *
29340789 AGGGTAAAATAGTAACTCTGTAAAAT-AAGGGTAAAAC-AGTAATTCTATAAATCA
1 AGGGTAAAACAGTAATTTTGT-AAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * * *
29340843 AGGGTAAAATAGTAATTTTGTAAATCAAGGGTAAAACG-GTAATTTTGTAAATCG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
* * * *
29340897 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAAC-AGTAATTTTTTAATTCG
1 AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
29340951 AGGGTA
1 AGGGTA
29340957 CTTTGATAAT
Statistics
Matches: 372, Mismatches: 56, Indels: 20
0.83 0.12 0.04
Matches are distributed among these distances:
53 8 0.02
54 359 0.97
55 5 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (55 bp):
AGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAACGAGTAATTCTATAAATCG
Found at i:29340603 original size:81 final size:81
Alignment explanation
Indices: 29340465--29340956 Score: 609
Period size: 81 Copynumber: 6.1 Consensus size: 81
29340455 TAACACCCTA
* * *
29340465 AGGGTAAAACGGTAATT-TCATAAATTGAGGGTAAAAC-GATAACTT-TGTAAATTGAGGGTAAA
1 AGGGTAAAACAGTAATTCT-ATAAATCGAGGGTAAAACAG-TAA-TTCTGTAAATAGAGGGTAAA
29340527 ATAGTAATTTTGTAAATCG
63 ATAGTAATTTTGTAAATCG
* * *
29340546 AGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATCAATAGAGGGTAAAAT-
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATAGAGGGTAAAATA
*
29340610 GATAATTTTATAAATCG
66 G-TAATTTTGTAAATCG
* * * *
29340627 AGGGTAAAACAGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTTTAAATAGAGGGTAAAATA
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATAGAGGGTAAAATA
* *
29340692 ATAATTTTGTAAATCA
66 GTAATTTTGTAAATCG
* * * * *
29340708 AGGGTAAAACAATAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAATA
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATAGAGGGTAAAATA
29340773 GTAATTTTGTAAATCG
66 GTAATTTTGTAAATCG
* * * * *
29340789 AGGGTAAAATAGTAACTCTGTAAAAT-AAGGGTAAAACAGTAATTCTATAAATCA-AGGGTAAAA
1 AGGGTAAAACAGTAATTCTAT-AAATCGAGGGTAAAACAGTAATTCTGTAAAT-AGAGGGTAAAA
*
29340852 TAGTAATTTTGTAAATCA
64 TAGTAATTTTGTAAATCG
* * * * *
29340870 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACA
1 AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATAGAGGGTAAAATA
* *
29340935 GTAATTTTTTAATTCG
66 GTAATTTTGTAAATCG
29340951 AGGGTA
1 AGGGTA
29340957 CTTTGATAAT
Statistics
Matches: 353, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
80 7 0.02
81 341 0.97
82 5 0.01
ACGTcount: A:0.43, C:0.07, G:0.20, T:0.30
Consensus pattern (81 bp):
AGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATAGAGGGTAAAATA
GTAATTTTGTAAATCG
Found at i:29340978 original size:27 final size:25
Alignment explanation
Indices: 29340941--29341024 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 25
29340931 AACAGTAATT
*
29340941 TTTTAATTCGAGGGTACTTTGA-TAA
1 TTTTAATTCGAGGGTA-TTTCAGTAA
29340966 TTTTACATGTCGAGGGTATTTCAGTAA
1 TTTTA-AT-TCGAGGGTATTTCAGTAA
* *
29340993 TTTTGCAA-ACTGAGGGTATTTCGGTAA
1 TTTT--AATTC-GAGGGTATTTCAGTAA
29341020 TTTTA
1 TTTTA
29341025 CAAATCGAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
25 6 0.12
26 7 0.14
27 35 0.70
28 1 0.02
29 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (25 bp):
TTTTAATTCGAGGGTATTTCAGTAA
Found at i:29340991 original size:54 final size:52
Alignment explanation
Indices: 29340933--29341102 Score: 155
Period size: 54 Copynumber: 3.2 Consensus size: 52
29340923 GAGGGTAAAA
* * *
29340933 CAGTAATTTTTTAATTCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTT
1 CAGTAATTTTATAA-ACGAGGGTACTTTGGTAATTTTACAT-TCGAGGGTATTT
** * **
29340987 CAGTAATTTTGCAAACTGAGGGTA-TTTCGGTAATTTTACAAATCGAGAATATTT
1 CAGTAATTTTATAAAC-GAGGGTACTTT-GGTAATTTTAC-ATTCGAGGGTATTT
** * *
29341041 GGGTACTTTTATAAACCGAGGGTACTTTGGTAATTTTACAATT-GGGGGTATTT
1 CAGTAATTTTATAAA-CGAGGGTACTTTGGTAATTTTAC-ATTCGAGGGTATTT
29341094 CAGTAATTT
1 CAGTAATTT
29341103 GGTAGACTAA
Statistics
Matches: 92, Mismatches: 19, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
53 17 0.18
54 70 0.76
55 5 0.05
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (52 bp):
CAGTAATTTTATAAACGAGGGTACTTTGGTAATTTTACATTCGAGGGTATTT
Found at i:29341028 original size:27 final size:27
Alignment explanation
Indices: 29340977--29341102 Score: 114
Period size: 27 Copynumber: 4.7 Consensus size: 27
29340967 TTTACATGTC
* *
29340977 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTTACAAACT
29341004 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTTCGGTAATTTTACAAACT
** * * * *
29341030 CGAGAATATTTGGGTACTTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTACAAACT
*
29341058 GAGGGTACTTT-GGTAATTTTAC-AATT
1 GAGGGTA-TTTCGGTAATTTTACAAACT
* *
29341084 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCGGTAATTT
29341103 GGTAGACTAA
Statistics
Matches: 79, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
25 3 0.04
26 16 0.20
27 57 0.72
28 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAACT
Found at i:29343172 original size:30 final size:30
Alignment explanation
Indices: 29343136--29343192 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
29343126 ACTATGTGTA
*
29343136 AGACCATATCTGGGATATGGCATCAATACG
1 AGACCATATCTAGGATATGGCATCAATACG
*
29343166 AGACCATATTTAGGATATGGCATCAAT
1 AGACCATATCTAGGATATGGCATCAAT
29343193 GTGAGATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (30 bp):
AGACCATATCTAGGATATGGCATCAATACG
Found at i:29350652 original size:42 final size:41
Alignment explanation
Indices: 29350501--29350653 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 41
29350491 TGAGACTATG
* * *
29350501 TGTAAAGCCATATCT-GGAATATGACATCAATATGAGACTTCA
1 TGTAAAACCATATCTAGG-ATATGGCATCGATATGAGA-TTCA
* * * **
29350543 TGTAAGACCATATCTGGGATATGGCATCGATGTGAGATTTTT
1 TGTAAAACCATATCTAGGATATGGCATCGATATGAGA-TTCA
* * *
29350585 TGTAAGA-CATAGCTAGGCTATTGGCATCGATATGAGATTACA
1 TGTAAAACCATATCTAGGATA-TGGCATCGATATGAGATT-CA
29350627 TGTAAAACCATATCTAGGATATGGCAT
1 TGTAAAACCATATCTAGGATATGGCAT
29350654 TGGTATGGTA
Statistics
Matches: 90, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
41 12 0.13
42 65 0.72
43 13 0.14
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (41 bp):
TGTAAAACCATATCTAGGATATGGCATCGATATGAGATTCA
Found at i:29351653 original size:13 final size:13
Alignment explanation
Indices: 29351635--29351664 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
29351625 GGCACGGGCA
29351635 TGTGCCCTAGGCG
1 TGTGCCCTAGGCG
*
29351648 TGTGCCCTGGGCG
1 TGTGCCCTAGGCG
29351661 TGTG
1 TGTG
29351665 AAGTCTACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.27, G:0.43, T:0.27
Consensus pattern (13 bp):
TGTGCCCTAGGCG
Found at i:29358662 original size:27 final size:27
Alignment explanation
Indices: 29358605--29358780 Score: 157
Period size: 27 Copynumber: 6.5 Consensus size: 27
29358595 AAATTGTACA
* * *
29358605 GCACTATGTGTGCG-ATTTACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGAT
* *
29358631 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGAT
*
29358658 GCACTAAGTGTGCGAATTGACCATGCA-
1 GCACTAAGTGTGCGAATTGACTATG-AT
29358685 GCACTAAGTGTGCGAGATTGACTATG-T
1 GCACTAAGTGTGCGA-ATTGACTATGAT
* *
29358712 AGCACTAAGTGTGC-AATTTGATTACG-T
1 -GCACTAAGTGTGCGAA-TTGACTATGAT
* *
29358739 AGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGAATTGACTATGAT
*
29358766 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
29358781 GACTCAATAT
Statistics
Matches: 128, Mismatches: 14, Indels: 15
0.82 0.09 0.10
Matches are distributed among these distances:
26 14 0.11
27 90 0.70
28 24 0.19
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGAT
Found at i:29358698 original size:54 final size:55
Alignment explanation
Indices: 29358604--29358780 Score: 193
Period size: 54 Copynumber: 3.3 Consensus size: 55
29358594 TAAATTGTAC
* * * *
29358604 AGCACTATGTGTGCG-ATTTACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
* * *
29358658 -GCACTAAGTGTGCGAATTGACCATGCAGCACTAAGTGTGCGAGATTGACTATG-T
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGA-ATTGAATATGAT
* * * *
29358712 AGCACTAAGTGTGC-AATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGAA-TTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
*
29358766 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29358781 GACTCAATAT
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
53 13 0.13
54 47 0.46
55 43 0.42
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAATTGAATATGAT
Found at i:29358770 original size:82 final size:81
Alignment explanation
Indices: 29358601--29358782 Score: 208
Period size: 82 Copynumber: 2.2 Consensus size: 81
29358591 GATTAAATTG
* * * *
29358601 TACAGCACTATGTGTGC-GATTTACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29358665 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *
29358681 TGCAGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGC-AATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCG-GATTGACTATGTAGCACTAAGTGTGCGAA-ATGAATACGAT-GCAC
* **
29358744 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
29358763 TATAGCACTGAGTGTGCGGA
1 TACAGCACTAAGTGTGCGGA
29358783 CTCAATATAC
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
80 15 0.18
81 5 0.06
82 65 0.76
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29366269 original size:27 final size:27
Alignment explanation
Indices: 29366211--29366387 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
29366201 TAAATTGTAC
* *
29366211 AGCACTATGTGTGCG-ATTTACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
29366237 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
29366263 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
*
29366291 GGCACTAAGTGTGCGAGATTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * *
29366319 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
29366346 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
29366373 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29366388 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 13 0.10
27 90 0.71
28 24 0.19
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:29366378 original size:82 final size:81
Alignment explanation
Indices: 29366208--29366389 Score: 206
Period size: 82 Copynumber: 2.2 Consensus size: 81
29366198 GATTAAATTG
* * * *
29366208 TACAGCACTATGTGTGC-GATTTACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
29366272 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
29366288 TGCGGCACTAAGTGTGCGAGATTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCG-GATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
29366352 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
29366370 TATAGCACTGAGTGTGCGGA
1 TACAGCACTAAGTGTGCGGA
29366390 CTCAATATAC
Statistics
Matches: 83, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
80 14 0.17
81 3 0.04
82 66 0.80
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGGATTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:29377201 original size:51 final size:51
Alignment explanation
Indices: 29377116--29377240 Score: 146
Period size: 51 Copynumber: 2.5 Consensus size: 51
29377106 CGGATTCCCG
* *
29377116 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTT-CAAAAA
1 GTGGCCTGCACATAGTACCACACTTGTAGCCAAAGCTACCTT-TTACAAAAA
* * * * *
29377167 GTGGCCTTCACATAGTACCACACTTGT-GACCAAAGTTATCTTTTACACATA
1 GTGGCCTGCACATAGTACCACACTTGTAG-CCAAAGCTACCTTTTACAAAAA
*
29377218 GTGGCCTGCACTTAGTACCACAC
1 GTGGCCTGCACATAGTACCACAC
29377241 ATATGATCGA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
50 3 0.05
51 60 0.95
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (51 bp):
GTGGCCTGCACATAGTACCACACTTGTAGCCAAAGCTACCTTTTACAAAAA
Found at i:29386336 original size:57 final size:58
Alignment explanation
Indices: 29386229--29386338 Score: 136
Period size: 57 Copynumber: 1.9 Consensus size: 58
29386219 AGCCGAGATG
* * * *
29386229 GGTAATCCTAATATAATCCCTCTCGAGCATGTGTTACAATTAGGGTTTAGCCTGGACT
1 GGTAATCCTAATATAAGCCCTCTCGAGCATATGTTACAATAAGGATTTAGCCTGGACT
*
29386287 GGTAATCCTAAT-TGAGCCCT-TCGGAGCATATGTTAC-ATAAAGGATTTAGCCT
1 GGTAATCCTAATATAAGCCCTCTC-GAGCATATGTTACAAT-AAGGATTTAGCCT
29386339 AGAATGGTTG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
56 4 0.09
57 29 0.64
58 12 0.27
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (58 bp):
GGTAATCCTAATATAAGCCCTCTCGAGCATATGTTACAATAAGGATTTAGCCTGGACT
Found at i:29399605 original size:22 final size:21
Alignment explanation
Indices: 29399580--29399644 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
29399570 GTAAATACGT
29399580 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
29399602 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
29399624 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
29399645 AATAATTGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:29400157 original size:27 final size:27
Alignment explanation
Indices: 29400125--29400556 Score: 296
Period size: 27 Copynumber: 16.0 Consensus size: 27
29400115 TTGGTAAATC
*
29400125 TACAAACCAAGGGTATTTTAGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * *
29400152 TGCAAACCAATGGTATTTCTA-TAATTTT
1 TACAAATCAAGGGTATTT-TAGTAA-TTT
**
29400180 TTTAAAGTCAAGGGTATTTCTA-TAATTT
1 TACAAA-TCAAGGGTATTT-TAGTAATTT
** * * *
29400208 TGTAAATTAGGGGTATTTTTGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* **
29400235 TCCAAATCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * * *
29400262 TCCAAATTAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
**
29400289 TACAAATCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* ** *
29400316 TACAAGTTGAGGGTA-TTTCGATAATTT
1 TACAAATCAAGGGTATTTTAG-TAATTT
* *
29400343 TACAAGTCAAGGGTATTTCAGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * * *
29400370 TACAAGTCGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * ** * *
29400397 CACAAGTTGAGGGTATTTCAATAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * *
29400424 CACAAATTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
* * * *
29400451 TATAAATCAATGGTAATTTGGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
*** * *
29400478 TGTTAATCGAGGGTGTTTTAGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
** * *
29400505 TTTAAACCAAAGGTA-TTTAGTAATTT
1 TACAAATCAAGGGTATTTTAGTAATTT
** *
29400531 TGTAAACCAAGGGTATTTTAGTAATT
1 TACAAATCAAGGGTATTTTAGTAATT
29400557 CTACCTTACA
Statistics
Matches: 337, Mismatches: 61, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
26 28 0.08
27 273 0.81
28 20 0.06
29 16 0.05
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTTAGTAATTT
Found at i:29400544 original size:53 final size:54
Alignment explanation
Indices: 29400432--29400556 Score: 162
Period size: 53 Copynumber: 2.3 Consensus size: 54
29400422 TTCACAAATT
* * * * * *
29400432 AAGGGTATTTTGGTAATTTTATAAATCAATGGTAATTTGGTAATTTTGTTAATC
1 AAGGGTATTTTAGTAATTTTATAAACCAAAGGTAATTTAGTAATTTTGTAAACC
* * *
29400486 GAGGGTGTTTTAGTAATTTTTTAAACCAAAGGT-ATTTAGTAATTTTGTAAACC
1 AAGGGTATTTTAGTAATTTTATAAACCAAAGGTAATTTAGTAATTTTGTAAACC
29400539 AAGGGTATTTTAGTAATT
1 AAGGGTATTTTAGTAATT
29400557 CTACCTTACA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
53 33 0.55
54 27 0.45
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.44
Consensus pattern (54 bp):
AAGGGTATTTTAGTAATTTTATAAACCAAAGGTAATTTAGTAATTTTGTAAACC
Found at i:29400686 original size:18 final size:17
Alignment explanation
Indices: 29400653--29400687 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
29400643 ATTTATCCAC
*
29400653 TTGGGCCCTTTGGCCCA
1 TTGGGCCCTATGGCCCA
29400670 TTGGGCCCATATGGCCCA
1 TTGGGCCC-TATGGCCCA
29400688 AAGCAACCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.34, G:0.29, T:0.26
Consensus pattern (17 bp):
TTGGGCCCTATGGCCCA
Found at i:29403521 original size:41 final size:41
Alignment explanation
Indices: 29403459--29403608 Score: 194
Period size: 41 Copynumber: 3.7 Consensus size: 41
29403449 TCGGGGTTTA
*
29403459 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCTAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* *
29403500 AATCTGAGCTTGGTCTCGAAGGGCTTTTAAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * *
29403541 AA-CCGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
29403581 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
29403609 TGAGTCAGCG
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 30 0.34
41 59 0.66
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:29409755 original size:37 final size:37
Alignment explanation
Indices: 29409705--29409783 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
29409695 TTATTACGAA
* * *
29409705 GTCTTACCCGGACATAA-TCTCCACATGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
29409742 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
29409779 GTCTT
1 GTCTT
29409784 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:29409980 original size:47 final size:47
Alignment explanation
Indices: 29409902--29410236 Score: 526
Period size: 47 Copynumber: 7.1 Consensus size: 47
29409892 CCCTTCGGGA
* * * * * *
29409902 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
29409949 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29409996 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29410043 CTTATCACATATATACACTTTGACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
29410090 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29410137 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29410184 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29410233 CTTA
1 CTTA
29410237 CTATCATTTC
Statistics
Matches: 268, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 226 0.84
49 42 0.16
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29413708 original size:40 final size:40
Alignment explanation
Indices: 29413651--29413833 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
29413641 CCAGCATGAT
* *
29413651 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
29413691 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
29413731 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
29413772 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
29413812 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
29413834 CATCATTCGA
Statistics
Matches: 119, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:29414180 original size:29 final size:29
Alignment explanation
Indices: 29414141--29414219 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 29
29414131 CTTAATAATC
**
29414141 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATCCA-TTTCA
*
29414171 AACTCGCACACTTAGTGCCATCCATTTCA
1 AACCCGCACACTTAGTGCCATCCATTTCA
*
29414200 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
29414220 ATCTCACAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 3 0.07
29 37 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.34, G:0.14, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATCCATTTCA
Found at i:29414262 original size:43 final size:43
Alignment explanation
Indices: 29414201--29414303 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
29414191 TCCATTTCAA
29414201 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29414244 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
29414287 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
29414304 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:29416204 original size:37 final size:37
Alignment explanation
Indices: 29416154--29416232 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
29416144 TTATTACGAA
* *
29416154 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
29416191 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
29416228 GTCTT
1 GTCTT
29416233 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
Found at i:29416539 original size:49 final size:47
Alignment explanation
Indices: 29416351--29416687 Score: 521
Period size: 47 Copynumber: 7.1 Consensus size: 47
29416341 CCCTTCGGGA
* * * * * * *
29416351 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
***
29416398 CCCGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29416445 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29416492 CTTATCACATATATACACTTTCACATTCATCACATCGGCGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGC-C-ATTAGGC
*
29416541 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
29416588 CTTATGACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTAT--CACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29416637 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
29416684 CTTA
1 CTTA
29416688 CTATCATTTC
Statistics
Matches: 267, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 176 0.66
48 1 0.00
49 90 0.34
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:29416570 original size:96 final size:94
Alignment explanation
Indices: 29416351--29416687 Score: 521
Period size: 96 Copynumber: 3.5 Consensus size: 94
29416341 CCCTTCGGGA
* * * * * * * ***
29416351 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCCGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
29416416 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
29416445 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
29416510 TTTCACATTCATCACATCGGCGCTATTAGGC
66 TTTCACATTCATCACATCGGC-C-ATTAGGC
* *
29416541 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATGACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT--CACATATATAC
29416606 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
29416637 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
29416688 CTATCATTTC
Statistics
Matches: 224, Mismatches: 15, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
94 75 0.33
95 1 0.00
96 114 0.51
97 1 0.00
98 33 0.15
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:29425916 original size:47 final size:44
Alignment explanation
Indices: 29425846--29425971 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 44
29425836 GGGTTATTGT
29425846 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACCACATT-ATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-A--ACATTGATGA
* *
29425892 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACATT--GATGA
*
29425940 GTGCTAGTGTAAGACATGTCTGGGACATGCAT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCAT
29425972 TGGCCTCGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
45 4 0.06
46 17 0.24
47 29 0.41
48 21 0.30
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACATTGATGA
Found at i:29426073 original size:44 final size:48
Alignment explanation
Indices: 29425846--29426119 Score: 137
Period size: 46 Copynumber: 5.8 Consensus size: 48
29425836 GGGTTATTGT
* * * **
29425846 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCACATTATG--A
1 GAGCTAATGTAAGACCATGTCTGGGACAGGCATCG-GCACAGAATGCTA
* * * **
29425892 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCATTGAGATG--A
1 GAGCTAATGTAAGACCATGTCTGGGACA-GGCATCGGCACAGA-ATGCTA
* * * * * *
29425940 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATTGGC-CTCGAGACG-TA
1 GAGCTAATGTAAGACCATGTCTGGGACAGGCATCGGCAC-AGA-ATGCTA
* * ** * *
29425987 AATC-AGGGTAAGA-CATGTCTAGGACATGCATCGGCTACCAG-ATG-T-
1 GAGCTAATGTAAGACCATGTCTGGGACAGGCATCGGC-A-CAGAATGCTA
*
29426032 G-TC-AATGTAAGACCATGTCTGGGACACGGCATCGGCACAGATATGCTA
1 GAGCTAATGTAAGACCATGTCTGGGACA-GGCATCGGCACAGA-ATGCTA
*
29426080 GAGCTTATGTAAGACCATGTCTGGGACATGGCATCGGCAC
1 GAGCTAATGTAAGACCATGTCTGGGACA-GGCATCGGCAC
29426120 CTTACCCTAT
Statistics
Matches: 180, Mismatches: 32, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 12 0.07
45 13 0.07
46 66 0.37
47 31 0.17
48 23 0.13
49 2 0.01
50 33 0.18
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GAGCTAATGTAAGACCATGTCTGGGACAGGCATCGGCACAGAATGCTA
Found at i:29428215 original size:40 final size:40
Alignment explanation
Indices: 29428033--29428255 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
29428023 TCCTCGTTCA
* * * * *
29428033 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
29428072 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
29428112 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
29428152 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
29428192 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
29428232 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
29428256 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:29428264 original size:41 final size:41
Alignment explanation
Indices: 29428187--29428264 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
29428177 TTAGTATCTC
* * *
29428187 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
29428228 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
29428265 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:29452018 original size:46 final size:46
Alignment explanation
Indices: 29451968--29452139 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
29451958 TGAGAATCCA
29451968 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTG
* * * * *
29452014 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCTG
* *
29452061 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTG
*
29452107 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29452140 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTG
Found at i:29452127 original size:93 final size:93
Alignment explanation
Indices: 29451963--29452131 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
29451953 ATGGTTGAGA
* *
29451963 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGTTG
1 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGTTG
29452028 AGTCCGAGTTCGTGAAATGTAACTAGGC
66 AGTCCGAGTTCGTGAAATGTAACTAGGC
* *
29452056 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTGAGTTG
1 ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGTTG
29452121 AGTCCGAGTTC
66 AGTCCGAGTTC
29452132 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
ATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAACTCGTTGAGTTG
AGTCCGAGTTCGTGAAATGTAACTAGGC
Found at i:29456201 original size:27 final size:27
Alignment explanation
Indices: 29456170--29456244 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
29456160 TACTTTATAG
* *
29456170 GGGTATGTCGATCATTTTACACTACAA
1 GGGTATTTCGATAATTTTACACTACAA
* * **
29456197 TGGTATTTTGGGAATTTTACACTACAA
1 GGGTATTTCGATAATTTTACACTACAA
29456224 GGGTATTTCGATAATTTTACA
1 GGGTATTTCGATAATTTTACA
29456245 AATCGGGGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACACTACAA
Found at i:29456254 original size:27 final size:27
Alignment explanation
Indices: 29456223--29456614 Score: 334
Period size: 27 Copynumber: 14.7 Consensus size: 27
29456213 TTACACTACA
29456223 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
29456250 GGGGTGTTTC-AGTAATTTTATAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
*
29456277 AGGGTATTTC-AGTAATTTTACAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* * *
29456304 ATGGTATTTC-AGTAATTTAACAAATCA
1 AGGGTATTTCGA-TAATTTTACAAATCG
* **
29456331 AGGATATTTCGATAATTTTACAAATTA
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29456358 AGGGTGTTTCGATAATTTCACAACTCG
1 AGGGTATTTCGATAATTTTACAAATCG
* *
29456385 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29456412 AGGGTATTT-TAGTAATCTCAC-AATC-
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
29456437 AAGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
29456464 GGGGTATTTTGGTAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * * *
29456491 AGGGTGTTTTGGTAATTTCACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29456518 -GGGGA-TTCCAGTAATTTTACAAATTG
1 AGGGTATTTCGA-TAATTTTACAAATCG
* *
29456544 AGGGTATTTCGGTAATTTCAC-AATCG
1 AGGGTATTTCGATAATTTTACAAATCG
*
29456570 AGGGTATTTCGATAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCG
* * *
29456597 GGGGTATTTTGGTAATTT
1 AGGGTATTTCGATAATTT
29456615 CTCTTTATTA
Statistics
Matches: 292, Mismatches: 63, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
25 17 0.06
26 46 0.16
27 225 0.77
28 4 0.01
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGATAATTTTACAAATCG
Found at i:29456497 original size:133 final size:132
Alignment explanation
Indices: 29456198--29456611 Score: 479
Period size: 133 Copynumber: 3.1 Consensus size: 132
29456188 ACACTACAAT
* * * * * *
29456198 GGTATTTTGGGAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCGGGGGTGTTTCAG
1 GGTATTTTGGTAACTTTACAAAT-CAAGGGTGTTTCGATAATTTCACAAATC-GGGGTATTTCAG
* * * * * *
29456262 TAATTTTATAAATTGAGGGTATTTCAGTAATTTTACAAATTGATGGTATTTCAGTAATTTAACAA
64 TAATTTTACAAATTGAGGGTATTTCAGTAATTTCAC-AA-TCAAGGTATTTCGGTAATTTTACAA
**
29456327 ATCAAG
127 ATCGGG
* * * * * * *
29456333 GATATTTCGATAATTTTACAAATTAAGGGTGTTTCGATAATTTCACAACTCGAGGGTATTTCGGT
1 GGTATTTTGGTAACTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCG-GGGTATTTCAGT
* *
29456398 AATTTTACAAATTGAGGGTATTTTAGTAATCTCACAATCAAGGTATTTCGGTAATTTTACAAATC
65 AATTTTACAAATTGAGGGTATTTCAGTAATTTCACAATCAAGGTATTTCGGTAATTTTACAAATC
29456463 GGG
130 GGG
* * * * *
29456466 GGTATTTTGGTAACTTTACAAATCGAGGGTGTTTTGGTAATTTCACAAATCGGGGGATTCCAGTA
1 GGTATTTTGGTAACTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCGGGGTATTTCAGTA
* * * *
29456531 ATTTTACAAATTGAGGGTATTTCGGTAATTTCACAATCGAGGGTATTTCGATAACTTTACAAATC
66 ATTTTACAAATTGAGGGTATTTCAGTAATTTCACAATC-AAGGTATTTCGGTAATTTTACAAATC
29456596 GGG
130 GGG
29456599 GGTATTTTGGTAA
1 GGTATTTTGGTAA
29456612 TTTCTCTTTA
Statistics
Matches: 237, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
132 45 0.19
133 107 0.45
134 3 0.01
135 80 0.34
136 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (132 bp):
GGTATTTTGGTAACTTTACAAATCAAGGGTGTTTCGATAATTTCACAAATCGGGGTATTTCAGTA
ATTTTACAAATTGAGGGTATTTCAGTAATTTCACAATCAAGGTATTTCGGTAATTTTACAAATCG
GG
Found at i:29463339 original size:34 final size:34
Alignment explanation
Indices: 29463296--29463363 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
29463286 ATTTTGAAAG
*
29463296 AAATTACAAGAGGCTTTGGGTATGAAGTTAAATT
1 AAATTACAAGAGGCTTTGGGTACGAAGTTAAATT
29463330 AAATTACAAGAGGCTTTGGGTACGAAGTTAAATT
1 AAATTACAAGAGGCTTTGGGTACGAAGTTAAATT
29463364 TTAGTACTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (34 bp):
AAATTACAAGAGGCTTTGGGTACGAAGTTAAATT
Found at i:29475352 original size:47 final size:47
Alignment explanation
Indices: 29475293--29475716 Score: 722
Period size: 47 Copynumber: 8.9 Consensus size: 47
29475283 TAGTATGGCG
*
29475293 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
29475340 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
29475387 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
29475434 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
29475481 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
29475530 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
29475579 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
29475626 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
29475673 GAGTGGCCGATGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29475717 TCCCGAAGGG
Statistics
Matches: 360, Mismatches: 15, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 266 0.74
49 94 0.26
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:29475909 original size:37 final size:37
Alignment explanation
Indices: 29475835--29475913 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
29475825 CCGAGCTCTA
* * * *
29475835 AAGACCCGATGACTACGTATGGGGATTTTGTCTGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
* *
29475872 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
29475909 AAGAC
1 AAGAC
29475914 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
Found at i:29481792 original size:43 final size:43
Alignment explanation
Indices: 29481651--29481828 Score: 157
Period size: 43 Copynumber: 4.2 Consensus size: 43
29481641 TCACACATAT
* * * *
29481651 CATA-CAATGCCAACGTCCCAAATGTGGTCTTACATGTAATCA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACA
** * ** *
29481693 CATATTGATGCC-ACTGTCCCATACAAGGTCTTACACGTAATCA
1 CATATCAATGCCAAC-GTCCCAGACGTGGTCTTACACGTAAACA
* *
29481736 CATATCGATGCCAATGTCCCAGACGTGGTCTTACACG-AGAACA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTA-AACA
* * **
29481779 CATATCAATGCCAACATCCCAGATGTCTTCTTACACG-AGAACA
1 CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTA-AACA
29481822 CATATCA
1 CATATCA
29481829 GAAATCCTAT
Statistics
Matches: 113, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
42 7 0.06
43 105 0.93
44 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.25
Consensus pattern (43 bp):
CATATCAATGCCAACGTCCCAGACGTGGTCTTACACGTAAACA
Found at i:29485997 original size:40 final size:40
Alignment explanation
Indices: 29485918--29486094 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
29485908 CGGATGATAA
* * * *
29485918 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * * *
29485958 CCGGGCTATGTCCCGGAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
29485998 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
29486038 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
29486078 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
29486095 ATACTTGGGT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 98 0.84
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:29486362 original size:22 final size:22
Alignment explanation
Indices: 29486322--29486363 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
29486312 GAATGTGCAT
*
29486322 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
29486344 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
29486364 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:29492419 original size:31 final size:31
Alignment explanation
Indices: 29492381--29492443 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
29492371 TCAATTTGAA
*
29492381 ATTAGGTCTAGGTTTCACACGGCCAAGACAC
1 ATTAGGTCCAGGTTTCACACGGCCAAGACAC
29492412 ATTAGGTCCAGGTTTCACACGGCCAAGACAC
1 ATTAGGTCCAGGTTTCACACGGCCAAGACAC
29492443 A
1 A
29492444 CTCCCGTGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.21
Consensus pattern (31 bp):
ATTAGGTCCAGGTTTCACACGGCCAAGACAC
Found at i:29504205 original size:21 final size:21
Alignment explanation
Indices: 29504180--29504219 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
29504170 CTGGAAGTAC
29504180 GAAAATGTACAATGATTTGAA
1 GAAAATGTACAATGATTTGAA
29504201 GAAAATGTACAATGATTTG
1 GAAAATGTACAATGATTTG
29504220 GAGGTATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.05, G:0.20, T:0.30
Consensus pattern (21 bp):
GAAAATGTACAATGATTTGAA
Found at i:29508664 original size:18 final size:19
Alignment explanation
Indices: 29508621--29508665 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
29508611 TAGGCCATGT
29508621 GGCCCTA-ATGGGCTCGTG
1 GGCCCTATATGGGCTCGTG
29508639 GGCCCTATA-GGGCTCGTG
1 GGCCCTATATGGGCTCGTG
29508657 GGCCCTATA
1 GGCCCTATA
29508666 CAGATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.13, C:0.29, G:0.36, T:0.22
Consensus pattern (19 bp):
GGCCCTATATGGGCTCGTG
Found at i:29516419 original size:50 final size:50
Alignment explanation
Indices: 29516359--29517246 Score: 1338
Period size: 50 Copynumber: 17.9 Consensus size: 50
29516349 TTGATGTATA
*
29516359 AGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29516409 AGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
29516459 AGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATGTATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* * *
29516509 AGATATGTCTATGTAGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29516557 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATG
*
29516609 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* **
29516657 AGATATGTATATGTGGTAAAGCCGAATGGGTAATGCAAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* *
29516707 AGATATGTATATGTGGTAAAGCCGAATGGGTAATGTGAAATGTATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29516757 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29516805 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
29516853 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAAATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT---ATA--TATG
*
29516908 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
* * *
29516956 AGATATGCATATGTGGTAAAGCCGAATGGATAATGCGAAATATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATG
*
29517008 AGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29517058 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29517106 AGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTGAAATATATATATG
* * *
29517156 AGATATGTATTTGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATG
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
*
29517204 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
29517247 GTAGGCGATG
Statistics
Matches: 771, Mismatches: 44, Indels: 46
0.90 0.05 0.05
Matches are distributed among these distances:
47 1 0.00
48 299 0.39
49 17 0.02
50 316 0.41
51 5 0.01
52 86 0.11
53 4 0.01
54 2 0.00
55 41 0.05
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (50 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATG
Found at i:29516576 original size:48 final size:48
Alignment explanation
Indices: 29516352--29517249 Score: 1267
Period size: 48 Copynumber: 18.1 Consensus size: 48
29516342 GCTGAAATTG
* *
29516352 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
29516402 ATATATGAGATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
29516452 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA--T
* * *
29516502 ATATATGAGATATGTCTATGTAGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
29516550 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-AT
*
29516602 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* **
29516650 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGGTAATGCAAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATG-TGAA-AT
* *
29516700 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGGTAATGTGAAATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAA--T
*
29516750 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29516798 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29516846 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAA--TG-----TGAAAT
29516901 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
29516949 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGGATAATGCGAAATATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A-AT
* *
29517001 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
*
29517051 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
29517099 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * *
29517149 ATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
29517197 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29517245 ATGTA
1 ATGTA
29517250 GGCGATGTGT
Statistics
Matches: 783, Mismatches: 40, Indels: 52
0.89 0.05 0.06
Matches are distributed among these distances:
47 1 0.00
48 315 0.40
49 13 0.02
50 315 0.40
51 5 0.01
52 86 0.11
53 2 0.00
55 46 0.06
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:29516585 original size:98 final size:98
Alignment explanation
Indices: 29516352--29517249 Score: 1342
Period size: 98 Copynumber: 9.1 Consensus size: 98
29516342 GCTGAAATTG
* *
29516352 ATGTATAAGATACGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
*
29516417 ATATGTGGTAAAGTCGAATGGCTAATGTGAAATAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
29516452 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGTTAATGTGAAATGTATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
* *
29516517 CTATGTAGTAAAGCCGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
29516550 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATATATATATGAGATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATGAGATAT
29516615 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
64 GTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* **
29516650 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGGTAATGCAAAATATATATATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
*
29516715 ATATGTGGTAAAGCCGAATGGGTAATGTGAAATGT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAA--T
* *
29516750 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
29516813 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29516846 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGAAATATGTATGAGA
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT---ATA--TATGAGA
29516911 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
61 TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* * *
29516949 ATGTATGAGATATGCATATGTGGTAAAGCCGAATGGATAATGCGAAATATATATATATGAGATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATATATATGAGATAT
*
29517014 GTATATGTGGTAAAGCCGAATGGTTAATGTGAAATAT
64 GTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* * *
29517051 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-ATATGTATGAGATATGC
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
29517114 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATAT
66 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-AT
* * * *
29517149 ATATATGAGATATGTATTTGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAGATATGT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
*
29517212 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29517245 ATGTA
1 ATGTA
29517250 GGCGATGTGT
Statistics
Matches: 741, Mismatches: 40, Indels: 38
0.90 0.05 0.05
Matches are distributed among these distances:
96 50 0.07
97 5 0.01
98 276 0.37
99 10 0.01
100 259 0.35
101 4 0.01
102 45 0.06
103 86 0.12
104 2 0.00
105 4 0.01
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.32
Consensus pattern (98 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:29517506 original size:37 final size:37
Alignment explanation
Indices: 29517398--29517506 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
29517388 AAATATATAT
*
29517398 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
29517435 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* **
29517472 TCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
29517507 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29519928 original size:26 final size:25
Alignment explanation
Indices: 29519860--29519929 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 25
29519850 GAATTTTGTT
* **
29519860 TAAATTTTATGAGAGGTAAAATTGTC
1 TAAATTTTACGAG-GGTAAAATCATC
*
29519886 TAAATTATACGAGGGGTAAAATCATC
1 TAAATTTTACGA-GGGTAAAATCATC
29519912 TAAATTTTACAGAGGGTA
1 TAAATTTTAC-GAGGGTA
29519930 TTGGGGTGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 34 0.92
27 3 0.08
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (25 bp):
TAAATTTTACGAGGGTAAAATCATC
Found at i:29520805 original size:27 final size:27
Alignment explanation
Indices: 29520767--29520820 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
29520757 AATGCAAGTG
29520767 AATGAATGCAATATTATATATAATTAC
1 AATGAATGCAATATTATATATAATTAC
29520794 AATGAATGCAATATTATATATAATTAC
1 AATGAATGCAATATTATATATAATTAC
29520821 TATTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (27 bp):
AATGAATGCAATATTATATATAATTAC
Found at i:29524709 original size:17 final size:17
Alignment explanation
Indices: 29524687--29524722 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
29524677 AATTAATATT
*
29524687 AATTAATTAATTTTCTC
1 AATTAAATAATTTTCTC
29524704 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
29524721 AA
1 AA
29524723 CCCGATTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:29529119 original size:47 final size:47
Alignment explanation
Indices: 29529002--29529296 Score: 410
Period size: 47 Copynumber: 6.2 Consensus size: 47
29528992 AATTCTAAAT
29529002 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
29529051 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
29529098 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
29529147 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
29529194 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
29529241 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
29529288 TGTGATAAG
1 TGTGATAAG
29529297 TCCCGAAGGG
Statistics
Matches: 220, Mismatches: 24, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
47 137 0.62
49 83 0.38
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:29529149 original size:96 final size:96
Alignment explanation
Indices: 29529005--29529281 Score: 441
Period size: 96 Copynumber: 2.9 Consensus size: 96
29528995 TCTAAATTGT
29529005 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
29529070 CGATGTGATGAATGTGAAAGTGTATATGTGC
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
*
29529101 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
*
29529166 CGATGTGATGAATGTGAAAGTGTATATGCGT
66 CGATGTGATGAATGTGAAAGTGTATATGCGC
* * * ** *
29529197 GATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
* *
29529260 CAATGTGATGGATGTGAAAGTG
66 CGATGTGATGAATGTGAAAGTG
29529282 CATAAATGTG
Statistics
Matches: 169, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 40 0.24
96 129 0.76
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGCGC
Found at i:29532269 original size:50 final size:49
Alignment explanation
Indices: 29532159--29532334 Score: 190
Period size: 50 Copynumber: 3.5 Consensus size: 49
29532149 CTGGTACGCA
* * * ** *
29532159 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
*
29532208 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AACCATCCGATACACG
**** * * * *
29532258 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACCATCCGATACACG
29532309 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
29532335 TGCGACCTCA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
49 30 0.28
50 43 0.39
51 35 0.32
52 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACCATCCGATACACG
Found at i:29532342 original size:101 final size:99
Alignment explanation
Indices: 29532159--29532342 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 99
29532149 CTGGTACGCA
* *
29532159 TAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
29532224 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * * * * *
29532258 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACATAGTACTACACACGCGA-C-CAATTATCCGGTACACATAGTAGCCTGCACT
*
29532323 TAGTACTACACATGCGACCT
64 TAGTACTACACACGCGACCT
29532343 CACAATAGAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
99 28 0.38
100 1 0.01
101 44 0.60
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:29535936 original size:93 final size:93
Alignment explanation
Indices: 29535823--29535995 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
29535813 CACCCATAAG
* *
29535823 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
29535888 ATGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* *
29535916 CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
29535981 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
29535996 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:29535991 original size:46 final size:46
Alignment explanation
Indices: 29535816--29535991 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
29535806 TGTAACCCAC
* * *
29535816 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* * * *
29535862 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTCG---CAT
* *
29535912 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
29535955 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
29535992 TGCCCAAATA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 66 0.61
47 30 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:29537411 original size:42 final size:43
Alignment explanation
Indices: 29537349--29537471 Score: 124
Period size: 43 Copynumber: 2.9 Consensus size: 43
29537339 AACTAAGAAG
* * ** *
29537349 TCCGAACTCGTTGAGTGGTCCGGGTTCGTGA-GGTATG-TAGCA
1 TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGG-ATGCTAGCA
* *
29537391 TCCGAGCTCATTGAGAGGTCCAAGTTCATTATGGATGCTAGCA
1 TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGCTAGCA
* * **
29537434 TCCGAGCTCGTTGAGTGATCTGAGTTCATGATGGATGC
1 TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGC
29537472 GATTCATGTA
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 27 0.41
43 39 0.59
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGAGGTCCAAGTTCATGATGGATGCTAGCA
Found at i:29545666 original size:42 final size:43
Alignment explanation
Indices: 29545559--29545676 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 43
29545549 GTACCAATGT
* * *
29545559 AATATCCCAGATATGGTCTTACATGTAATCTCGTATCGATGCC
1 AATATCCCAGATATGGTCTTACACGTAATCTCATATCGACGCC
* * *
29545602 AATAGCCCAGCTATGGTCTTACACG-ACGTCTCATATCGACGCC
1 AATATCCCAGATATGGTCTTACACGTA-ATCTCATATCGACGCC
29545645 -ATATCCCAGATATGGTCTTACACGTAATCTCA
1 AATATCCCAGATATGGTCTTACACGTAATCTCA
29545677 GTGACACCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 28 0.44
43 36 0.56
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (43 bp):
AATATCCCAGATATGGTCTTACACGTAATCTCATATCGACGCC
Found at i:29546547 original size:13 final size:12
Alignment explanation
Indices: 29546512--29546549 Score: 67
Period size: 12 Copynumber: 3.1 Consensus size: 12
29546502 TGAGCAACAA
29546512 TTGGCTTTTAAT
1 TTGGCTTTTAAT
29546524 TTGGCTTTTAAT
1 TTGGCTTTTAAT
29546536 TTGGCTTTTTAAT
1 TTGGC-TTTTAAT
29546549 T
1 T
29546550 CATTTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.61
Consensus pattern (12 bp):
TTGGCTTTTAAT
Found at i:29548103 original size:68 final size:66
Alignment explanation
Indices: 29548031--29548254 Score: 254
Period size: 68 Copynumber: 3.3 Consensus size: 66
29548021 CATCATGTGT
* *
29548031 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
29548095 GTAG
63 GTAG
29548099 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
29548164 TAG
64 TAG
* * * * * * *
29548167 ACAAGAGAGCTACGTGAGAGATAAATGTACCTAGGTCGCATGAGTGATTCCAAGTGAAGGA-CAC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGA-T--ACGGGATGTATC-C
29548231 CATGTAG
60 CATGTAG
29548238 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
29548255 TAAATCGGCT
Statistics
Matches: 140, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
68 97 0.69
69 10 0.07
70 6 0.04
71 27 0.19
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTA
G
Found at i:29556444 original size:40 final size:40
Alignment explanation
Indices: 29556400--29556588 Score: 283
Period size: 40 Copynumber: 4.7 Consensus size: 40
29556390 GCTACTTGCT
*
29556400 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGGA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
* *
29556440 CAAATGCCTTCGGGACTTAGCCCGGTTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
29556480 CAAATGCCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
* * *
29556520 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTATAGTAACTCGCA
*
29556560 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGATTAT
29556589 CATCCGAATA
Statistics
Matches: 137, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.01
40 133 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGTAACTCGCA
Found at i:29565323 original size:13 final size:13
Alignment explanation
Indices: 29565305--29565350 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
29565295 TGATTTCATG
29565305 AAAATTTCGTTCA
1 AAAATTTCGTTCA
*
29565318 AAAATTT--TGCA
1 AAAATTTCGTTCA
29565329 TGAAAATTTCGTTCA
1 --AAAATTTCGTTCA
29565344 AAAATTT
1 AAAATTT
29565351 TGACGTTTGG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
11 3 0.11
13 21 0.78
15 3 0.11
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (13 bp):
AAAATTTCGTTCA
Found at i:29565335 original size:26 final size:26
Alignment explanation
Indices: 29565301--29565352 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
29565291 GGAATGATTT
29565301 CATGAAAATTTCGTTCAAAAATTTTG
1 CATGAAAATTTCGTTCAAAAATTTTG
29565327 CATGAAAATTTCGTTCAAAAATTTTG
1 CATGAAAATTTCGTTCAAAAATTTTG
29565353 ACGTTTGGGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (26 bp):
CATGAAAATTTCGTTCAAAAATTTTG
Found at i:29566427 original size:42 final size:42
Alignment explanation
Indices: 29566380--29566473 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 42
29566370 AGATTACGTG
* * *
29566380 TAAGACCATATATGGGTTATGCCATCGGTATGAGAATTCATA
1 TAAGACCATATATGAGATATGCCATCGATATGAGAATTCATA
* * * * *
29566422 TAAGACCATATTTGAGATATGGCATCGATATGAGATTTCGTG
1 TAAGACCATATATGAGATATGCCATCGATATGAGAATTCATA
29566464 TAAGACCATA
1 TAAGACCATA
29566474 GCTAGGCTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (42 bp):
TAAGACCATATATGAGATATGCCATCGATATGAGAATTCATA
Found at i:29569986 original size:39 final size:39
Alignment explanation
Indices: 29569930--29570172 Score: 297
Period size: 39 Copynumber: 6.0 Consensus size: 39
29569920 AAGACACTGA
*
29569930 AAATGTATCCGGCCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
29569969 AAATGTATCCGGGCTAAAGTTCCACAGGCTTCGTGCTGGAAATATATGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC----------TGG
* * *
29570018 AAATGTATCCGGACTAAAATCCTGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
29570057 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
29570096 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
29570135 AAATGTATCTGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
29570173 ATAATATAAT
Statistics
Matches: 178, Mismatches: 16, Indels: 20
0.83 0.07 0.09
Matches are distributed among these distances:
39 144 0.81
49 34 0.19
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:29570046 original size:49 final size:49
Alignment explanation
Indices: 29569966--29570060 Score: 147
Period size: 49 Copynumber: 1.9 Consensus size: 49
29569956 GGCTTCGTGC
* *
29569966 TGGAAATGTATCCGGGCTAAAGTTCCACAGGCTTCGTGCTGGAAATATA
1 TGGAAATGTATCCGGACTAAAGATCCACAGGCTTCGTGCTGGAAATATA
*
29570015 TGGAAATGTATCCGGACTAAA-ATCCTGCAGGCTTCGTGCTGGAAAT
1 TGGAAATGTATCCGGACTAAAGATCC-ACAGGCTTCGTGCTGGAAAT
29570061 GTATCCGGGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
48 3 0.07
49 39 0.93
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (49 bp):
TGGAAATGTATCCGGACTAAAGATCCACAGGCTTCGTGCTGGAAATATA
Found at i:29575833 original size:39 final size:39
Alignment explanation
Indices: 29575779--29576021 Score: 279
Period size: 39 Copynumber: 6.0 Consensus size: 39
29575769 AAGACACTGA
*
29575779 AAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
29575818 AAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGGAAATATATGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC----------TGG
* * *
29575867 AAATGTATCCGGACTAAAATCCTGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
29575906 AAATGTATCCAGGCCAAAGTCCCGCAAGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
29575945 AAATGTATCCGGGCCAAAGTCCCACAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* * *
29575984 AAATGTATCCGGGTTAAAGTCCCGCATGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
29576022 ATAATATAAT
Statistics
Matches: 174, Mismatches: 20, Indels: 20
0.81 0.09 0.09
Matches are distributed among these distances:
39 139 0.80
49 35 0.20
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:29575871 original size:49 final size:49
Alignment explanation
Indices: 29575815--29575909 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
29575805 GGCTTCGTGC
* *
29575815 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTGGAAATATA
1 TGGAAATGTATCCGGACTAAAATCCCACAGGCTTCGTGCTGGAAATATA
**
29575864 TGGAAATGTATCCGGACTAAAATCCTGCAGGCTTCGTGCTGGAAAT
1 TGGAAATGTATCCGGACTAAAATCCCACAGGCTTCGTGCTGGAAAT
29575910 GTATCCAGGC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (49 bp):
TGGAAATGTATCCGGACTAAAATCCCACAGGCTTCGTGCTGGAAATATA
Found at i:29575928 original size:88 final size:88
Alignment explanation
Indices: 29575779--29575948 Score: 270
Period size: 88 Copynumber: 1.9 Consensus size: 88
29575769 AAGACACTGA
* * *
29575779 AAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCCACA
1 AAATGTATCCAGGCTAAAATCCCGCAGGCTTCGTGCTGGAAATGTATCCAGGCCAAAGTCCCACA
*
29575844 GGCTTCGTGCTGGAAATATATGG
66 AGCTTCGTGCTGGAAATATATGG
* *
29575867 AAATGTATCC-GGACTAAAATCCTGCAGGCTTCGTGCTGGAAATGTATCCAGGCCAAAGTCCCGC
1 AAATGTATCCAGG-CTAAAATCCCGCAGGCTTCGTGCTGGAAATGTATCCAGGCCAAAGTCCCAC
29575931 AAGCTTCGTGCTGGAAAT
65 AAGCTTCGTGCTGGAAAT
29575949 GTATCCGGGC
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
87 2 0.03
88 73 0.97
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
AAATGTATCCAGGCTAAAATCCCGCAGGCTTCGTGCTGGAAATGTATCCAGGCCAAAGTCCCACA
AGCTTCGTGCTGGAAATATATGG
Found at i:29578448 original size:27 final size:27
Alignment explanation
Indices: 29578418--29578470 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
29578408 TAGTAATAGT
*
29578418 TGGGCCT-AGCCCATTAACAGAATCAGG
1 TGGGCCTAAGCCCAGT-ACAGAATCAGG
29578445 TGGGCCTAAGCCCAGTACAGAATCAG
1 TGGGCCTAAGCCCAGTACAGAATCAG
29578471 TATCAGATGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 17 0.71
28 7 0.29
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (27 bp):
TGGGCCTAAGCCCAGTACAGAATCAGG
Found at i:29578809 original size:95 final size:95
Alignment explanation
Indices: 29578641--29578843 Score: 289
Period size: 95 Copynumber: 2.1 Consensus size: 95
29578631 AGATAGGAAA
* * * * *
29578641 GCTAAAGGCCATAAATATCGTAGCAACGCTACCAGTTAACAGAACGGCTGTAAGCCATAAGTATT
1 GCTACAGGCCGTAAATATCGCAGCAACGCTACCAGTTAACAGAACGGCTATAAGCCATAAGTATC
29578706 ACAAAAAGGCTAAAAACCTTATACAGGACG
66 ACAAAAAGGCTAAAAACCTTATACAGGACG
* *
29578736 GCTACAGGCCGTAAATATCGCAGCAACGCTGCCAGTTAACAGAATGGCTATAAGCCATAAGTATC
1 GCTACAGGCCGTAAATATCGCAGCAACGCTACCAGTTAACAGAACGGCTATAAGCCATAAGTATC
* * * * **
29578801 GCAGAAAGGCTGAAAGCCTTATACAGGATT
66 ACAAAAAGGCTAAAAACCTTATACAGGACG
29578831 GCTACAGGCCGTA
1 GCTACAGGCCGTA
29578844 CACTTCCTCC
Statistics
Matches: 95, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (95 bp):
GCTACAGGCCGTAAATATCGCAGCAACGCTACCAGTTAACAGAACGGCTATAAGCCATAAGTATC
ACAAAAAGGCTAAAAACCTTATACAGGACG
Found at i:29579042 original size:27 final size:27
Alignment explanation
Indices: 29578994--29579046 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
29578984 CATTCTACCA
* *
29578994 TACAAGGGTATTATGGTCATTTTACAC
1 TACAAGGGTATTATAGTAATTTTACAC
29579021 TACAAGGGTATT-TCAGTAATTTTACA
1 TACAAGGGTATTAT-AGTAATTTTACA
29579047 AACCAAGGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (27 bp):
TACAAGGGTATTATAGTAATTTTACAC
Found at i:29581810 original size:17 final size:17
Alignment explanation
Indices: 29581788--29581845 Score: 84
Period size: 17 Copynumber: 3.5 Consensus size: 17
29581778 ACACATTTTC
29581788 AACAGAATAACAAAAAT
1 AACAGAATAACAAAAAT
* *
29581805 AACAGAAT-AC-TAAGT
1 AACAGAATAACAAAAAT
29581820 AACAGAATAACAAAAAT
1 AACAGAATAACAAAAAT
29581837 AACAGAATA
1 AACAGAATA
29581846 CTAAGTTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 11 0.31
16 4 0.11
17 20 0.57
ACGTcount: A:0.66, C:0.12, G:0.09, T:0.14
Consensus pattern (17 bp):
AACAGAATAACAAAAAT
Found at i:29581824 original size:15 final size:15
Alignment explanation
Indices: 29581804--29581851 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
29581794 ATAACAAAAA
29581804 TAACAGAATACTAAG
1 TAACAGAATACTAAG
* *
29581819 TAACAGAATAACAAAAA
1 TAACAGAAT-AC-TAAG
29581836 TAACAGAATACTAAG
1 TAACAGAATACTAAG
29581851 T
1 T
29581852 TGAAAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 12 0.44
16 4 0.15
17 11 0.41
ACGTcount: A:0.58, C:0.12, G:0.10, T:0.19
Consensus pattern (15 bp):
TAACAGAATACTAAG
Found at i:29581824 original size:32 final size:32
Alignment explanation
Indices: 29581788--29581851 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
29581778 ACACATTTTC
29581788 AACAGAATAACAAAAATAACAGAATACTAAGT
1 AACAGAATAACAAAAATAACAGAATACTAAGT
29581820 AACAGAATAACAAAAATAACAGAATACTAAGT
1 AACAGAATAACAAAAATAACAGAATACTAAGT
29581852 TGAAAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.16
Consensus pattern (32 bp):
AACAGAATAACAAAAATAACAGAATACTAAGT
Found at i:29581953 original size:28 final size:28
Alignment explanation
Indices: 29581892--29581969 Score: 88
Period size: 28 Copynumber: 2.8 Consensus size: 28
29581882 AATTTGGTTA
* *
29581892 AATATTATATTAAACATAAT-TTAATTC
1 AATATTATATTAAATAAAATATTAATTC
*
29581919 AATATTATTTTAAATAAAATATT-ATGTC
1 AATATTATATTAAATAAAATATTAAT-TC
* *
29581947 AATATTATGTTGAATAAAATATT
1 AATATTATATTAAATAAAATATT
29581970 GTGTTTTGTG
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
27 19 0.43
28 25 0.57
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (28 bp):
AATATTATATTAAATAAAATATTAATTC
Found at i:29588486 original size:38 final size:38
Alignment explanation
Indices: 29588430--29588601 Score: 202
Period size: 38 Copynumber: 4.5 Consensus size: 38
29588420 CTTAAAGACA
* * * *
29588430 CGCAGGCTATGTGTTGGTATTATATCTGGGTTCAATCC
1 CGCAGGCTTTGTGCTGGTATTATATCAGGGTTAAATCC
* * *
29588468 CACAGGCTTTGTGCTGGTAATATATCCGGGTTAAATCC
1 CGCAGGCTTTGTGCTGGTATTATATCAGGGTTAAATCC
* *
29588506 CGCAGGCTTCGTACTGGTATTATATCAGGGTTAAATCC
1 CGCAGGCTTTGTGCTGGTATTATATCAGGGTTAAATCC
* *
29588544 CGCAGGCTTAGTGCTGGTATTATATTC-GAGCTTAAAGTCC
1 CGCAGGCTTTGTGCTGGTATTATA-TCAG-GGTTAAA-TCC
*
29588584 CGCAGGTTTTGTGCTGGT
1 CGCAGGCTTTGTGCTGGT
29588602 GACTGGATTC
Statistics
Matches: 115, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
38 88 0.77
39 8 0.07
40 19 0.17
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.34
Consensus pattern (38 bp):
CGCAGGCTTTGTGCTGGTATTATATCAGGGTTAAATCC
Found at i:29588513 original size:76 final size:77
Alignment explanation
Indices: 29588412--29588589 Score: 216
Period size: 76 Copynumber: 2.3 Consensus size: 77
29588402 ATTTGATGTG
* * ** * *
29588412 TATCCGGGCTTAAAGACACGCAGGCTAT-GTGTTGGTATTATATCTGGGTTCAATCCCACAGGCT
1 TATCCGGG-TTAAAGTCCCGCAGGCT-TCGTACTGGTATTATATCAGGGTTAAATCCCACAGGCT
*
29588476 TTGTGCTGGTAATA
64 TAGTGCTGGTAATA
*
29588490 TATCCGGGTTAAA-TCCCGCAGGCTTCGTACTGGTATTATATCAGGGTTAAATCCCGCAGGCTTA
1 TATCCGGGTTAAAGTCCCGCAGGCTTCGTACTGGTATTATATCAGGGTTAAATCCCACAGGCTTA
*
29588554 GTGCTGGTATTA
66 GTGCTGGTAATA
* *
29588566 TATTCGAGCTTAAAGTCCCGCAGG
1 TATCCG-GGTTAAAGTCCCGCAGG
29588590 TTTTGTGCTG
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
75 1 0.01
76 57 0.66
77 11 0.13
78 17 0.20
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (77 bp):
TATCCGGGTTAAAGTCCCGCAGGCTTCGTACTGGTATTATATCAGGGTTAAATCCCACAGGCTTA
GTGCTGGTAATA
Found at i:29594776 original size:43 final size:43
Alignment explanation
Indices: 29594713--29594798 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
29594703 TATGTGATTC
* *
29594713 CGATATGTGTTTACGAGTAAGA-CCCTGTCTGGGACAGTGGCAT
1 CGATATGTGGTTACGAGTAAGATCAC-GTCTGGGACAGTGGCAT
*
29594756 CGATATGTGGTTAC-ATGTAAGATCACGTCTGGGACATTGGCAT
1 CGATATGTGGTTACGA-GTAAGATCACGTCTGGGACAGTGGCAT
29594799 TGTATGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 1 0.03
43 35 0.92
44 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGATCACGTCTGGGACAGTGGCAT
Found at i:29595422 original size:14 final size:14
Alignment explanation
Indices: 29595405--29595433 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
29595395 AGAATATGTA
29595405 ATTATGAATGTGTG
1 ATTATGAATGTGTG
29595419 ATTATGAATGTGTG
1 ATTATGAATGTGTG
29595433 A
1 A
29595434 AAATTTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (14 bp):
ATTATGAATGTGTG
Found at i:29596965 original size:39 final size:40
Alignment explanation
Indices: 29596865--29597049 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
29596855 TTGAATGATG
* * *
29596865 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
29596904 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29596945 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
29596984 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
29597023 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
29597050 AACGAGGAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:29597001 original size:79 final size:81
Alignment explanation
Indices: 29596866--29597049 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
29596856 TGAATGATGT
*
29596866 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
29596930 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
29596946 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
29597008 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
29597025 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29597050 AACGAGGAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:29597071 original size:79 final size:79
Alignment explanation
Indices: 29596866--29597072 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 79
29596856 TGAATGATGT
** * * * **
29596866 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
*
29596929 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
* ** *
29596946 CTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
*
29597011 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* *
29597025 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
29597073 ATTCTGAAGG
Statistics
Matches: 107, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 63 0.59
80 41 0.38
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:29604888 original size:79 final size:81
Alignment explanation
Indices: 29604752--29604936 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
29604742 TTGAATGATG
*
29604752 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
29604816 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
29604831 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
29604893 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
29604911 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
29604937 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:29604950 original size:40 final size:40
Alignment explanation
Indices: 29604753--29604936 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
29604743 TGAATGATGT
* * * *
29604753 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
29604793 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
29604833 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29604871 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
29604912 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
29604937 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:29604958 original size:79 final size:79
Alignment explanation
Indices: 29604753--29604969 Score: 201
Period size: 79 Copynumber: 2.7 Consensus size: 79
29604743 TGAATGATGT
** * * * **
29604753 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTAAATCCGGGTTAA-ATCCCGAAGGCATT
*
29604816 TGTGCGAGATACTAATT
63 TGTGCGAGATACTAATA
** * *
29604833 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
*
29604898 GCGAGTTACT-ATAA
66 GCGAGATACTAAT-A
* * *
29604912 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
29604970 TACGTGATTT
Statistics
Matches: 116, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.61
80 42 0.36
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGT
GCGAGATACTAATA
Found at i:29623166 original size:47 final size:45
Alignment explanation
Indices: 29623093--29623212 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 45
29623083 TTAATTGTGT
* * *
29623093 GCCAGTGTAAGACATGTCTAGTACAT-GCATTGGCCACATT-ATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCA-T--CCACATTGACGAGA
* *
29623139 GCTAGTGTAAGACAATGTCTGGGACATGGCATCGACATTGAGACGAGA
1 GCCAGTGTAAGAC-ATGTCTGGGACATGGCATCCACATT--GACGAGA
29623187 GCCAGTGTAAGACATGTCTGGGACAT
1 GCCAGTGTAAGACATGTCTGGGACAT
29623213 ACATCAGCTA
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
45 6 0.10
46 12 0.19
47 25 0.40
48 20 0.32
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.23
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCCACATTGACGAGA
Found at i:29624631 original size:20 final size:21
Alignment explanation
Indices: 29624593--29624631 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
29624583 TTATAATGAC
29624593 CACACAGGCGTGTTGCCCTTA
1 CACACAGGCGTGTTGCCCTTA
*
29624614 CACACGGGCGTG-TGCCCT
1 CACACAGGCGTGTTGCCCT
29624632 ATTTCAAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.36, G:0.28, T:0.21
Consensus pattern (21 bp):
CACACAGGCGTGTTGCCCTTA
Found at i:29626709 original size:43 final size:43
Alignment explanation
Indices: 29626614--29626715 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
29626604 ACCGAGATGT
* * *
29626614 GATTACATGTAAGACCATGTCTGGAACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGAACATTGGCATCGTAATCA
* *
29626657 GGTTACATGTAAGACCATGTCTGGGACATTGGCATCGTTAATCA
1 GATTACATGTAAGACCATGTCTGGAACATTGGCATCG-TAATCA
*
29626701 -ATTTCATGTAAGACC
1 GATTACATGTAAGACC
29626716 CTATCTAAGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 47 0.92
44 4 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGAACATTGGCATCGTAATCA
Found at i:29627233 original size:75 final size:75
Alignment explanation
Indices: 29627105--29627274 Score: 252
Period size: 75 Copynumber: 2.3 Consensus size: 75
29627095 GACATAGGGG
* * * *
29627105 CACGCCTGTGTCCTCAGGCCGCGTAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACCT
1 CACGCCCGTGTCCTCAGGCCACATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAT
29627170 AGCCAGGCTA
66 AGCCAGGCTA
* * *
29627180 CACGCCCGTGTCCTCAGGCTATATAACTCTCTGTTTATGACGTCAGCATACAAATTGAACCACAT
1 CACGCCCGTGTCCTCAGGCCACATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAT
*
29627245 GGCCAGGCTA
66 AGCCAGGCTA
29627255 CACGCCCGTGT-CTCTAGGCC
1 CACGCCCGTGTCCTC-AGGCC
29627275 GTATCCCTCA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 3 0.04
75 82 0.96
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.24
Consensus pattern (75 bp):
CACGCCCGTGTCCTCAGGCCACATAACTCTCTGTTTATGACGTCAGCACACAAATTGAACCACAT
AGCCAGGCTA
Found at i:29629009 original size:49 final size:49
Alignment explanation
Indices: 29628954--29629052 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
29628944 TGGGGCTACT
*
29628954 CAAAAGCACCCGGACCCTAGCATGTATCACAT-ATCCACATGCCTCTCAA
1 CAAAAGCACCCAGACCCTAGCATGTATCACATAAT-CACATGCCTCTCAA
29629003 CAAAAGCACCCAGACCCTAGCATGTATCACATAATCACATGCCTCTCAA
1 CAAAAGCACCCAGACCCTAGCATGTATCACATAATCACATGCCTCTCAA
29629052 C
1 C
29629053 GGGGCTACTC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
49 46 0.96
50 2 0.04
ACGTcount: A:0.34, C:0.36, G:0.11, T:0.18
Consensus pattern (49 bp):
CAAAAGCACCCAGACCCTAGCATGTATCACATAATCACATGCCTCTCAA
Found at i:29634496 original size:36 final size:35
Alignment explanation
Indices: 29634456--29634635 Score: 130
Period size: 35 Copynumber: 5.1 Consensus size: 35
29634446 TAAATACTTG
* *
29634456 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCGAATA-TACAA-GTACAATATATCATCACA
* **
29634492 TATGGCCAAATATACAAGTACAATATATCATCGTA
1 TATGGCCGAATATACAAGTACAATATATCATCACA
* * * *
29634527 TATGACCGAATATACAAGTTCAATAAAACATCACA
1 TATGGCCGAATATACAAGTACAATATATCATCACA
* * * * * ** *
29634562 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCGAATATACAAGTACAATATATCATCACA
* * * *
29634597 TGTGGCCAAATATAAAAGTTA-AATATTTCATCACA
1 TATGGCCGAATATACAAG-TACAATATATCATCACA
29634632 TATG
1 TATG
29634636 TACATACATA
Statistics
Matches: 114, Mismatches: 28, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
35 99 0.87
36 15 0.13
ACGTcount: A:0.42, C:0.17, G:0.11, T:0.30
Consensus pattern (35 bp):
TATGGCCGAATATACAAGTACAATATATCATCACA
Found at i:29634521 original size:35 final size:35
Alignment explanation
Indices: 29634480--29634635 Score: 143
Period size: 35 Copynumber: 4.5 Consensus size: 35
29634470 CAAGGTTCAT
29634480 TATATCATCACATATGGCCAAATATACAAGTACAA
1 TATATCATCACATATGGCCAAATATACAAGTACAA
** * * *
29634515 TATATCATCGTATATGACCGAATATACAAGTTCAA
1 TATATCATCACATATGGCCAAATATACAAGTACAA
* * * * * * **
29634550 TAAAACATCACATGTAGTCAAATATTCAAGTTTAA
1 TATATCATCACATATGGCCAAATATACAAGTACAA
* * *
29634585 TATAACATCACATGTGGCCAAATATAAAAGTTA-AA
1 TATATCATCACATATGGCCAAATATACAAG-TACAA
*
29634620 TATTTCATCACATATG
1 TATATCATCACATATG
29634636 TACATACATA
Statistics
Matches: 95, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
35 94 0.99
36 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.10, T:0.30
Consensus pattern (35 bp):
TATATCATCACATATGGCCAAATATACAAGTACAA
Found at i:29649973 original size:28 final size:28
Alignment explanation
Indices: 29649930--29649993 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
29649920 TGGGAAGTAG
*
29649930 TTGGGCCTGATAGGCCATATGAATGTGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
*
29649958 TTGGGCCTGATGGGCCATATGAATGAGA
1 TTGGGCCTGATAGGCCATATGAATGAGA
29649986 TTGGGCCT
1 TTGGGCCT
29649994 AAAGGGGCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATAGGCCATATGAATGAGA
Found at i:29650349 original size:27 final size:27
Alignment explanation
Indices: 29650317--29650755 Score: 410
Period size: 27 Copynumber: 16.4 Consensus size: 27
29650307 GAGAACTTAT
29650317 TGAAATACCCTCGATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
29650344 TAAAATACCCTCGATTATG--AAATGAC
1 TGAAATACCCTCGATT-TGTAAAATTAC
*
29650370 TGAAATACCCTCAATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * * *
29650397 CGAAATAACCGCGA-TTGTGAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
*
29650423 TGAAATACCCTCTATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
29650450 TAAAATACCTTCGA-TTATAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
29650476 TGAAATACCCTCAATTTTTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
29650503 CGAAATACCC-CTGATTTGTGAAATTAC
1 TGAAATACCCTC-GATTTGTAAAATTAC
* * **
29650530 CGAAACACCCTTAATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
29650557 TGAAACACCCTCAATTTGTAAAATTA-
1 TGAAATACCCTCGATTTGTAAAATTAC
* *
29650583 TCGAAACACCCTCAATTTGTAAAATTAC
1 T-GAAATACCCTCGATTTGTAAAATTAC
* *
29650611 CGAAATACCCTCAATTTGTAAAATTAC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
29650638 TAAAATAACCTCGATTTGTAAAATTCC
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
29650665 TAAAACACCCCCGATTTGTAAAATTA-
1 TGAAATACCCTCGATTTGTAAAATTAC
* * *
29650691 TCGAAATACCCTTG-TAGTGTAGAATTAC
1 T-GAAATACCCTCGAT-TTGTAAAATTAC
* * * *
29650719 TAAAATACCCTTG-TAGTGTAAAATAAC
1 TGAAATACCCTCGAT-TTGTAAAATTAC
*
29650746 TGACATACCC
1 TGAAATACCC
29650756 CTCTAGGGTA
Statistics
Matches: 345, Mismatches: 55, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.01
26 67 0.19
27 273 0.79
28 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TGAAATACCCTCGATTTGTAAAATTAC
Found at i:29651293 original size:27 final size:27
Alignment explanation
Indices: 29651257--29651324 Score: 120
Period size: 27 Copynumber: 2.6 Consensus size: 27
29651247 TATTGCGATG
29651257 TGGGCTTTGGCCCAACTAAGGCTAAGA
1 TGGGCTTTGGCCCAACTAAGGCTAAGA
29651284 TGGGCTTTGGCCCAACTAAGGCTAAGA
1 TGGGCTTTGGCCCAACTAAGGCTAAGA
*
29651311 TGGGC-TAGGCCCAA
1 TGGGCTTTGGCCCAA
29651325 TTGATTCTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 8 0.20
27 32 0.80
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.21
Consensus pattern (27 bp):
TGGGCTTTGGCCCAACTAAGGCTAAGA
Found at i:29652701 original size:35 final size:35
Alignment explanation
Indices: 29652636--29652815 Score: 164
Period size: 35 Copynumber: 5.1 Consensus size: 35
29652626 TACTTACTTG
* *
29652636 TATGGCCGAATACT-CAAGGTTCATTATATCATCACA
1 TATGGCCAAATA-TACAA-GTTCAATATATCATCACA
* * *
29652672 TATGGCCCAATATACAAGTACAATATATCATCATA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
**** * * *
29652707 TATGATGGAATATACAAGCTCAATAAAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
* * * * * *
29652742 TGTAGTCAAATATTCAAGTTTAATATAACATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
*
29652777 TGTGGCCAAATATACAAGTTCAATATATCATCACA
1 TATGGCCAAATATACAAGTTCAATATATCATCACA
29652812 TATG
1 TATG
29652816 TACATACCTA
Statistics
Matches: 115, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
35 101 0.88
36 14 0.12
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.29
Consensus pattern (35 bp):
TATGGCCAAATATACAAGTTCAATATATCATCACA
Found at i:29669425 original size:27 final size:26
Alignment explanation
Indices: 29669387--29669504 Score: 166
Period size: 27 Copynumber: 4.5 Consensus size: 26
29669377 AAGACCTCAG
29669387 TTTGTAAAATTACTGAAATACCCCTGA
1 TTTGTAAAATTACTGAAATACCCC-GA
*
29669414 TTTGTAAAATTACTGAAATACCCCCAA
1 TTTGTAAAATTACTGAAATA-CCCCGA
* *
29669441 TTTGTAAAATTACTAAAATACCTC-A
1 TTTGTAAAATTACTGAAATACCCCGA
*
29669466 GTTTGTAAAATTACCGAAATACCCCGA
1 -TTTGTAAAATTACTGAAATACCCCGA
29669493 TTTGTAAAATTA
1 TTTGTAAAATTA
29669505 TCAAAATACC
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
25 1 0.01
26 36 0.44
27 41 0.50
28 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.09, T:0.33
Consensus pattern (26 bp):
TTTGTAAAATTACTGAAATACCCCGA
Done.