Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 26 of 318
Found at i:6929337 original size:20 final size:20
Alignment explanation
Indices: 6929314--6929368 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 20
6929304 TTATTTTTAA
6929314 TAATAATAATAATCATAATT
1 TAATAATAATAATCATAATT
*
6929334 TAATAAT-ATAAATTATAATT
1 TAATAATAAT-AATCATAATT
6929354 TAATAGAATAATAAT
1 TAAT--AATAATAAT
6929369 AAATAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
22 6 0.20
23 2 0.07
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATAATAATCATAATT
Found at i:6931104 original size:13 final size:13
Alignment explanation
Indices: 6931054--6931118 Score: 67
Period size: 13 Copynumber: 4.7 Consensus size: 13
6931044 AGGGGCACAC
*
6931054 GCCCATGTGGCCA
1 GCCCGTGTGGCCA
*
6931067 GCCCGTGGGGATCCTA
1 GCCCGTGTGG--CC-A
*
6931083 TGGCCGTGTGGCCA
1 -GCCCGTGTGGCCA
6931097 GCCCGTGTGGCCA
1 GCCCGTGTGGCCA
6931110 GCCCGTGTG
1 GCCCGTGTG
6931119 AAATTCTGAC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 29 0.67
14 1 0.02
15 4 0.09
16 1 0.02
17 8 0.19
ACGTcount: A:0.09, C:0.34, G:0.38, T:0.18
Consensus pattern (13 bp):
GCCCGTGTGGCCA
Found at i:6932159 original size:33 final size:33
Alignment explanation
Indices: 6932112--6932219 Score: 110
Period size: 33 Copynumber: 3.3 Consensus size: 33
6932102 GGACTTTTCT
* * *
6932112 TTTTCTAGTTGTACACTCGAGGTACACATTCCC
1 TTTTCAAGTTGTACACTCGAAGTACACATACCC
* * * *
6932145 TTTTCAAGTGGTACACACGAAGTATACATACCT
1 TTTTCAAGTTGTACACTCGAAGTACACATACCC
* * *
6932178 TTTTCAATTTGTACACTCAAAGTGA-ACATAACC
1 TTTTCAAGTTGTACACTCGAAGT-ACACATACCC
6932211 TTTTCAAGT
1 TTTTCAAGT
6932220 GTATACATAT
Statistics
Matches: 60, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 59 0.98
34 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (33 bp):
TTTTCAAGTTGTACACTCGAAGTACACATACCC
Found at i:6932271 original size:33 final size:33
Alignment explanation
Indices: 6932143--6932382 Score: 213
Period size: 33 Copynumber: 7.3 Consensus size: 33
6932133 GTACACATTC
* * * *
6932143 CCTTTTCAAGTGGTACACACGAAGTATA-CATA
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
* * * * * **
6932175 CCTTTTTCAATTTGTACACTCAAAGTGA-ACATAA
1 CC-TTTTCAAGTGGTATACACAAAGT-ATACCTTT
* * *
6932209 CCTTTTCAAGT-GTATACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
*
6932241 CTTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
*
6932274 CCTTTTCATA-TGGTATTCACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
6932307 CCTTTTCATA-TGGTATACACAAAGTATACCTTT
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
* * * **
6932340 CCTTTTCAAGT-GTACACACAAAGTGTACATAA
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
6932372 CCTTTTCAAGT
1 CCTTTTCAAGT
6932383 TGTACCATAT
Statistics
Matches: 173, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
32 52 0.30
33 116 0.67
34 5 0.03
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:6933099 original size:19 final size:22
Alignment explanation
Indices: 6933058--6933099 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
6933048 TGTAAAAGTG
6933058 ATTTATCTATCAATAATCTTTC
1 ATTTATCTATCAATAATCTTTC
6933080 ATTT-TCTATCAA-AA-CTTTC
1 ATTTATCTATCAATAATCTTTC
6933099 A
1 A
6933100 ATTTGCAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 8 0.40
22 4 0.20
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTTATCTATCAATAATCTTTC
Found at i:6938793 original size:30 final size:30
Alignment explanation
Indices: 6938758--6938815 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
6938748 TGGCCTGGGA
6938758 CATGGCCGTGTGGCCAGCCCGTGGGGAACC
1 CATGGCCGTGTGGCCAGCCCGTGGGGAACC
* *
6938788 CATGGCTGTGTGGCCAGCCCGTGTGGAA
1 CATGGCCGTGTGGCCAGCCCGTGGGGAA
6938816 TTCTGACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.14, C:0.29, G:0.40, T:0.17
Consensus pattern (30 bp):
CATGGCCGTGTGGCCAGCCCGTGGGGAACC
Found at i:6939927 original size:22 final size:23
Alignment explanation
Indices: 6939902--6939950 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
6939892 TGTAAAAGTG
* * *
6939902 ATTTATCTATCAATAATCTTTC-
1 ATTTATCTATAAAAAAACTTTCA
6939924 ATTT-TCTATAAAAAAACTTTCA
1 ATTTATCTATAAAAAAACTTTCA
6939946 ATTTA
1 ATTTA
6939951 CAACATATTC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTATCTATAAAAAAACTTTCA
Found at i:6940369 original size:18 final size:18
Alignment explanation
Indices: 6940346--6940393 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
6940336 AACTACTAGA
6940346 ATTCAACTTT-GACATTTT
1 ATTCAA-TTTAGACATTTT
*
6940364 ATTCAATTTAGTCATTTT
1 ATTCAATTTAGACATTTT
6940382 -TTCAA-TTAGACA
1 ATTCAATTTAGACA
6940394 CATAATTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 6 0.22
17 8 0.30
18 13 0.48
ACGTcount: A:0.31, C:0.15, G:0.06, T:0.48
Consensus pattern (18 bp):
ATTCAATTTAGACATTTT
Found at i:6941944 original size:16 final size:17
Alignment explanation
Indices: 6941925--6941967 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
6941915 TCTCTTCTTC
*
6941925 TTCTTTTTTTTTC-TGT
1 TTCTTTCTTTTTCTTGT
6941941 TTCTTTCTTTTTCTTGT
1 TTCTTTCTTTTTCTTGT
6941958 TTCTTTCTTT
1 TTCTTTCTTT
6941968 GTTTAGGTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (17 bp):
TTCTTTCTTTTTCTTGT
Found at i:6941971 original size:29 final size:27
Alignment explanation
Indices: 6941914--6941965 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
6941904 AAAGTTGACG
6941914 TTCTCTTCTTCTTCTTTTTTTTTCTGT
1 TTCTCTTCTTCTTCTTTTTTTTTCTGT
* *
6941941 TTCT-TTCTTTTTCTTGTTTCTTTCT
1 TTCTCTTCTTCTTCTT-TTTTTTTCT
6941966 TTGTTTAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.00, C:0.21, G:0.04, T:0.75
Consensus pattern (27 bp):
TTCTCTTCTTCTTCTTTTTTTTTCTGT
Found at i:6952559 original size:42 final size:41
Alignment explanation
Indices: 6952394--6952558 Score: 134
Period size: 42 Copynumber: 3.9 Consensus size: 41
6952384 AATCATACCA
* * * * *
6952394 ATGCCATATCCCAGATAGGGTCTTATATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAAACTCATATCG
* * * * * **
6952436 ATGGCAATAGCTCAGCTATAGTCTTACACGATTCTCATATCG
1 AT-GCCATATCCCAGATATGGTCTTACACGAAACTCATATCG
* * * *
6952478 ATGCCATGTCCCAAACATGGTCTTACATGAAATCTCATAAT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAA-CTCAT-ATCG
6952520 ATGCCATATCCCAGATATGGTCTTACACGTAAACTCATA
1 ATGCCATATCCCAGATATGGTCTTACACG-AAACTCATA
6952559 ACCCTAATGT
Statistics
Matches: 94, Mismatches: 25, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
41 20 0.21
42 51 0.54
43 23 0.24
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAACTCATATCG
Found at i:6959661 original size:2 final size:2
Alignment explanation
Indices: 6959656--6959680 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6959646 AAATTTAAGC
6959656 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6959681 ATCTCAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6960507 original size:14 final size:13
Alignment explanation
Indices: 6960464--6960511 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
6960454 AGAAATAAAA
6960464 TATAAATTTTATT
1 TATAAATTTTATT
6960477 TAT--ATTTT-TT
1 TATAAATTTTATT
*
6960487 TACAAATTTTATT
1 TATAAATTTTATT
6960500 TATAAAATTTTA
1 TAT-AAATTTTA
6960512 ATACTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
10 4 0.14
11 5 0.17
12 5 0.17
13 7 0.24
14 8 0.28
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (13 bp):
TATAAATTTTATT
Found at i:6960510 original size:23 final size:23
Alignment explanation
Indices: 6960467--6960511 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6960457 AATAAAATAT
***
6960467 AAATTTTATTTATATTTTTTTAC
1 AAATTTTATTTATAAAATTTTAC
6960490 AAATTTTATTTATAAAATTTTA
1 AAATTTTATTTATAAAATTTTA
6960512 ATACTTAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
AAATTTTATTTATAAAATTTTAC
Found at i:6971789 original size:22 final size:22
Alignment explanation
Indices: 6971764--6971813 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
6971754 TCATTGAGAA
*
6971764 TGAATTGATT-TTTTATTATTTT
1 TGAATTGATTCATTT-TTATTTT
*
6971786 TGAATTGATTCATTTTTCTTTT
1 TGAATTGATTCATTTTTATTTT
6971808 TGAATT
1 TGAATT
6971814 TTATGGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.22, C:0.04, G:0.10, T:0.64
Consensus pattern (22 bp):
TGAATTGATTCATTTTTATTTT
Found at i:6974900 original size:134 final size:134
Alignment explanation
Indices: 6974738--6975006 Score: 529
Period size: 134 Copynumber: 2.0 Consensus size: 134
6974728 AGGCTATGAG
6974738 TTTTATGATATCACAATTAGAAATATTTTTGAGATGAGAATTGCAACATTCTTTTAGGATGTTGA
1 TTTTATGATATCACAATTAGAAATATTTTTGAGATGAGAATTGCAACATTCTTTTAGGATGTTGA
6974803 GTTTGGAGGGAGAAATAAGGTTAGAGACATTACTTTTAAGGAGGAATTGAATTCTAACTCAGTTC
66 GTTTGGAGGGAGAAATAAGGTTAGAGACATTACTTTTAAGGAGGAATTGAATTCTAACTCAGTTC
6974868 CTAC
131 CTAC
*
6974872 TTTTATGATATCACAATTAGGAATATTTTTGAGATGAGAATTGCAACATTCTTTTAGGATGTTGA
1 TTTTATGATATCACAATTAGAAATATTTTTGAGATGAGAATTGCAACATTCTTTTAGGATGTTGA
6974937 GTTTGGAGGGAGAAATAAGGTTAGAGACATTACTTTTAAGGAGGAATTGAATTCTAACTCAGTTC
66 GTTTGGAGGGAGAAATAAGGTTAGAGACATTACTTTTAAGGAGGAATTGAATTCTAACTCAGTTC
6975002 CTAC
131 CTAC
6975006 T
1 T
6975007 ATCACTTTTG
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
134 134 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (134 bp):
TTTTATGATATCACAATTAGAAATATTTTTGAGATGAGAATTGCAACATTCTTTTAGGATGTTGA
GTTTGGAGGGAGAAATAAGGTTAGAGACATTACTTTTAAGGAGGAATTGAATTCTAACTCAGTTC
CTAC
Found at i:6976170 original size:21 final size:23
Alignment explanation
Indices: 6976137--6976178 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6976127 TATTTTAATT
*
6976137 TACAGATATTAAA-TTTATTTTC
1 TACAGATAATAAAGTTTATTTTC
6976159 TACAGA-AATAAAGTTTATTT
1 TACAGATAATAAAGTTTATTT
6976179 GGTTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (23 bp):
TACAGATAATAAAGTTTATTTTC
Found at i:6981138 original size:7 final size:7
Alignment explanation
Indices: 6981122--6981184 Score: 56
Period size: 7 Copynumber: 8.9 Consensus size: 7
6981112 ATTTAATCTC
*
6981122 TTTAATT
1 TTTAAAT
6981129 TTTAAAT
1 TTTAAAT
*
6981136 TTTAAAA
1 TTTAAAT
6981143 TTTAAA-
1 TTTAAAT
*
6981149 TTTAACT
1 TTTAAAT
*
6981156 ATTAATATT
1 TTTAA-A-T
6981165 TTTAAAT
1 TTTAAAT
*
6981172 ATTAAAT
1 TTTAAAT
6981179 TTTAAA
1 TTTAAA
6981185 ATGTCACATA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
6 5 0.11
7 34 0.76
8 1 0.02
9 5 0.11
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
TTTAAAT
Found at i:6981174 original size:16 final size:15
Alignment explanation
Indices: 6981130--6981186 Score: 57
Period size: 16 Copynumber: 3.9 Consensus size: 15
6981120 TCTTTAATTT
*
6981130 TTAAATTTTAAAAT-
1 TTAAATTTTTAAATA
*
6981144 TTAAA--TTTAACTA
1 TTAAATTTTTAAATA
6981157 TTAATATTTTTAAATA
1 TTAA-ATTTTTAAATA
*
6981173 TTAAATTTTAAAAT
1 TTAAATTTTTAAAT
6981187 GTCACATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
12 5 0.14
13 4 0.11
14 6 0.17
15 9 0.26
16 11 0.31
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAAATTTTTAAATA
Found at i:6982917 original size:12 final size:12
Alignment explanation
Indices: 6982900--6982937 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
6982890 AAAACATTTA
6982900 TTATTAATATAT
1 TTATTAATATAT
6982912 TTATTAATATAT
1 TTATTAATATAT
6982924 TTATTAATATAT
1 TTATTAATATAT
6982936 TT
1 TT
6982938 TAAAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTAATATAT
Found at i:6983596 original size:16 final size:18
Alignment explanation
Indices: 6983570--6983602 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6983560 TAGAATTGAG
6983570 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
6983587 TTGA-AAAATTAATTTA
1 TTGAGAAAATTAATTTA
6983603 TTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:6987651 original size:25 final size:27
Alignment explanation
Indices: 6987614--6987666 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
6987604 TCAAACATGC
6987614 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
6987640 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
6987666 A
1 A
6987667 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:6989185 original size:26 final size:26
Alignment explanation
Indices: 6989149--6989232 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
6989139 CATGAAATTC
6989149 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
6989175 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
6989201 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
6989227 TTATCA
1 TTATCA
6989233 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:6990226 original size:20 final size:20
Alignment explanation
Indices: 6990201--6990238 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6990191 ATAATTTCAA
*
6990201 ATATAAAATATTCATTAATT
1 ATATAAAATACTCATTAATT
6990221 ATATAAAATACTCATTAA
1 ATATAAAATACTCATTAA
6990239 CAAAAGTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAAAATACTCATTAATT
Found at i:6990318 original size:49 final size:49
Alignment explanation
Indices: 6990257--6990357 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
6990247 CATAAATAGA
*
6990257 AATATACTATTTAAAAAATTCAAAATTAACAAGAAAAAAAAAGTTGAAC
1 AATACACTATTTAAAAAATTCAAAATTAACAAGAAAAAAAAAGTTGAAC
*
6990306 AATACACTATTTAATAAATTCAAAATTAACAAGAAAAAAAAAGTTGAAC
1 AATACACTATTTAAAAAATTCAAAATTAACAAGAAAAAAAAAGTTGAAC
6990355 AAT
1 AAT
6990358 GAGTGGGTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.25
Consensus pattern (49 bp):
AATACACTATTTAAAAAATTCAAAATTAACAAGAAAAAAAAAGTTGAAC
Found at i:6993163 original size:42 final size:43
Alignment explanation
Indices: 6993055--6993217 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 43
6993045 AGCTCGTACA
* * * * *
6993055 ATGCCAACGTCCCAGACGA-GGTCTTACATGTAATTAAATATCG
1 ATGCCAATGTCCCAGAC-ATGGTCTTACACGAAATCATATATCG
* * *
6993098 ATGCCACTGTCCCATACAAGGTCTTACACGAAATCATATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATCG
* *
6993140 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATGG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAT-ATATCG
* *
6993184 ATGCCAATGTCCCAAATATGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAAT
6993218 TACATACCGG
Statistics
Matches: 102, Mismatches: 14, Indels: 8
0.82 0.11 0.06
Matches are distributed among these distances:
42 31 0.30
43 42 0.41
44 29 0.28
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATATATCG
Found at i:6993213 original size:86 final size:85
Alignment explanation
Indices: 6993055--6993217 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
6993045 AGCTCGTACA
* * *
6993055 ATGCCAACGTCCCAGACGAGGTCTTACATGTAATTAAATATCGATGCCACTGTCCCATACAAGGT
1 ATGCCAACGTCCCAGACGAGGTCTTACACGTAATTAAATATCGATGCCAATGTCCCAAACAAGGT
6993120 CTTACACGAAATCATATACG
66 CTTACACGAAATCATATACG
* * * * *
6993140 ATGCCAATGTCCCAGAC-ATGGTCTTACACGTAAATCTCAA-ATGGATGCCAATGTCCCAAATAT
1 ATGCCAACGTCCCAGACGA-GGTCTTACACGT-AAT-TAAATATCGATGCCAATGTCCCAAACAA
6993203 GGTCTTACACGAAAT
63 GGTCTTACACGAAAT
6993218 TACATACCGG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 1 0.01
85 27 0.40
86 36 0.54
87 3 0.04
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACGAGGTCTTACACGTAATTAAATATCGATGCCAATGTCCCAAACAAGGT
CTTACACGAAATCATATACG
Found at i:7001154 original size:42 final size:42
Alignment explanation
Indices: 7001049--7001171 Score: 149
Period size: 42 Copynumber: 2.9 Consensus size: 42
7001039 TCGTACAATA
* * * *
7001049 CCAATGTCCCAGACGAGGTCTTACATGTAATTAAATATCGATG
1 CCAATGTCCCAGACGAGGTCTTACACGAAATCATATA-CGATG
* *
7001092 CCACTGTCCAAGA-GAGGGTCTTACACGAAATCATATACGATG
1 CCAATGTCCCAGACGA-GGTCTTACACGAAATCATATACGATG
* *
7001134 CCAATATCCCAGACGTGGTCTTACACGAAATCATATAC
1 CCAATGTCCCAGACGAGGTCTTACACGAAATCATATAC
7001172 CGGAATCCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
42 39 0.57
43 29 0.43
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (42 bp):
CCAATGTCCCAGACGAGGTCTTACACGAAATCATATACGATG
Found at i:7002638 original size:12 final size:14
Alignment explanation
Indices: 7002615--7002660 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
7002605 TCAACTTCTC
7002615 ATAATTACAATAATA
1 ATAATT-CAATAATA
7002630 ATAA-T-AATAATA
1 ATAATTCAATAATA
7002642 ATAATTCAAGTAATA
1 ATAATTCAA-TAATA
7002657 ATAA
1 ATAA
7002661 CATAATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.39
13 1 0.04
14 3 0.11
15 13 0.46
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
ATAATTCAATAATA
Found at i:7003602 original size:29 final size:29
Alignment explanation
Indices: 7003553--7003628 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
7003543 TCATATTCAT
* *
7003553 ATGGCCCCTTTAGGCCCAAATCACCTATAG
1 ATGG-CCCATTAGGCCCAAATCACATATAG
* *
7003583 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATATAG
*
7003612 ATGGCCCGTTAGGCCCA
1 ATGGCCCATTAGGCCCA
7003629 GTCACATTCA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
29 37 0.90
30 4 0.10
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATATAG
Found at i:7003879 original size:8 final size:8
Alignment explanation
Indices: 7003852--7003902 Score: 50
Period size: 8 Copynumber: 6.4 Consensus size: 8
7003842 ATAGCCAAAC
7003852 TTTCGGCT
1 TTTCGGCT
* *
7003860 TTTCGACA
1 TTTCGGCT
7003868 TTTCGGCT
1 TTTCGGCT
*
7003876 TTTCAGCAT
1 TTTCGGC-T
*
7003885 TTT-GGCA
1 TTTCGGCT
7003892 TTTCGGCT
1 TTTCGGCT
7003900 TTT
1 TTT
7003903 GCCGATTCAT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
7 3 0.09
8 26 0.79
9 4 0.12
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.49
Consensus pattern (8 bp):
TTTCGGCT
Found at i:7005539 original size:30 final size:30
Alignment explanation
Indices: 7005505--7005567 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
7005495 ACTTAACAAG
7005505 CAAATGCC-TCTAAAATAATAACAAAATTAA
1 CAAATGCCAT-TAAAATAATAACAAAATTAA
*
7005535 CAAATTCCATTAAAATAATAACAAAATTAA
1 CAAATGCCATTAAAATAATAACAAAATTAA
7005565 CAA
1 CAA
7005568 TAAATTAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.24
Consensus pattern (30 bp):
CAAATGCCATTAAAATAATAACAAAATTAA
Found at i:7006569 original size:17 final size:18
Alignment explanation
Indices: 7006539--7006574 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7006529 TTCTATTAAT
7006539 ATAGAAATTAAATTAAAA
1 ATAGAAATTAAATTAAAA
*
7006557 ATAGAAATTAATTTAAAA
1 ATAGAAATTAAATTAAAA
7006575 TCAATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (18 bp):
ATAGAAATTAAATTAAAA
Found at i:7006575 original size:17 final size:18
Alignment explanation
Indices: 7006534--7006575 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7006524 GTTCTTTCTA
*
7006534 TTAATATAGAAATTAAAT
1 TTAAAATAGAAATTAAAT
*
7006552 TAAAAATAGAAATT-AAT
1 TTAAAATAGAAATTAAAT
7006569 TTAAAAT
1 TTAAAAT
7006576 CAATTTTCAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
TTAAAATAGAAATTAAAT
Found at i:7013120 original size:22 final size:24
Alignment explanation
Indices: 7013080--7013123 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
7013070 AAAAAGCAAA
7013080 AAGAAGAACACAAGAACAAAAACC
1 AAGAAGAACACAAGAACAAAAACC
7013104 AAGAAGAA-AC-AGAACAAAAA
1 AAGAAGAACACAAGAACAAAAA
7013124 ATCAAGTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 10 0.50
23 2 0.10
24 8 0.40
ACGTcount: A:0.70, C:0.16, G:0.14, T:0.00
Consensus pattern (24 bp):
AAGAAGAACACAAGAACAAAAACC
Found at i:7018169 original size:20 final size:19
Alignment explanation
Indices: 7018146--7018242 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 19
7018136 AATTCATTCA
*
7018146 TATAACTAGTAGTTCATCTG
1 TATAAC-AGTAATTCATCTG
**
7018166 TATAACCAGTAATTCATCAA
1 TATAA-CAGTAATTCATCTG
*
7018186 TAATAACAGTAATTTATCTG
1 T-ATAACAGTAATTCATCTG
*
7018206 TATCAACAGTAATTCATCCG
1 TAT-AACAGTAATTCATCTG
* *
7018226 TATCTATAGTAATTCAT
1 TAT-AACAGTAATTCAT
7018243 TCATTTCAAC
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 57 0.89
21 5 0.08
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TATAACAGTAATTCATCTG
Found at i:7018180 original size:40 final size:41
Alignment explanation
Indices: 7018135--7018222 Score: 112
Period size: 40 Copynumber: 2.2 Consensus size: 41
7018125 GTATAAACTA
*
7018135 TAATTCATTC-AT-ATAACTAGTAGTTCATCTGTAT-AACCAG
1 TAATTCATTCAATAATAAC-AGTAATTCATCTGTATCAA-CAG
*
7018175 TAATTCA-TCAATAATAACAGTAATTTATCTGTATCAACAG
1 TAATTCATTCAATAATAACAGTAATTCATCTGTATCAACAG
7018215 TAATTCAT
1 TAATTCAT
7018223 CCGTATCTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
39 2 0.05
40 33 0.79
41 7 0.17
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (41 bp):
TAATTCATTCAATAATAACAGTAATTCATCTGTATCAACAG
Found at i:7018449 original size:23 final size:23
Alignment explanation
Indices: 7018409--7018523 Score: 74
Period size: 23 Copynumber: 4.9 Consensus size: 23
7018399 AAGCTCCTTC
*
7018409 TGAGCTGATAAACAGTAAGCTTTAT
1 TGAGCTG--AAACAGTAAGCTCTAT
*
7018434 TGAGCTGAAACGGTAAGCTCTAT
1 TGAGCTGAAACAGTAAGCTCTAT
* *
7018457 CGAGTTG-AACAGTAAGCTC-AT
1 TGAGCTGAAACAGTAAGCTCTAT
* * * * *
7018478 ACGAG-TTAAATCGGTAAGCTCCAA
1 -TGAGCTGAAA-CAGTAAGCTCTAT
*
7018502 TGAGCTAAAAACAGTAAGCTCT
1 TGAGCT-GAAACAGTAAGCTCT
7018524 TAGTAGCTGA
Statistics
Matches: 72, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
21 3 0.04
22 17 0.24
23 31 0.43
24 11 0.15
25 10 0.14
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:7040669 original size:21 final size:20
Alignment explanation
Indices: 7040635--7040673 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
7040625 AAAAATTCAA
*
7040635 AAAAATATATAAATCATTTCT
1 AAAAATATAAAAAT-ATTTCT
*
7040656 AAAAATTTAAAAATATTT
1 AAAAATATAAAAATATTT
7040674 TTGGATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATATAAAAATATTTCT
Found at i:7041147 original size:3 final size:3
Alignment explanation
Indices: 7041139--7041202 Score: 74
Period size: 3 Copynumber: 21.3 Consensus size: 3
7041129 ATATATTTCT
* * * *
7041139 TCA TCA TCA TCA TCA TGA TCA TCA TCA TCA TCA CCA TCA CCA TCA CCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
* *
7041187 TCA CCT TCA TCA TCA T
1 TCA TCA TCA TCA TCA T
7041203 ATTATTATTA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.31, C:0.38, G:0.02, T:0.30
Consensus pattern (3 bp):
TCA
Found at i:7041208 original size:3 final size:3
Alignment explanation
Indices: 7041202--7041248 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7041192 TTCATCATCA
7041202 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7041249 GTACTTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:7042130 original size:14 final size:14
Alignment explanation
Indices: 7042111--7042140 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7042101 TAGAATATTA
7042111 TTACAGTAAACTAT
1 TTACAGTAAACTAT
7042125 TTACAGTAAACTAT
1 TTACAGTAAACTAT
7042139 TT
1 TT
7042141 TATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.07, T:0.40
Consensus pattern (14 bp):
TTACAGTAAACTAT
Found at i:7042335 original size:43 final size:42
Alignment explanation
Indices: 7042256--7042353 Score: 103
Period size: 43 Copynumber: 2.3 Consensus size: 42
7042246 TTAATTAATA
* * *
7042256 TAATAATAAATTTAATTTTTAATATTTTACATTTTATCAATT
1 TAATAATAAATTTAATCTCTAATATTTTACATTTTATCAATC
*
7042298 TAATCAATAAATTTAA-CTCTACATATTTATACA-TTTATTAATC
1 TAAT-AATAAATTTAATCTCTA-ATATTT-TACATTTTATCAATC
7042341 TAAT-ATCAAATTT
1 TAATAAT-AAATTT
7042354 GCAGATTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
41 2 0.04
42 13 0.27
43 29 0.60
44 4 0.08
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (42 bp):
TAATAATAAATTTAATCTCTAATATTTTACATTTTATCAATC
Found at i:7042994 original size:22 final size:23
Alignment explanation
Indices: 7042969--7043011 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
7042959 ACTTAAATTT
7042969 TTAAATT-TATAAAG-TAAAAAGA
1 TTAAATTCT-TAAAGATAAAAAGA
7042991 TTAAATTCTTAAAGATAAAAA
1 TTAAATTCTTAAAGATAAAAA
7043012 TAATAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (23 bp):
TTAAATTCTTAAAGATAAAAAGA
Found at i:7044082 original size:20 final size:20
Alignment explanation
Indices: 7044044--7044084 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7044034 AGGTCAATGC
* * *
7044044 CTGGTCAATGCTTAGAAACA
1 CTGGTCAACGCTGAAAAACA
7044064 CTGGTCAACGCTGAAAAACA
1 CTGGTCAACGCTGAAAAACA
7044084 C
1 C
7044085 CGATCAATGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
CTGGTCAACGCTGAAAAACA
Found at i:7044176 original size:20 final size:19
Alignment explanation
Indices: 7044147--7044186 Score: 71
Period size: 20 Copynumber: 2.1 Consensus size: 19
7044137 TATTATAATT
7044147 TTTCTATTTTTAATTTAAA
1 TTTCTATTTTTAATTTAAA
7044166 TTTCATATTTTTAATTTAAA
1 TTTC-TATTTTTAATTTAAA
7044186 T
1 T
7044187 AAATCTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTCTATTTTTAATTTAAA
Found at i:7046252 original size:2 final size:2
Alignment explanation
Indices: 7046245--7046296 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
7046235 TAACTAATTA
7046245 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7046287 AG AG AG AG AG
1 AG AG AG AG AG
7046297 TGCAAAGAGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7046718 original size:192 final size:192
Alignment explanation
Indices: 7046387--7046771 Score: 725
Period size: 192 Copynumber: 2.0 Consensus size: 192
7046377 ACTACGAAAT
7046387 GAAATCCTAGAGTGACGCCATATATCTTTGCAAAATTTAAGGATATTCATATTATAAATTTGACT
1 GAAATCCTAGAGTGACGCCATATATCTTTGCAAAATTTAAGGATATTCATATTATAAATTTGACT
* *
7046452 AGAAACGCTCGTTTTTTTTATTAGAATCTTGTGATTTAGTTTTTGATGCGACAAGTCAGAGAAAA
66 AGAAACGCTCGTTTTTTTTATTAGAATCTTGTGATTTAATTTTTGATGCGACAAGTAAGAGAAAA
* *
7046517 TAGTTCTTAATTGTTGGTACAAAAAATAAAGCTGTTGATTCGGTGGCACGGGCTGCAATAAG
131 CAATTCTTAATTGTTGGTACAAAAAATAAAGCTGTTGATTCGGTGGCACGGGCTGCAATAAG
*
7046579 GAAATCCTAGAGTGGCGCCATATATCTTTGCAAAATTTAAGGATATTCATATTATAAATTTGACT
1 GAAATCCTAGAGTGACGCCATATATCTTTGCAAAATTTAAGGATATTCATATTATAAATTTGACT
7046644 AGAAACGCTCGTTTTTTTTATTAGAATCTTGTGATTTAATTTTTGATGCGACAAGTAAGAGAAAA
66 AGAAACGCTCGTTTTTTTTATTAGAATCTTGTGATTTAATTTTTGATGCGACAAGTAAGAGAAAA
7046709 CAATTCTTAATTGTTGGTACAAAAAATAAAGCTGTTGATTCGGTGGCACGGGCTGCAATAAG
131 CAATTCTTAATTGTTGGTACAAAAAATAAAGCTGTTGATTCGGTGGCACGGGCTGCAATAAG
7046771 G
1 G
7046772 GCTTGATGTC
Statistics
Matches: 188, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
192 188 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (192 bp):
GAAATCCTAGAGTGACGCCATATATCTTTGCAAAATTTAAGGATATTCATATTATAAATTTGACT
AGAAACGCTCGTTTTTTTTATTAGAATCTTGTGATTTAATTTTTGATGCGACAAGTAAGAGAAAA
CAATTCTTAATTGTTGGTACAAAAAATAAAGCTGTTGATTCGGTGGCACGGGCTGCAATAAG
Found at i:7049012 original size:20 final size:22
Alignment explanation
Indices: 7048978--7049022 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
7048968 CAATTGCATA
*
7048978 TATAATAGTTATAAA-A-TTGT
1 TATAATAATTATAAATAGTTGT
*
7048998 TATAATAATTGTAAATAGTTGT
1 TATAATAATTATAAATAGTTGT
7049020 TAT
1 TAT
7049023 CTAAAACATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (22 bp):
TATAATAATTATAAATAGTTGT
Found at i:7052290 original size:32 final size:32
Alignment explanation
Indices: 7052207--7052283 Score: 129
Period size: 31 Copynumber: 2.4 Consensus size: 32
7052197 CGAGTGTGGC
*
7052207 CGTGTGAGCTACACGAGCATGGCCAAGTTGGG
1 CGTGTGAGCCACACGAGCATGGCCAAGTTGGG
*
7052239 CGTGTG-CCCACACGAGCATGGCCAAGTTGGG
1 CGTGTGAGCCACACGAGCATGGCCAAGTTGGG
7052270 CGTGTGAGCCACAC
1 CGTGTGAGCCACAC
7052284 AGGCATGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
31 29 0.71
32 12 0.29
ACGTcount: A:0.21, C:0.27, G:0.35, T:0.17
Consensus pattern (32 bp):
CGTGTGAGCCACACGAGCATGGCCAAGTTGGG
Found at i:7054353 original size:5 final size:5
Alignment explanation
Indices: 7054343--7054397 Score: 110
Period size: 5 Copynumber: 11.0 Consensus size: 5
7054333 ATAAAATATA
7054343 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
7054393 ATTAT
1 ATTAT
7054398 TATAATTAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 50 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:7054445 original size:31 final size:31
Alignment explanation
Indices: 7054405--7054489 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
7054395 TATTATAATT
7054405 AAAG-AATAAAAGAAATAAAATAGAAACGGG
1 AAAGAAATAAAAGAAATAAAATAGAAACGGG
7054435 AAAGAAATAAAAGAAATAAAATAGAAACGGG
1 AAAGAAATAAAAGAAATAAAATAGAAACGGG
* **
7054466 AAAGAAA-CAAAGAAACGAAATAGA
1 AAAGAAATAAAAGAAATAAAATAGA
7054490 GAAAGAATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.68, C:0.05, G:0.19, T:0.08
Consensus pattern (31 bp):
AAAGAAATAAAAGAAATAAAATAGAAACGGG
Found at i:7054506 original size:21 final size:19
Alignment explanation
Indices: 7054466--7054513 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 19
7054456 TAGAAACGGG
*
7054466 AAAGAAACAAAGAAACGAA
1 AAAGAAAGAAAGAAACGAA
7054485 ATAGAGAAAGAATAGAAA-GAA
1 A-A-AGAAAGAA-AGAAACGAA
7054506 AAAGAAAG
1 AAAGAAAG
7054514 GAGAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.28
20 2 0.08
21 11 0.44
22 5 0.20
ACGTcount: A:0.71, C:0.04, G:0.21, T:0.04
Consensus pattern (19 bp):
AAAGAAAGAAAGAAACGAA
Found at i:7054517 original size:26 final size:27
Alignment explanation
Indices: 7054412--7054527 Score: 87
Period size: 26 Copynumber: 4.3 Consensus size: 27
7054402 ATTAAAGAAT
* *
7054412 AAAAGAAATAAAATAGAAACGGGAAAGAAAT
1 AAAAGAAAGAAAA-AGAAAC-GG--AGAAAG
*
7054443 AAAAGAAATAAAATAGAAACGG-GAAAG
1 AAAAGAAAGAAAA-AGAAACGGAGAAAG
* * **
7054470 -AAACAAAG-AAACGAAATAGAGAAAG
1 AAAAGAAAGAAAAAGAAACGGAGAAAG
*
7054495 AATAGAAAGAAAAAGAAA-GGAGAAAG
1 AAAAGAAAGAAAAAGAAACGGAGAAAG
7054521 AAAAGAA
1 AAAAGAA
7054528 GGAGAATTAG
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
24 5 0.07
25 8 0.11
26 25 0.35
27 11 0.15
30 2 0.03
31 20 0.28
ACGTcount: A:0.69, C:0.03, G:0.22, T:0.06
Consensus pattern (27 bp):
AAAAGAAAGAAAAAGAAACGGAGAAAG
Found at i:7054529 original size:15 final size:17
Alignment explanation
Indices: 7054498--7054533 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
7054488 GAGAAAGAAT
7054498 AGAAAGAAAAAGAAAGG
1 AGAAAGAAAAAGAAAGG
7054515 AGAAAG-AAAAG-AAGG
1 AGAAAGAAAAAGAAAGG
7054530 AGAA
1 AGAA
7054534 TTAGGGATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAGAAAGG
Found at i:7057288 original size:40 final size:40
Alignment explanation
Indices: 7057187--7057377 Score: 231
Period size: 40 Copynumber: 4.7 Consensus size: 40
7057177 ACACGAATTC
* * *
7057187 TCGCATACTAAATGCCAATACATAGCCGAAGCTAT-TTTAA
1 TCGCACACTAAGTGCC-ATACATAGCCGAAGCTATCTCTAA
*
7057227 TCACGCACACTAAGTGCCATACATAGCCGAAGCTATCTCGAA
1 T--CGCACACTAAGTGCCATACATAGCCGAAGCTATCTCTAA
* * *
7057269 TCGCACACTAAGTGTCATACCTAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCTAA
* * *
7057309 TAGCACATTAAGTGCCATACATGGCCGAAGCTATCTCTAA
1 TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCTAA
* * *
7057349 TCGCACACTAAGTGTCATATATAGTCGAA
1 TCGCACACTAAGTGCCATACATAGCCGAA
7057378 TTGTCGTCAA
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
40 94 0.73
41 18 0.14
42 17 0.13
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATACATAGCCGAAGCTATCTCTAA
Found at i:7063341 original size:22 final size:22
Alignment explanation
Indices: 7063308--7063374 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 22
7063298 TTATCGATTC
7063308 AGCTCGAA-AGAGCTTACTGTTA
1 AGCTC-AATAGAGCTTACTGTTA
* *
7063330 AGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTA-C-TGTTA
* *
7063354 AGCTTAATAAAGCTTACTGTT
1 AGCTCAATAGAGCTTACTGTT
7063375 TATCAGCTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
21 2 0.05
22 16 0.43
23 2 0.05
24 17 0.46
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (22 bp):
AGCTCAATAGAGCTTACTGTTA
Found at i:7063362 original size:24 final size:25
Alignment explanation
Indices: 7063330--7063398 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 25
7063320 CTTACTGTTA
*
7063330 AGCTCAATAGAGCTTACCGTTT-TC
1 AGCTCAATAAAGCTTACCGTTTATC
* *
7063354 AGCTTAATAAAGCTTACTGTTTATC
1 AGCTCAATAAAGCTTACCGTTTATC
7063379 AGCTC-ATGAAGAGCTTACCG
1 AGCTCAAT-AA-AGCTTACCG
7063399 ACCATGTCTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 21 0.57
25 8 0.22
26 8 0.22
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (25 bp):
AGCTCAATAAAGCTTACCGTTTATC
Found at i:7068223 original size:40 final size:40
Alignment explanation
Indices: 7068125--7068308 Score: 233
Period size: 40 Copynumber: 4.5 Consensus size: 40
7068115 CGAATTCTCA
* * * *
7068125 CACACTAAGTGCCAATACATAGCCGAAGCTATTTTAATCTCG
1 CACACTAAGTGCC-ATACATAGCCAAAGCTATCTCAA-ATCG
* *
7068167 TACACTAAGTGTCATACATAGCCAAAGCTATCTCAAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCG
* * *
7068207 CACACTAAGTGCCATACCTAGCCGAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCG
* *
7068247 CACACTAAGTGCCATACATAGTCAAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCG
* *
7068287 TACATTAAGTGCCATACATAGC
1 CACACTAAGTGCCATACATAGC
7068309 TGAATTTTCA
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
40 94 0.75
41 20 0.16
42 11 0.09
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCAAAGCTATCTCAAATCG
Found at i:7069549 original size:16 final size:16
Alignment explanation
Indices: 7069511--7069549 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
7069501 TAAGAGATAA
7069511 GAATTGATAGTGTTAT
1 GAATTGATAGTGTTAT
7069527 GAA-TGATA-TGTTAT
1 GAATTGATAGTGTTAT
7069541 GAAATTGAT
1 G-AATTGAT
7069550 TATTTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 7 0.33
16 7 0.33
ACGTcount: A:0.36, C:0.00, G:0.23, T:0.41
Consensus pattern (16 bp):
GAATTGATAGTGTTAT
Found at i:7071901 original size:2 final size:2
Alignment explanation
Indices: 7071894--7071932 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
7071884 CTCGTGCTTT
7071894 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7071933 AATTAAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7077397 original size:10 final size:10
Alignment explanation
Indices: 7077371--7077424 Score: 60
Period size: 9 Copynumber: 5.5 Consensus size: 10
7077361 TTTGAATGTT
7077371 ATTTTTAATA
1 ATTTTTAATA
7077381 TATTTTTTAATA
1 -A-TTTTTAATA
7077393 A-TTTTAATA
1 ATTTTTAATA
7077402 ATTTTT-AT-
1 ATTTTTAATA
*
7077410 ATTTTTTATA
1 ATTTTTAATA
7077420 ATTTT
1 ATTTT
7077425 GTATAGGTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
8 6 0.15
9 13 0.33
10 9 0.23
11 2 0.05
12 9 0.23
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:7077809 original size:14 final size:14
Alignment explanation
Indices: 7077790--7077818 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7077780 TTCAAAGAAG
7077790 AAATGCAATCCGGC
1 AAATGCAATCCGGC
7077804 AAATGCAATCCGGC
1 AAATGCAATCCGGC
7077818 A
1 A
7077819 GGGGCAATCT
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:0.38, C:0.28, G:0.21, T:0.14
Consensus pattern (14 bp):
AAATGCAATCCGGC
Found at i:7078398 original size:2 final size:2
Alignment explanation
Indices: 7078391--7078421 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7078381 TAAAAAGAAT
7078391 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7078422 GTTGATTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7079489 original size:28 final size:28
Alignment explanation
Indices: 7079453--7079513 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
7079443 TGTAATGAAA
*
7079453 TAAATTCTTTAGAATTGTATGTTAAAGT
1 TAAAATCTTTAGAATTGTATGTTAAAGT
7079481 TAAAATCTTTAGAATTGTATGTTAAAGT
1 TAAAATCTTTAGAATTGTATGTTAAAGT
7079509 TAAAA
1 TAAAA
7079514 GTGAGAGTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.43
Consensus pattern (28 bp):
TAAAATCTTTAGAATTGTATGTTAAAGT
Found at i:7082947 original size:27 final size:27
Alignment explanation
Indices: 7082891--7082964 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
7082881 GCAGTTGGCC
* *
7082891 CTTTGGATCATCATTCTCCACCTCAGG
1 CTTTGGATCATCACTCTCCAACTCAGG
* * *
7082918 CTTTGGATCATCAGTCTCGAACT-GGAG
1 CTTTGGATCATCACTCTCCAACTCAG-G
* *
7082945 CTTAGGATCCTCACTCTCCA
1 CTTTGGATCATCACTCTCCA
7082965 CTTTGATATC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (27 bp):
CTTTGGATCATCACTCTCCAACTCAGG
Found at i:7088635 original size:27 final size:27
Alignment explanation
Indices: 7088605--7088719 Score: 133
Period size: 27 Copynumber: 4.3 Consensus size: 27
7088595 GCAGCTGGCC
* * *
7088605 CTTTGGATCATCATTCTCCCCCTCAGG
1 CTTTGGACCCTCATTCTCCACCTCAGG
* * *
7088632 CTTTAGACCCTCACTCTCCACCTCGGG
1 CTTTGGACCCTCATTCTCCACCTCAGG
* *
7088659 CTTTGAACCCTCATTCTCCAACTCAGG
1 CTTTGGACCCTCATTCTCCACCTCAGG
*
7088686 CTTTGGACCCTCATTCTCCAACCT-GGG
1 CTTTGGACCCTCATTCTCC-ACCTCAGG
7088713 CTTTGGA
1 CTTTGGA
7088720 TCATCAGTCT
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
27 70 0.96
28 3 0.04
ACGTcount: A:0.17, C:0.37, G:0.16, T:0.30
Consensus pattern (27 bp):
CTTTGGACCCTCATTCTCCACCTCAGG
Found at i:7088673 original size:54 final size:54
Alignment explanation
Indices: 7088615--7088717 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
7088605 CTTTGGATCA
**
7088615 TCATTCTCCCCCTCAGGCTTTAGACCCTCACTCTCC-ACCTCGGGCTTTGAACCC
1 TCATTCTCCAACTCAGGCTTTAGACCCTCACTCTCCAACCT-GGGCTTTGAACCC
* *
7088669 TCATTCTCCAACTCAGGCTTTGGACCCTCATTCTCCAACCTGGGCTTTG
1 TCATTCTCCAACTCAGGCTTTAGACCCTCACTCTCCAACCTGGGCTTTG
7088718 GATCATCAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 40 0.91
55 4 0.09
ACGTcount: A:0.16, C:0.40, G:0.15, T:0.30
Consensus pattern (54 bp):
TCATTCTCCAACTCAGGCTTTAGACCCTCACTCTCCAACCTGGGCTTTGAACCC
Found at i:7091475 original size:2 final size:2
Alignment explanation
Indices: 7091468--7091492 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7091458 TCATAATTTT
7091468 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7091493 TATCTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7091862 original size:28 final size:27
Alignment explanation
Indices: 7091814--7091866 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
7091804 GGTAAGCATT
*
7091814 AATTAAAAATAAATCGGTAAAATTATAA
1 AATTAAAAATAAATCAGT-AAATTATAA
*
7091842 AATTATAAAAT-AATCATTAAATTAT
1 AATTA-AAAATAAATCAGTAAATTAT
7091867 TTAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 10 0.45
29 5 0.23
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
AATTAAAAATAAATCAGTAAATTATAA
Found at i:7096023 original size:14 final size:14
Alignment explanation
Indices: 7095992--7096025 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
7095982 TGATAAACTG
* *
7095992 AAAATTTAAGTGTT
1 AAAATTTAAGTATC
7096006 AAAATTTAAGTATC
1 AAAATTTAAGTATC
7096020 AAAATT
1 AAAATT
7096026 GTTTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (14 bp):
AAAATTTAAGTATC
Found at i:7097622 original size:38 final size:35
Alignment explanation
Indices: 7097579--7097654 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
7097569 TTGAAAAGTA
*
7097579 TTTATATTAAAAAAACACTACTATAAATATAATAATTT
1 TTTATATT-AAAAAACA-TA-AATAAATATAATAATTT
* *
7097617 TTTATATTAAAATACATAAATAAATATAATATTTT
1 TTTATATTAAAAAACATAAATAAATATAATAATTT
7097652 TTT
1 TTT
7097655 TACTGTATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 18 0.51
36 2 0.06
37 7 0.20
38 8 0.23
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (35 bp):
TTTATATTAAAAAACATAAATAAATATAATAATTT
Found at i:7100808 original size:30 final size:33
Alignment explanation
Indices: 7100751--7100813 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 33
7100741 AAATCAACAA
*
7100751 CTAAATTAAATAAATTGGAAAATATGTCTAAAGG
1 CTAAATTAAATAAATTGG-AAATATGTCAAAAGG
*
7100785 CTAAATTGAATAAATT-G-AA-ATGTCAAAAG
1 CTAAATTAAATAAATTGGAAATATGTCAAAAG
7100814 ACTTTAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.33
31 2 0.07
33 1 0.04
34 15 0.56
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (33 bp):
CTAAATTAAATAAATTGGAAATATGTCAAAAGG
Found at i:7101707 original size:150 final size:145
Alignment explanation
Indices: 7101439--7101709 Score: 346
Period size: 145 Copynumber: 1.8 Consensus size: 145
7101429 TAGTTAAATT
* *
7101439 AAATTATTTTAAATTAACCCCATAATTAATTGAATATAACCTAATTAGTGTTAATTATACTAGAA
1 AAATTATTTTAAATTAACCCCATAATTAATTCAATATAACCTAATTAGTGTTAATTATACAAGAA
* * * *
7101504 CTAAAAACTAAAATGAAACTAATCTAAATTATGTTTCCCTTCGAATAAACCTTAACTTTATTCTA
66 CCAAAAACTAAAATGAAACTAATCTAAATCATATTTCCCTTAGAATAAACCTTAACTTTATTCTA
7101569 AGATCCAACTACATC
131 AGATCCAACTACATC
* ** *
7101584 AAATTATTTTAACTTAAGTCCATAATTAATTCAATCTAACCTAATTAGTGTTAATTGGATTTTAC
1 AAATTATTTTAAATTAACCCCATAATTAATTCAATATAACCTAATTAGTGTTAATT--A---TAC
* * * * *
7101649 AAGACCCAAAAACTAACATTAGACTAATCTAAATCCTATTT-CCTATAGAATAAACCTTAAC
61 AAGAACCAAAAACTAAAATGAAACTAATCTAAATCATATTTCCCT-TAGAATAAACCTTAAC
7101710 AATATAATTA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
145 51 0.49
147 1 0.01
149 3 0.03
150 50 0.48
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (145 bp):
AAATTATTTTAAATTAACCCCATAATTAATTCAATATAACCTAATTAGTGTTAATTATACAAGAA
CCAAAAACTAAAATGAAACTAATCTAAATCATATTTCCCTTAGAATAAACCTTAACTTTATTCTA
AGATCCAACTACATC
Found at i:7104531 original size:44 final size:44
Alignment explanation
Indices: 7104481--7104861 Score: 140
Period size: 44 Copynumber: 8.5 Consensus size: 44
7104471 ATCCACTTCG
* * * * * ** *
7104481 CTGCAACTTTAGGAAGATAAAACTTGTAGCTTTAATTTGCTCCA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
*
7104525 CTGCAACTTCAGGGAGATAAGACTCGTAACTTCAACCTACTCCA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
* * * * *
7104569 CTGCAACTTCAGGGAGATAAGGTTTGTAATTTGTAGCTTCAATCTCCTCCA
1 CTGCAACTTCAGGGAGATAA-------AACTCGTAACTTCAACCTACTCCA
* * * * * ** * *
7104620 CTGCAACTTTAGGAAAATAAGA-TGCGTTATCTTCAGTCTGCTCTA
1 CTGCAACTTCAGGGAGATAAAACT-CG-TAACTTCAACCTACTCCA
* ** * * * *
7104665 CTGTAACTTCAGGGAGATAGGACTTGTAACTTCACCCTGCCCCA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
* ** * * * * *
7104709 CTGCAACTTCAGGGGGAT-AAGGTTGATAGCTTTAATCTACTCTA
1 CTGCAACTTCAGGGAGATAAAACTCG-TAACTTCAACCTACTCCA
* ** * * * * *
7104753 CTGTAACTTCAGAAAGATAAGATTTGCTATCTTCAATCC-GCTCCA
1 CTGCAACTTCAGGGAGATAAAACTCG-TAACTTCAA-CCTACTCCA
* * ** * *
7104798 CTGCAACTTCAGAGAGACAGGACTCGTAACTTCACCCTGC-CACA
1 CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTC-CA
*
7104842 CTGCAACTTCAAGGAGATAA
1 CTGCAACTTCAGGGAGATAA
7104862 GGTTTATAGC
Statistics
Matches: 249, Mismatches: 73, Indels: 30
0.71 0.21 0.09
Matches are distributed among these distances:
43 7 0.03
44 138 0.55
45 67 0.27
46 2 0.01
51 35 0.14
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (44 bp):
CTGCAACTTCAGGGAGATAAAACTCGTAACTTCAACCTACTCCA
Found at i:7104640 original size:95 final size:96
Alignment explanation
Indices: 7104504--7104683 Score: 229
Period size: 95 Copynumber: 1.9 Consensus size: 96
7104494 AAGATAAAAC
* * * * *
7104504 TTGTAGCTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGACT-CG-TAACTTCAACCTACTC
1 TTGTAGCTTCAATCTCCTCCACTGCAACTTCAGGAAAATAAGA-TGCGTTAACTTCAACCTACTC
7104567 CACTGCAACTTCAGGGAGATAAGGTTTGTAAT
65 CACTGCAACTTCAGGGAGATAAGGTTTGTAAT
* * ** * *
7104599 TTGTAGCTTCAATCTCCTCCACTGCAACTTTAGGAAAATAAGATGCGTTATCTTCAGTCTGCTCT
1 TTGTAGCTTCAATCTCCTCCACTGCAACTTCAGGAAAATAAGATGCGTTAACTTCAACCTACTCC
*
7104664 ACTGTAACTTCAGGGAGATA
66 ACTGCAACTTCAGGGAGATA
7104684 GGACTTGTAA
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
94 1 0.01
95 39 0.55
96 31 0.44
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (96 bp):
TTGTAGCTTCAATCTCCTCCACTGCAACTTCAGGAAAATAAGATGCGTTAACTTCAACCTACTCC
ACTGCAACTTCAGGGAGATAAGGTTTGTAAT
Found at i:7104827 original size:133 final size:133
Alignment explanation
Indices: 7104519--7104874 Score: 426
Period size: 133 Copynumber: 2.6 Consensus size: 133
7104509 GCTTTAATTT
* * * *
7104519 GCTCCACTGCAACTTCAGGGAGATAAGACTCGTAACTTCAACCTACTCCACTGCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
* * * *
7104584 GATAAGGTTTGTAATTTGTAGCTTCAATCTCCTCCACTGCAACTTTAGGAAAATAAGATGCGTTA
66 GATAAGG-TTG--A----TAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATGCGCTA
* *
7104649 TCTTCAGTCT
124 TCTTCAATCC
* * * *
7104659 GCTCTACTGTAACTTCAGGGAGATAGGACTTGTAACTTCACCCTGCCCCACTGCAACTTCAGGGG
1 GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
* * **
7104724 GATAAGGTTGATAGCTTTAATCTACTCTACTGTAACTTCA-GAAAGATAAGATTTGCTATCTTCA
66 GATAAGGTTGATAGCTTTAATCTACTCCACTGCAACTTCAGGAAA-ATAAGATGCGCTATCTTCA
7104788 ATCC
130 ATCC
* * * *
7104792 GCTCCACTGCAACTTCAGAGAGACAGGACTCGTAACTTCACCCTGCCACACTGCAACTTCAAGGA
1 GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
*
7104857 GATAAGGTTTATAGCTTT
66 GATAAGGTTGATAGCTTT
7104875 TTTGATCCGT
Statistics
Matches: 188, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
132 4 0.02
133 116 0.62
137 1 0.01
139 3 0.02
140 64 0.34
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (133 bp):
GCTCCACTGCAACTTCAGGGAGATAGGACTCGTAACTTCACCCTGCCCCACTGCAACTTCAGGGA
GATAAGGTTGATAGCTTTAATCTACTCCACTGCAACTTCAGGAAAATAAGATGCGCTATCTTCAA
TCC
Found at i:7105036 original size:15 final size:16
Alignment explanation
Indices: 7105008--7105040 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7104998 ATGCAGAATG
7105008 TCATTTTTGAAAATGCT
1 TCATTTTT-AAAATGCT
7105025 TCATTTTT-AAATGCT
1 TCATTTTTAAAATGCT
7105040 T
1 T
7105041 AGGTTGTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.52
Consensus pattern (16 bp):
TCATTTTTAAAATGCT
Found at i:7114313 original size:56 final size:56
Alignment explanation
Indices: 7114212--7114422 Score: 296
Period size: 56 Copynumber: 3.8 Consensus size: 56
7114202 GAATTATATG
* ** * * *
7114212 TGGCATCGATATATGAATCTAATATATGTTTACGAATAAGTCCACGTTTAATACGT
1 TGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* *
7114268 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGT
* * * * * *
7114324 TGGCATCGAAATGTGACTCTGATATATCTGTGCGAGTAAGACGACGTTTAATACGT
1 TGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGT
7114380 TGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACC
1 TGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACC
7114423 CTGTCTGAGG
Statistics
Matches: 137, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 137 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (56 bp):
TGGCATCGATATATGACTCCGATATATGTGTACGAGTAAGACCACGTTTAATACGT
Found at i:7115932 original size:2 final size:2
Alignment explanation
Indices: 7115925--7115972 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
7115915 ATATAGAACA
7115925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7115967 AT AT AT
1 AT AT AT
7115973 GTGTGTGTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7116441 original size:2 final size:2
Alignment explanation
Indices: 7116430--7116473 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
7116420 TGAATAATTA
7116430 AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7116471 AT A
1 AT A
7116474 ATGATGTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7121745 original size:2 final size:2
Alignment explanation
Indices: 7121738--7121772 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
7121728 ATGAGGTTTT
7121738 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
7121773 TATTCATACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7138193 original size:64 final size:64
Alignment explanation
Indices: 7138115--7138235 Score: 224
Period size: 64 Copynumber: 1.9 Consensus size: 64
7138105 TTTTTTGGAA
*
7138115 GGGGGGTTGAAACTATAGTTAGAAGATTTGTGAAATTCAGAAACTAAAAAAGTGTTTGTTTTTT
1 GGGGGGTTGAAACTATAGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTTGTTTTTT
*
7138179 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTT
1 GGGGGGTTGAAACTATAGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTT
7138236 TTATTTTTTA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (64 bp):
GGGGGGTTGAAACTATAGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTTGTTTTTT
Found at i:7138270 original size:71 final size:64
Alignment explanation
Indices: 7138115--7138270 Score: 222
Period size: 64 Copynumber: 2.3 Consensus size: 64
7138105 TTTTTTGGAA
* * *
7138115 GGGGGGTTGAAACTATAGTTAGAAGATTTGTGAAATTCAGAAACTAAAAAAGTGTTTGTTTTTT
1 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTTATTTTTT
7138179 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTTTTATTTTT
1 GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTG--TTTATTTTT
7138244 T
64 T
7138245 AGGAGAGGGGATTGAAACTATGGTTA
1 --G-G-GGGG-TTGAAACTATGGTTA
7138271 AAATAGTTAT
Statistics
Matches: 82, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
64 52 0.63
66 9 0.11
68 1 0.01
69 1 0.01
70 4 0.05
71 15 0.18
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (64 bp):
GGGGGGTTGAAACTATGGTTAGAAGATTTGTGAAATTCAAAAACTAAAAAAGTGTTTATTTTTT
Found at i:7138765 original size:122 final size:124
Alignment explanation
Indices: 7138463--7138766 Score: 314
Period size: 122 Copynumber: 2.5 Consensus size: 124
7138453 TTAGAGGAGT
* * *
7138463 GGGGTGAAACTGTGGTTAAAAGATTTGTAAAATTAAGAAATTAAAGAACCGTTTTTTTTTTGGTG
1 GGGGTGAAACTATGGTTAAAAGATTTGTAAAATTAAGAACTTAAA-AAACGTTTTTTTTTTGGTG
* * * * * *
7138528 AGAGTTGAAACTATGGTTAGAATATTTGTAAAATTGAGAATCCAGATAAGTGTTATTTTA
65 AGAGGTGAAACTATGGTTAGAAGATTTATAAAATTAAGAAGCCAAATAAGTGTTATTTTA
* * * * *
7138588 GGGTTGAAACTATGGTTAAAAAAATTGTAAAATTGAGAAAC-TAAAAAATGTTTTTTTTTT-GTG
1 GGGGTGAAACTATGGTTAAAAGATTTGTAAAATTAAG-AACTTAAAAAACGTTTTTTTTTTGGTG
* * *
7138651 -GGGGTGAAACTATTGTTAGAAGATTTATAAAATTAAGAAGCTAAATAAGTG-T-TTTT-
65 AGAGGTGAAACTATGGTTAGAAGATTTATAAAATTAAGAAGCCAAATAAGTGTTATTTTA
* * * * * * *
7138707 GGAGGTGAAACTATGATTAGAAGATTTATGAAATTTAGAAGCTTAAAAAGCGTCTTTTTT
1 GG-GGTGAAACTATGGTTAAAAGATTTGTAAAATTAAGAA-CTTAAAAAACGTTTTTTTT
7138767 GGGGGAGGGT
Statistics
Matches: 147, Mismatches: 28, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
119 4 0.03
120 32 0.22
121 15 0.10
122 42 0.29
123 3 0.02
124 13 0.09
125 36 0.24
126 2 0.01
ACGTcount: A:0.38, C:0.05, G:0.21, T:0.37
Consensus pattern (124 bp):
GGGGTGAAACTATGGTTAAAAGATTTGTAAAATTAAGAACTTAAAAAACGTTTTTTTTTTGGTGA
GAGGTGAAACTATGGTTAGAAGATTTATAAAATTAAGAAGCCAAATAAGTGTTATTTTA
Found at i:7139007 original size:68 final size:67
Alignment explanation
Indices: 7138848--7139258 Score: 180
Period size: 60 Copynumber: 6.5 Consensus size: 67
7138838 GGGATTTATT
* * ** ** *
7138848 GTTAAAAGAGTTATGAAATTGGGAAGC-AAAAAATTGCTTTTTTTTTTTTGTTGGGGTTGAAACT
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTG-TTTTTTTTTAATGAAGGGGTTGAAAAT
*
7138912 ATT
65 ATG
* * * * *
7138915 GTT-AGATATTTGTGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTTAAT-AAGGAAGGTTGAAAA
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTGTTTTTTTTTAATGAAGG--GGTTGAAAA
7138978 TATG
64 TATG
** *
7138982 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGT-TTTCTTTTTT--T-----TTTTGAAACT
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTGTTT-TTTTTTAATGAAGGGGTTGAAAAT
*
7139039 ATT
65 ATG
* * * * * * * ** *
7139042 GTTAGAAGATTTATTGAAAGTAAGAAGCTAAAGAAGTGTGTTTTTTT-AGGGGGGAAGGTTGAAG
1 GTTAAAAGAGTTA-TGAAATTGAGAAGCTAAAAAAGTGTTTTTTTTTAATGAAGG--GGTTGAAA
*
7139106 TTATG
63 ATATG
* * * *
7139111 GCTAAAAGTGTTGTGAAATTGAGAAGCTAAAGAAA---TTTTTTTTT--T-----GG-TGAAATT
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAA-AAAGTGTTTTTTTTTAATGAAGGGGTTGAAAAT
7139165 ATG
65 ATG
* * * * * *
7139168 GTTAGAAGATTTATGAAATTGAGAAGTTAAATAA--G-TATTTTTT--T-AA-GGGTTGAAACTA
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTGTTTTTTTTTAATGAAGGGGTTGAAAATA
7139226 TG
66 TG
* *
7139228 GTTAAAAGATTTGTGAAATTGAGAAGCTAAA
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAA
7139259 GAACTCTTTT
Statistics
Matches: 266, Mismatches: 57, Indels: 49
0.72 0.15 0.13
Matches are distributed among these distances:
56 10 0.04
57 34 0.13
58 2 0.01
59 2 0.01
60 57 0.21
61 26 0.10
62 2 0.01
65 2 0.01
66 36 0.14
67 28 0.11
68 49 0.18
69 18 0.07
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (67 bp):
GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTGTTTTTTTTTAATGAAGGGGTTGAAAATA
TG
Found at i:7139102 original size:129 final size:123
Alignment explanation
Indices: 7138848--7139258 Score: 372
Period size: 129 Copynumber: 3.3 Consensus size: 123
7138838 GGGATTTATT
*
7138848 GTTAAAAGAGTTATGAAATTGGGAAGC-AAAAAATTGCTTTTTTTTTTTTGTTGGGGTTGAAACT
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAA--G--TTTTTTTTTTT-TT----TTGAAACT
* * *
7138912 ATTGTTAG-ATATTTGTGAAATTAAGAAGCTAAAAAAGTGTTTTTTTTTAATAAGGAAGGTTGAA
57 ATTGTTAGAAGATTTATGAAATTAAGAAGCTAAAAAAGTG-TATTTTTT--T-AGGAAGGTTGAA
7138976 AATATG
118 AATATG
7138982 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTTTTCTTTTTTTTTTTGAAACTATTGTTAG
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTTTT-TTTTTTTTTTTGAAACTATTGTTAG
* * * **
7139047 AAGATTTATTGAAAGTAAGAAGCTAAAGAAGTGTGTTTTTTTAGGGGGGAAGGTTGAAGTTATG
65 AAGATTTA-TGAAATTAAGAAGCTAAAAAAGTGTATTTTTTTA----GGAAGGTTGAAAATATG
* * * ** * *
7139111 GCTAAAAGTGTTGTGAAATTGAGAAGCTAAAGAAA---TTTTTTTTTTGGTGAAATTATGGTTAG
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAA-AAAGTTTTTTTTTTTTTTTGAAACTATTGTTAG
* * * * *
7139173 AAGATTTATGAAATTGAGAAGTTAAATAA--GTATTTTTTTA--AGGGTTGAAACTATG
65 AAGATTTATGAAATTAAGAAGCTAAAAAAGTGTATTTTTTTAGGAAGGTTGAAAATATG
* *
7139228 GTTAAAAGATTTGTGAAATTGAGAAGCTAAA
1 GTTAAAAGAGTTATGAAATTGAGAAGCTAAA
7139259 GAACTCTTTT
Statistics
Matches: 242, Mismatches: 26, Indels: 35
0.80 0.09 0.12
Matches are distributed among these distances:
117 40 0.17
123 10 0.04
125 18 0.07
126 30 0.12
127 18 0.07
128 12 0.05
129 65 0.27
130 3 0.01
131 6 0.02
132 7 0.03
133 1 0.00
134 26 0.11
135 6 0.02
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (123 bp):
GTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGTTTTTTTTTTTTTTTGAAACTATTGTTAGA
AGATTTATGAAATTAAGAAGCTAAAAAAGTGTATTTTTTTAGGAAGGTTGAAAATATG
Found at i:7139237 original size:60 final size:60
Alignment explanation
Indices: 7138969--7139332 Score: 234
Period size: 61 Copynumber: 6.0 Consensus size: 60
7138959 TAATAAGGAA
* * * ***
7138969 GGTTGAAAATATGGTTAAAAGAGTTATGAAATTGAGAAGCTAAAAAAGT-TTTCTTTTTTT
1 GGTTGAAACTATGGTTAAAAGATTTATGAAATTGAGAAGCTAAAGAAGTATTT-TTTTAAG
** * * * * *
7139029 TTTTGAAACTATTGTTAGAAGATTTATTGAAAGTAAGAAGCTAAAGAAGTGTGTTTTTTTAGGGG
1 GGTTGAAACTATGGTTAAAAGATTTA-TGAAATTGAGAAGCTAAAGAA--GTATTTTTTTA----
*
7139094 GGAA
59 --AG
** * * ***
7139098 GGTTGAAGTTATGGCTAAAAG-TGTTGTGAAATTGAGAAGCTAAAGAA--ATTTTTTTTTT
1 GGTTGAAACTATGGTTAAAAGAT-TTATGAAATTGAGAAGCTAAAGAAGTATTTTTTTAAG
* * * *
7139156 GG-TGAAATTATGGTTAGAAGATTTATGAAATTGAGAAGTTAAATAAGTATTTTTTTAAG
1 GGTTGAAACTATGGTTAAAAGATTTATGAAATTGAGAAGCTAAAGAAGTATTTTTTTAAG
* * * ***
7139215 GGTTGAAACTATGGTTAAAAGATTTGTGAAATTGAGAAGCTAAAGAACTCTTTTATTGGGG
1 GGTTGAAACTATGGTTAAAAGATTTATGAAATTGAGAAGCTAAAGAAGTATTTT-TTTAAG
** * * ** * *
7139276 GGTTGAAACTATTATTAAAAGAGTTGTGAAATTGAGAAATTAAAGAATTGTTTTTTT
1 GGTTGAAACTATGGTTAAAAGATTTATGAAATTGAGAAGCTAAAGAAGTATTTTTTT
7139333 TTTTTTTGGT
Statistics
Matches: 235, Mismatches: 53, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
57 36 0.15
58 3 0.01
59 10 0.04
60 66 0.28
61 68 0.29
63 6 0.03
64 10 0.04
68 20 0.09
69 16 0.07
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (60 bp):
GGTTGAAACTATGGTTAAAAGATTTATGAAATTGAGAAGCTAAAGAAGTATTTTTTTAAG
Found at i:7139414 original size:57 final size:58
Alignment explanation
Indices: 7139304--7139415 Score: 174
Period size: 57 Copynumber: 1.9 Consensus size: 58
7139294 AAGAGTTGTG
* * *
7139304 AAATTGAGAAATTAAAGAATTGTTTTTTTTTTTTTTGGTGGGGGTTGAAACTATGGTA
1 AAATTGAGAAATTAAAGAAGTGTTTTTTTTATTTTTGATGGGGGTTGAAACTATGGTA
7139362 AAATTGA-AAAGTTAAAGAAGTG-TTTTTTTATTTTTGATGGGGGTTGAAACTATG
1 AAATTGAGAAA-TTAAAGAAGTGTTTTTTTTATTTTTGATGGGGGTTGAAACTATG
7139416 ATTAGAAGAT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
57 33 0.66
58 17 0.34
ACGTcount: A:0.31, C:0.02, G:0.24, T:0.43
Consensus pattern (58 bp):
AAATTGAGAAATTAAAGAAGTGTTTTTTTTATTTTTGATGGGGGTTGAAACTATGGTA
Found at i:7139795 original size:17 final size:17
Alignment explanation
Indices: 7139770--7139804 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7139760 TTAATTAGCA
*
7139770 TATGCTTTTTACAAGGT
1 TATGCTTTTCACAAGGT
*
7139787 TATGTTTTTCACAAGGT
1 TATGCTTTTCACAAGGT
7139804 T
1 T
7139805 TTAAGTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (17 bp):
TATGCTTTTCACAAGGT
Found at i:7140631 original size:29 final size:31
Alignment explanation
Indices: 7140589--7140650 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 31
7140579 TAATAAAGGT
* *
7140589 AAAATTACACTTTAGCCCCTT-AAAATTATA
1 AAAATTACAATTTAACCCCTTAAAAATTATA
* *
7140619 AAAATT-CAATTTAATCCTTTAAAAATTATA
1 AAAATTACAATTTAACCCCTTAAAAATTATA
7140649 AA
1 AA
7140651 GATATAGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.48, C:0.15, G:0.02, T:0.35
Consensus pattern (31 bp):
AAAATTACAATTTAACCCCTTAAAAATTATA
Found at i:7144395 original size:51 final size:51
Alignment explanation
Indices: 7144326--7144493 Score: 230
Period size: 51 Copynumber: 3.3 Consensus size: 51
7144316 TGAGTACTTC
* * * *
7144326 TGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATTTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAG
*
7144377 TGATAAGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAG
* * * * *
7144427 TAACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAG
*
7144478 TGATAAGTGATAAATG
1 TGATAAGTGACAAATG
7144494 TGATCAGTGT
Statistics
Matches: 102, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
50 43 0.42
51 59 0.58
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.31
Consensus pattern (51 bp):
TGATAAGTGACAAATGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAG
Found at i:7145750 original size:30 final size:31
Alignment explanation
Indices: 7145716--7145778 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
7145706 ACTTATTTTC
*
7145716 TTGTTAA-TTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTTATTATTATTTTAAAGGCAT
*
7145746 TTGTTAATTTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTTATTATTATTTTAAAGGCAT
7145777 TT
1 TT
7145779 ACTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (31 bp):
TTGTTAATTTTTATTATTATTTTAAAGGCAT
Found at i:7149520 original size:42 final size:41
Alignment explanation
Indices: 7149452--7149538 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 41
7149442 CGTATTATAG
**
7149452 TAAATCATTATTGTAGGAAATAGTGAAAATTTATTAATTTTA
1 TAAATCATTATTGTA-GAAATAGTGAAAATCCATTAATTTTA
*
7149494 TAAATCATTATTGTA-AAATAGTGTGAACATCCATTAATTTTA
1 TAAATCATTATTGTAGAAATA--GTGAAAATCCATTAATTTTA
7149536 TAA
1 TAA
7149539 TTATGATGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
40 5 0.12
42 35 0.88
ACGTcount: A:0.43, C:0.06, G:0.10, T:0.41
Consensus pattern (41 bp):
TAAATCATTATTGTAGAAATAGTGAAAATCCATTAATTTTA
Found at i:7151163 original size:18 final size:17
Alignment explanation
Indices: 7151140--7151181 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
7151130 GATGAACAGT
7151140 AAAAAAATGCTAAAAACG
1 AAAAAAA-GCTAAAAACG
*
7151158 AAAAAAAGCTGAAAACG
1 AAAAAAAGCTAAAAACG
7151175 AAAAAAA
1 AAAAAAA
7151182 ATAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 16 0.70
18 7 0.30
ACGTcount: A:0.71, C:0.10, G:0.12, T:0.07
Consensus pattern (17 bp):
AAAAAAAGCTAAAAACG
Found at i:7151189 original size:17 final size:17
Alignment explanation
Indices: 7151140--7151188 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
7151130 GATGAACAGT
*
7151140 AAAAAAATGCTAAAAACG
1 AAAAAAA-GATAAAAACG
* *
7151158 AAAAAAAGCTGAAAACG
1 AAAAAAAGATAAAAACG
7151175 AAAAAAA-ATAAAAA
1 AAAAAAAGATAAAAA
7151189 AATATGTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 5 0.18
17 16 0.57
18 7 0.25
ACGTcount: A:0.73, C:0.08, G:0.10, T:0.08
Consensus pattern (17 bp):
AAAAAAAGATAAAAACG
Found at i:7151342 original size:3 final size:3
Alignment explanation
Indices: 7151327--7151386 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
7151317 TTCGGGAACA
* * * * *
7151327 AAG AAG GAG AAG AAG AAA AAG AA- AAG AAG GAG ATG AAG GA- AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7151373 -AG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG
7151387 GAGGAGGAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
2 5 0.11
3 39 0.89
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:7152001 original size:30 final size:30
Alignment explanation
Indices: 7151926--7151994 Score: 138
Period size: 30 Copynumber: 2.3 Consensus size: 30
7151916 ATACGAGAAG
7151926 AAATAAAATATGAAAAATTTATATTTTAAA
1 AAATAAAATATGAAAAATTTATATTTTAAA
7151956 AAATAAAATATGAAAAATTTATATTTTAAA
1 AAATAAAATATGAAAAATTTATATTTTAAA
7151986 AAATAAAAT
1 AAATAAAAT
7151995 CCGAAAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (30 bp):
AAATAAAATATGAAAAATTTATATTTTAAA
Found at i:7152138 original size:17 final size:17
Alignment explanation
Indices: 7152116--7152161 Score: 83
Period size: 17 Copynumber: 2.7 Consensus size: 17
7152106 AATAAAATAC
7152116 GAAAATAATATATTTTA
1 GAAAATAATATATTTTA
7152133 GAAAATAATATATTTTA
1 GAAAATAATATATTTTA
*
7152150 AAAAATAATATA
1 GAAAATAATATA
7152162 CGAAACTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
GAAAATAATATATTTTA
Found at i:7152296 original size:164 final size:166
Alignment explanation
Indices: 7151975--7152309 Score: 514
Period size: 163 Copynumber: 2.0 Consensus size: 166
7151965 ATGAAAAATT
* *
7151975 TATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGAACAAAGTGCCAAAGTCAGGGTTATT
1 TATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATT
* * * * * *
7152040 TATTAAATTAATATAAAAAAACTTAAATAATATATTTGAAACATTTTTTGCTAAAATAATATAAA
66 TATTAAATAAATATAAAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATATAAA
*
7152105 AAATAAAATACGAAAATAATATATTTTAGAAAATAA
131 AAATAAAATACGAAAATAATATATTTTAAAAAATAA
* * * *
7152141 TATATTTTAAAAAATAATATACGAAACT-AAAAAATACGAATAAAGTGCTAAAATCAGGGTTATT
1 TATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATT
7152205 TATTAAA-AAATAT-AAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATATAAA
66 TATTAAATAAATATAAAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATATAAA
7152268 GAAATAAAATACGAAAATAATATATTTTAAAAAATAA
131 -AAATAAAATACGAAAATAATATATTTTAAAAAATAA
*
7152305 GATAT
1 TATAT
7152310 GAAAATAAAA
Statistics
Matches: 154, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
163 45 0.29
164 44 0.29
165 40 0.26
166 25 0.16
ACGTcount: A:0.56, C:0.06, G:0.07, T:0.30
Consensus pattern (166 bp):
TATATTTTAAAAAATAAAATACGAAAATAAAAAAATACGAACAAAGTGCCAAAATCAGGGTTATT
TATTAAATAAATATAAAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATATAAA
AAATAAAATACGAAAATAATATATTTTAAAAAATAA
Found at i:7152421 original size:12 final size:13
Alignment explanation
Indices: 7152406--7152441 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
7152396 ATTCTTTGCT
7152406 AAAATAATATAA-
1 AAAATAATATAAG
*
7152418 AAAATAAAATAAG
1 AAAATAATATAAG
7152431 AAAATAATATA
1 AAAATAATATA
7152442 TTTTAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAATAATATAAG
Found at i:7152518 original size:151 final size:150
Alignment explanation
Indices: 7152132--7152656 Score: 817
Period size: 150 Copynumber: 3.5 Consensus size: 150
7152122 AATATATTTT
* * * *
7152132 AGAAAATAATATATTTTAAAAAATAATATACGAAACT-AAAAAATACGAATAAAGTGCTAAAATC
1 AGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
* * *
7152196 AGGGTTATTTATTAAA-AAATATAAAAAAC-TTAAATAATACATTTAAAACATTATGTACTAAAA
66 AGGGTTATTTATTAAATTAATAAAAAAAACATTAAATAATACATTTGAAACATTATGTACTAAAA
7152259 TAATATAAAGAAATAAAATA
131 TAATATAAAGAAATAAAATA
* *
7152279 CGAAAATAATATATTTTAAAAAATAAGATATGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
1 AGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
* * *
7152344 AGGGTTATTTATTAAATTAATAAAAAAAACATTTAAATAATACATTTGAAACATTCTTTGCTAAA
66 AGGGTTATTTATTAAATTAATAAAAAAAACA-TTAAATAATACATTTGAAACATTATGTACTAAA
7152409 ATAATATAAA-AAATAAAATA
130 ATAATATAAAGAAATAAAATA
* * * *
7152429 AGAAAATAATATATTTTAAAAAATAATATATGAAAAT-AAAAAATACGAATAAAGTGCTAAAATC
1 AGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
* *
7152493 AAGGTTATTTATTAAATTACTATAAAAAAACACTTAAATAATACATTTGAAACATTATGTACTAA
66 AGGGTTATTTATTAAATTAATA-AAAAAAACA-TTAAATAATACATTTGAAACATTATGTACTAA
7152558 AATAATATAAAGAAATAAAATA
129 AATAATATAAAGAAATAAAATA
*
7152580 CGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
1 AGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
7152645 AGGGTTATTTAT
66 AGGGTTATTTAT
7152657 GATAGTTTGA
Statistics
Matches: 343, Mismatches: 28, Indels: 9
0.90 0.07 0.02
Matches are distributed among these distances:
147 33 0.10
148 41 0.12
149 56 0.16
150 94 0.27
151 83 0.24
152 36 0.10
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.28
Consensus pattern (150 bp):
AGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAAGAAAGTGCCAAAATC
AGGGTTATTTATTAAATTAATAAAAAAAACATTAAATAATACATTTGAAACATTATGTACTAAAA
TAATATAAAGAAATAAAATA
Found at i:7152597 original size:301 final size:302
Alignment explanation
Indices: 7151952--7152656 Score: 1050
Period size: 301 Copynumber: 2.3 Consensus size: 302
7151942 ATTTATATTT
* * * *
7151952 TAAA-AAATAAAATATGAAAA-ATTTATATTTTAAAAAATAAAATCCGAAAATAAAAAAATACGA
1 TAAAGAAATAAAATACGAAAATA-ATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGA
* * *
7152015 ACAAAGTGCCAAAGTCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATATATTTGAA
65 AGAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATACATTTGAA
*
7152080 ACATTTTTTGCTAAAATAATATAAAAAATAAAATACGAAAATAATATATTTTAGAAAATAATATA
130 ACATTCTTTGCTAAAATAATAT---AAATAAAAT-----AATAATATA---TAGAAAATAATATA
* *
7152145 TTTTAAAAAATAATATACGAAACTAAAAAATACGAATAAAGTGCTAAAATCAGGGTTATTTATTA
184 TTTTAAAAAATAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTA
*
7152210 AAAAATATAAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATA
249 AAAAATAAAAAAAACTTAAATAATACATTTAAAACATTATGTACTAAAATAATA
*
7152264 TAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATATGAAAATAAAAAAATACGAA
1 TAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
7152329 GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATA-AAAAAAACATTTAAATAATACATTTGA
66 GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAAC--TTAAATAATACATTTGA
7152393 AACATTCTTTGCTAAAATAATAT-AA-AAAAT-A-AA-ATA-AGAAAATAATATATTTTAAAAAA
129 AACATTCTTTGCTAAAATAATATAAATAAAATAATAATATATAGAAAATAATATATTTTAAAAAA
* *
7152452 TAATATATGAAAATAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAATTACTATA
194 TAATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAA--A-AATA
*
7152517 AAAAAACACTTAAATAATACATTTGAAACATTATGTACTAAAATAATA
256 AAAAAA-ACTTAAATAATACATTTAAAACATTATGTACTAAAATAATA
7152565 TAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
1 TAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
7152630 GAAAGTGCCAAAATCAGGGTTATTTAT
66 GAAAGTGCCAAAATCAGGGTTATTTAT
7152657 GATAGTTTGA
Statistics
Matches: 369, Mismatches: 16, Indels: 27
0.90 0.04 0.07
Matches are distributed among these distances:
297 77 0.21
299 1 0.00
300 8 0.02
301 134 0.36
302 2 0.01
303 1 0.00
309 5 0.01
310 2 0.01
312 12 0.03
313 88 0.24
314 39 0.11
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (302 bp):
TAAAGAAATAAAATACGAAAATAATATATTTTAAAAAATAAGATACGAAAATAAAAAAATACGAA
GAAAGTGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAATAATACATTTGAAA
CATTCTTTGCTAAAATAATATAAATAAAATAATAATATATAGAAAATAATATATTTTAAAAAATA
ATATACGAAAATAAAAAATACGAATAAAGTGCTAAAATCAAGGTTATTTATTAAAAAATAAAAAA
AACTTAAATAATACATTTAAAACATTATGTACTAAAATAATA
Found at i:7154372 original size:26 final size:27
Alignment explanation
Indices: 7154324--7154384 Score: 106
Period size: 26 Copynumber: 2.3 Consensus size: 27
7154314 AATAACTAAC
*
7154324 AATAATTAGGGTTTTTTTACTAACAAT
1 AATAATAAGGGTTTTTTTACTAACAAT
7154351 AATAATAAGGG-TTTTTTACTAACAAT
1 AATAATAAGGGTTTTTTTACTAACAAT
7154377 AATAATAA
1 AATAATAA
7154385 CTAACAACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 23 0.70
27 10 0.30
ACGTcount: A:0.44, C:0.07, G:0.10, T:0.39
Consensus pattern (27 bp):
AATAATAAGGGTTTTTTTACTAACAAT
Found at i:7172047 original size:20 final size:20
Alignment explanation
Indices: 7172011--7172052 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
7172001 TTGCATCAGT
7172011 TGTGCTATATGTATGATGTAC
1 TGTGCTATATGTATGAT-TAC
7172032 TGTGCT-TATG-ACTGATTAC
1 TGTGCTATATGTA-TGATTAC
7172051 TG
1 TG
7172053 ATATGTACTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.30
20 8 0.40
21 6 0.30
ACGTcount: A:0.21, C:0.12, G:0.24, T:0.43
Consensus pattern (20 bp):
TGTGCTATATGTATGATTAC
Found at i:7172506 original size:26 final size:27
Alignment explanation
Indices: 7172477--7172528 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
7172467 CTAATTATTT
*
7172477 AAATTTTAGGA-ATTTTG-GTGTTTTGC
1 AAATTTT-GGACATTTTGACTGTTTTGC
7172503 AAATTTTGGACATTTTGACTGTTTTG
1 AAATTTTGGACATTTTGACTGTTTTG
7172529 GTTTGTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 3 0.13
26 13 0.57
27 7 0.30
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.50
Consensus pattern (27 bp):
AAATTTTGGACATTTTGACTGTTTTGC
Found at i:7175344 original size:2 final size:2
Alignment explanation
Indices: 7175337--7175362 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7175327 AATATAAATT
7175337 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7175363 AAATCTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7184613 original size:6 final size:6
Alignment explanation
Indices: 7184599--7184662 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
7184589 TATTAATTAT
* * * * * *
7184599 AGATGC AGATAC AGATTC AGATTC -GCCTAC AGATGC AGATGC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AG-ATAC AGATAC AGATAC AGATAC
7184647 AGATAC AGATAC AGAT
1 AGATAC AGATAC AGAT
7184663 TCAAATCCTA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
5 1 0.02
6 47 0.96
7 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (6 bp):
AGATAC
Found at i:7184647 original size:18 final size:18
Alignment explanation
Indices: 7184599--7184662 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
7184589 TATTAATTAT
*
7184599 AGATGCAGATACAGATTC
1 AGATGCAGATACAGATAC
* * *
7184617 AGATTC-GCCTACAGATGC
1 AGATGCAG-ATACAGATAC
7184635 AGATGCAGATACAGATAC
1 AGATGCAGATACAGATAC
*
7184653 AGATACAGAT
1 AGATGCAGAT
7184663 TCAAATCCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
17 1 0.03
18 35 0.95
19 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (18 bp):
AGATGCAGATACAGATAC
Found at i:7187407 original size:41 final size:41
Alignment explanation
Indices: 7187362--7187447 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 41
7187352 CATTATGATC
* * *
7187362 AATTGCCTATAGTTGTTGACTTTCAAGATTGATGGGGACTA
1 AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
*
7187403 AATTGTCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
1 AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
7187444 AATT
1 AATT
7187448 ATTCTAGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (41 bp):
AATTGCCTATAGTTGCTGACTTTCAAAATTGATAGGGACTA
Found at i:7191629 original size:34 final size:32
Alignment explanation
Indices: 7191563--7191656 Score: 134
Period size: 34 Copynumber: 2.9 Consensus size: 32
7191553 TTTTAAAAAA
* *
7191563 TAAATTAGGGTTTAGTGTTTTTTAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTTGAAAATTAAT
7191595 TAAATTAGGGTTTAGAGTTTTTAAGAAAATTAAT
1 TAAATTAGGGTTTAGAGTTTTT--GAAAATTAAT
* *
7191629 TAAATTAGGGTTTAGATTTTTTCAAAAT
1 TAAATTAGGGTTTAGAGTTTTTGAAAAT
7191657 AACTTTGTGT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.46
34 30 0.54
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (32 bp):
TAAATTAGGGTTTAGAGTTTTTGAAAATTAAT
Found at i:7195544 original size:18 final size:19
Alignment explanation
Indices: 7195503--7195544 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
7195493 GATTGGAAAA
* *
7195503 AGGAAACATATAAGGGTTT
1 AGGATACATATAAGGGTCT
7195522 A-GATACATATAAGGG-CT
1 AGGATACATATAAGGGTCT
7195539 AGGATA
1 AGGATA
7195545 TGCACTTGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.43, C:0.07, G:0.26, T:0.24
Consensus pattern (19 bp):
AGGATACATATAAGGGTCT
Found at i:7197342 original size:30 final size:30
Alignment explanation
Indices: 7197308--7197369 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
7197298 AATTAAAGAA
7197308 AGCTTTGAGAAATTTAAGGAGAAATTTGAG
1 AGCTTTGAGAAATTTAAGGAGAAATTTGAG
* *
7197338 AGCTTTGAGAAATTTAGGGAGAAATTTTAG
1 AGCTTTGAGAAATTTAAGGAGAAATTTGAG
7197368 AG
1 AG
7197370 TTTTTTGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.27, T:0.31
Consensus pattern (30 bp):
AGCTTTGAGAAATTTAAGGAGAAATTTGAG
Found at i:7208481 original size:29 final size:29
Alignment explanation
Indices: 7208444--7208515 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
7208434 TCTTTTTAGA
7208444 TTTAAAATTTAGTCTTTATAC-TTTTATT
1 TTTAAAATTTAGTCTTTATACATTTTATT
* *
7208472 TTTAAGAATTTAGTCTTTCTACATTTTAGAT
1 TTTAA-AATTTAGTCTTTATACATTTTA-TT
*
7208503 TTTAAATTTTAGT
1 TTTAAAATTTAGT
7208516 TTCATTATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 5 0.13
29 15 0.39
30 12 0.32
31 6 0.16
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (29 bp):
TTTAAAATTTAGTCTTTATACATTTTATT
Found at i:7211846 original size:14 final size:15
Alignment explanation
Indices: 7211829--7211857 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7211819 CATAAATGTT
7211829 GAAAAAT-AAAAGAG
1 GAAAAATGAAAAGAG
7211843 GAAAAATGAAAAGAG
1 GAAAAATGAAAAGAG
7211858 TGGGGACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAGAG
Found at i:7220527 original size:28 final size:28
Alignment explanation
Indices: 7220469--7220551 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
7220459 TAGGTCCAAC
* * *
7220469 TATATT-TTTATTTTTTAAAAAATATTTTA
1 TATATTATTT-TTATTT-AAAAATAATATA
7220498 TATATTATTTTTATTTAAAAATAATATA
1 TATATTATTTTTATTTAAAAATAATATA
* **
7220526 TATTTTACATTTA-TTAAAAA-AATATA
1 TATATTATTTTTATTTAAAAATAATATA
7220552 AACAATGAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.13
27 7 0.15
28 20 0.43
29 11 0.23
30 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (28 bp):
TATATTATTTTTATTTAAAAATAATATA
Found at i:7227542 original size:64 final size:64
Alignment explanation
Indices: 7227441--7227568 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
7227431 CATGTCAATA
7227441 TAAAGTACATGTAGATTGTCACGTGGGTTGTCACACTAACATTGTAAAAAAATTAATGTTTTAG
1 TAAAGTACATGTAGATTGTCACGTGGGTTGTCACACTAACATTGTAAAAAAATTAATGTTTTAG
7227505 TAAAGTACATGTAGATTGTCACGTGGGTTGTCACACTAACATTGTAAAAAAATTAATGTTTTAG
1 TAAAGTACATGTAGATTGTCACGTGGGTTGTCACACTAACATTGTAAAAAAATTAATGTTTTAG
7227569 ATAGCATTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (64 bp):
TAAAGTACATGTAGATTGTCACGTGGGTTGTCACACTAACATTGTAAAAAAATTAATGTTTTAG
Found at i:7234381 original size:36 final size:36
Alignment explanation
Indices: 7234334--7234407 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
7234324 CGTTGACTCT
7234334 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
1 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
7234370 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
1 TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
7234406 TT
1 TT
7234408 AGTAGCTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (36 bp):
TTTTACGCTTCAGGGATAAGGTTAGCCTACGATTAA
Found at i:7235832 original size:21 final size:21
Alignment explanation
Indices: 7235806--7235851 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7235796 AAGAAGATGG
*
7235806 AAGAGATGAATGATGAGT-TGC
1 AAGAGAAGAATGATGA-TCTGC
*
7235827 AAGAGAAGATTGATGATCTGC
1 AAGAGAAGAATGATGATCTGC
7235848 AAGA
1 AAGA
7235852 TCTGGAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (21 bp):
AAGAGAAGAATGATGATCTGC
Found at i:7239983 original size:14 final size:15
Alignment explanation
Indices: 7239953--7239984 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7239943 TTTTTAGTTT
7239953 AATTTTTCTTTTCTA
1 AATTTTTCTTTTCTA
7239968 AATTTTTCTTTT-TA
1 AATTTTTCTTTTCTA
7239982 AAT
1 AAT
7239985 GCTTCTGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (15 bp):
AATTTTTCTTTTCTA
Done.