Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold29
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: 5511024
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 57772 characters in sequence are not A, C, G, or T
File 30 of 34
Found at i:4720804 original size:29 final size:29
Alignment explanation
Indices: 4720762--4720877 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
4720752 GCCAAAAAAA
* * *
4720762 GGTGCCACTGACTTGTGGGCTTAGGAAAG
1 GGTGCCACTAACTTGTGGACTTATGAAAG
* *
4720791 GGTGCCACTAACTTGTAGACTTTTGAAAG
1 GGTGCCACTAACTTGTGGACTTATGAAAG
* *
4720820 GGTGCCACGAACTTATGGACTTATGAAAG
1 GGTGCCACTAACTTGTGGACTTATGAAAG
* * * *
4720849 TGTGCCACTGATTTGTGGGCTT-TGAAAG
1 GGTGCCACTAACTTGTGGACTTATGAAAG
4720877 G
1 G
4720878 ATTCAAGTTC
Statistics
Matches: 71, Mismatches: 16, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 6 0.08
29 65 0.92
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
GGTGCCACTAACTTGTGGACTTATGAAAG
Found at i:4721014 original size:28 final size:28
Alignment explanation
Indices: 4720959--4721031 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
4720949 CTAGTATGGA
*
4720959 CTTT-AAAGAGGTGCCACTGGCTCATAGG
1 CTTTAAAAG-GGTGCCACTGACTCATAGG
**
4720987 CTTTAAAAGGGTGCCACTGACTTGTAGG
1 CTTTAAAAGGGTGCCACTGACTCATAGG
* *
4721015 CTTCGAAAAGGTTGCCA
1 CTT-TAAAAGGGTGCCA
4721032 TAAACTTGTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (28 bp):
CTTTAAAAGGGTGCCACTGACTCATAGG
Found at i:4721117 original size:30 final size:31
Alignment explanation
Indices: 4721079--4721158 Score: 112
Period size: 29 Copynumber: 2.6 Consensus size: 31
4721069 TAACTTATGC
4721079 GGACTTTGAACGGGGTGCCACCAACTCGTGT
1 GGACTTTGAACGGGGTGCCACCAACTCGTGT
* *
4721110 GGA-TTTGAA-AGGTTGCCACCAACTCGTGT
1 GGACTTTGAACGGGGTGCCACCAACTCGTGT
4721139 GGACTTTG-ACTGGGGTGCCA
1 GGACTTTGAAC-GGGGTGCCA
4721159 GTTACTTGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 22 0.52
30 10 0.24
31 10 0.24
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (31 bp):
GGACTTTGAACGGGGTGCCACCAACTCGTGT
Found at i:4721230 original size:37 final size:37
Alignment explanation
Indices: 4721162--4721326 Score: 137
Period size: 37 Copynumber: 4.6 Consensus size: 37
4721152 GGTGCCAGTT
* * *
4721162 ACTTGTGTGAACTTTG-AAAAGGATT-G-TGCCACTG
1 ACTTGTGTGGACTTTGAAAAAAGTTTGGTTGCCACTG
* *
4721196 ATTTGTGTTGG-CTTT-AAACAAGGTTTGGTTGCCACTG
1 ACTTGTG-TGGACTTTGAAA-AAAGTTTGGTTGCCACTG
*
4721233 ACTTGTGTGGATTTTGAAAAAAGTTTGGTTGCCACTG
1 ACTTGTGTGGACTTTGAAAAAAGTTTGGTTGCCACTG
* * * * *
4721270 ACTTGCGTGGAATTT-AAAAATGATTTGGGTACCACTG
1 ACTTGTGTGGACTTTGAAAAAAG-TTTGGTTGCCACTG
* *
4721307 ACTTTTGTGAACTTT-AAAAA
1 ACTTGTGTGGACTTTGAAAAA
4721327 TGATTTAGTT
Statistics
Matches: 108, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
34 12 0.11
35 8 0.07
36 10 0.09
37 75 0.69
38 3 0.03
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (37 bp):
ACTTGTGTGGACTTTGAAAAAAGTTTGGTTGCCACTG
Found at i:4722454 original size:13 final size:13
Alignment explanation
Indices: 4722436--4722461 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4722426 ACATTTTGTG
4722436 ATGTATCGATACA
1 ATGTATCGATACA
4722449 ATGTATCGATACA
1 ATGTATCGATACA
4722462 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4722456 original size:33 final size:32
Alignment explanation
Indices: 4722414--4722481 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
4722404 TGTTACAAGC
*
4722414 CAATGTATCGATACATTTTGTGATGTATCGATA
1 CAATGTATCGATACATATTGTG-TGTATCGATA
4722447 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
4722479 CAA
1 CAA
4722482 ATTTAGCTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCGATA
Found at i:4731267 original size:13 final size:13
Alignment explanation
Indices: 4731249--4731274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4731239 ACATTTTGTG
4731249 ATGTATCGATACA
1 ATGTATCGATACA
4731262 ATGTATCGATACA
1 ATGTATCGATACA
4731275 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4731269 original size:33 final size:32
Alignment explanation
Indices: 4731227--4731294 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
4731217 CGTTACAAGC
*
4731227 CAATGTATCGATACATTTTGTGATGTATCGATA
1 CAATGTATCGATACATATTGTG-TGTATCGATA
4731260 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGTGTGTATCGATA
4731292 CAA
1 CAA
4731295 ATTTAGCTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 13 0.38
33 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATATTGTGTGTATCGATA
Found at i:4731353 original size:21 final size:21
Alignment explanation
Indices: 4731327--4731380 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
4731317 CAAATGACTT
**
4731327 GTATCGATACATTTTTTTCAA
1 GTATCGATACATTTTAGTCAA
*
4731348 GTATCGATACA-TTTAGTCAT
1 GTATCGATACATTTTAGTCAA
4731368 GTATCGATACATT
1 GTATCGATACATT
4731381 GTATCGATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (21 bp):
GTATCGATACATTTTAGTCAA
Found at i:4731385 original size:13 final size:13
Alignment explanation
Indices: 4731367--4731393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4731357 CATTTAGTCA
4731367 TGTATCGATACAT
1 TGTATCGATACAT
4731380 TGTATCGATACAT
1 TGTATCGATACAT
4731393 T
1 T
4731394 TAAATGTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4731404 original size:33 final size:33
Alignment explanation
Indices: 4731348--4731410 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
4731338 TTTTTTTCAA
*
4731348 GTATCGATACATTTAGTCATGTATCGATACATT
1 GTATCGATACATTTAATCATGTATCGATACATT
*
4731381 GTATCGATACATTTAAAT-GTGTATCGATAC
1 GTATCGATACATTT-AATCATGTATCGATAC
4731411 TTTTCAAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
33 25 0.93
34 2 0.07
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (33 bp):
GTATCGATACATTTAATCATGTATCGATACATT
Found at i:4733135 original size:17 final size:16
Alignment explanation
Indices: 4733110--4733178 Score: 52
Period size: 17 Copynumber: 4.2 Consensus size: 16
4733100 ATCATTGCTG
*
4733110 TTTTATTTTTGTTGTTC
1 TTTTTTTTTTGTT-TTC
*
4733127 TTTTTTTTTTATTTTTC
1 TTTTTTTTTT-GTTTTC
* **
4733144 CTTTGCTTTT-TTTTC
1 TTTTTTTTTTGTTTTC
4733159 TCTTTTTTTTTG-TTTC
1 T-TTTTTTTTTGTTTTC
4733175 TTTT
1 TTTT
4733179 GTGTTTCTCA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
15 8 0.20
16 12 0.29
17 19 0.46
18 2 0.05
ACGTcount: A:0.03, C:0.10, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTTTTTGTTTTC
Found at i:4733168 original size:27 final size:27
Alignment explanation
Indices: 4733145--4733205 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
4733135 TTATTTTTCC
4733145 TTTGCTTTT-T-TTTCTCTTTTTTTTT
1 TTTGCTTTTGTGTTTCTCTTTTTTTTT
*
4733170 GTTT-CTTTTGTGTTTCTCATTTTTTTT
1 -TTTGCTTTTGTGTTTCTCTTTTTTTTT
4733197 TTTGCTTTT
1 TTTGCTTTT
4733206 ACATTTAACT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 5 0.16
26 7 0.23
27 19 0.61
ACGTcount: A:0.02, C:0.11, G:0.08, T:0.79
Consensus pattern (27 bp):
TTTGCTTTTGTGTTTCTCTTTTTTTTT
Found at i:4737763 original size:10 final size:11
Alignment explanation
Indices: 4737744--4737773 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
4737734 TAGCAAGTGA
4737744 AAAGAAAAAGG
1 AAAGAAAAAGG
4737755 AAA-AAAAAGG
1 AAAGAAAAAGG
4737765 AAAGAAAAA
1 AAAGAAAAA
4737774 AGAGAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAGAAAAAGG
Found at i:4737926 original size:84 final size:83
Alignment explanation
Indices: 4737785--4737950 Score: 296
Period size: 84 Copynumber: 2.0 Consensus size: 83
4737775 GAGAAAAATA
*
4737785 GCAAAACTAGTTAGGGTTTATAATCCCCCTTTTCAATATTATTTCTTGTTGATTTCATCTTTTCT
1 GCAAAACTAGTTAGGATTTATAATCCCCCTTTTCAATATTATTTCTTGTTGATTTCATCTTTT-T
4737850 TTGCCTATTTTAACATGTG
65 TTGCCTATTTTAACATGTG
* *
4737869 GCAAAACTAGTTAGGATTTGTAATCCCCCTTTTCAATCTTATTTCTTGTTGATTTCATCTTTTTT
1 GCAAAACTAGTTAGGATTTATAATCCCCCTTTTCAATATTATTTCTTGTTGATTTCATCTTTTTT
4737934 TGCCTATTTTAACATGT
66 TGCCTATTTTAACATGT
4737951 ATATATGATA
Statistics
Matches: 79, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
83 19 0.24
84 60 0.76
ACGTcount: A:0.22, C:0.18, G:0.11, T:0.48
Consensus pattern (83 bp):
GCAAAACTAGTTAGGATTTATAATCCCCCTTTTCAATATTATTTCTTGTTGATTTCATCTTTTTT
TGCCTATTTTAACATGTG
Found at i:4742199 original size:58 final size:58
Alignment explanation
Indices: 4742100--4742216 Score: 166
Period size: 58 Copynumber: 2.0 Consensus size: 58
4742090 AAAGAATAAA
* *
4742100 GCTTCGAGCCCAATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATGTATTCATG
1 GCTTAGAGCCCAATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATG
* *
4742158 GCTTAGAGCCCAATTCACT-TGTCCAAGAAGTGTGGAA-CCCAATTTGCATATATTTATG
1 GCTTAGAGCCCAATTCA-TATGTCCAAGAAGAGT-GAAGCCCAATTTGCATATATTCATG
4742216 G
1 G
4742217 GCCTATTGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
58 49 0.92
59 4 0.08
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (58 bp):
GCTTAGAGCCCAATTCATATGTCCAAGAAGAGTGAAGCCCAATTTGCATATATTCATG
Found at i:4742889 original size:28 final size:28
Alignment explanation
Indices: 4742858--4742926 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
4742848 TTCTTTATTG
* *
4742858 ATTTCTTTTCCTTTGAAATTTCTTGTTT
1 ATTTCATTTCCTTTCAAATTTCTTGTTT
* *
4742886 ATTTCATTTCCTTTCATATTTCTTGTTG
1 ATTTCATTTCCTTTCAAATTTCTTGTTT
* *
4742914 ACTTCACTTCCTT
1 ATTTCATTTCCTT
4742927 GATCTTTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.14, C:0.20, G:0.06, T:0.59
Consensus pattern (28 bp):
ATTTCATTTCCTTTCAAATTTCTTGTTT
Found at i:4744395 original size:22 final size:21
Alignment explanation
Indices: 4744346--4744402 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
4744336 TACCAAGGAA
*
4744346 ATGTATCGATACA-TTACTAT
1 ATGTATCGATACATTTACAAT
4744366 ATGTATCGATACATGCTTACAAT
1 ATGTATCGATACAT--TTACAAT
4744389 -TGTATCGATACATT
1 ATGTATCGATACATT
4744403 CTGGATTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 14 0.42
22 13 0.39
23 6 0.18
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (21 bp):
ATGTATCGATACATTTACAAT
Found at i:4751670 original size:17 final size:17
Alignment explanation
Indices: 4751643--4751683 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
4751633 AGTCAAAAGC
*
4751643 AAAAGCACAAAAGAAAAAA
1 AAAAGCA-AAAA-CAAAAA
4751662 AAAAGCAAAAACAAAAA
1 AAAAGCAAAAACAAAAA
4751679 AAAAG
1 AAAAG
4751684 TGTAAAAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAGCAAAAACAAAAA
Found at i:4751670 original size:25 final size:22
Alignment explanation
Indices: 4751637--4751707 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 22
4751627 TAAAAAAGTC
4751637 AAAAGCAAAAGCACAAAAGAAAAAA
1 AAAAGCAAAA--ACAAAA-AAAAAA
*
4751662 AAAAGCAAAAACAAAAAAAAAGTGT
1 AAAAGCAAAAACAAAAAAAAA---A
4751687 AAAAGCAAAAACAAAAAAAAA
1 AAAAGCAAAAACAAAAAAAAA
4751708 GGGGGACAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
25 31 0.74
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAAGCAAAAACAAAAAAAAAA
Found at i:4751672 original size:18 final size:19
Alignment explanation
Indices: 4751643--4751682 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
4751633 AGTCAAAAGC
*
4751643 AAAAGCACAAAAGAAAAAA
1 AAAAGCACAAAACAAAAAA
4751662 AAAAGCA-AAAACAAAAAA
1 AAAAGCACAAAACAAAAAA
4751680 AAA
1 AAA
4751683 GTGTAAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.82, C:0.10, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAGCACAAAACAAAAAA
Found at i:4751722 original size:25 final size:25
Alignment explanation
Indices: 4751662--4751711 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4751652 AAAGAAAAAA
* *
4751662 AAAAGCAAAAACAAAAAAAAAGTGT
1 AAAAGCAAAAACAAAAAAAAAGGGG
4751687 AAAAGCAAAAACAAAAAAAAAGGGG
1 AAAAGCAAAAACAAAAAAAAAGGGG
4751712 GACAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.72, C:0.08, G:0.16, T:0.04
Consensus pattern (25 bp):
AAAAGCAAAAACAAAAAAAAAGGGG
Found at i:4752988 original size:31 final size:30
Alignment explanation
Indices: 4752950--4753120 Score: 143
Period size: 30 Copynumber: 5.5 Consensus size: 30
4752940 TGTGGTGTCC
*
4752950 CAAAGTCCATGACTTAGTGGCTTTCCTTCTT
1 CAAAGTCCACGACTTAGTGGC-TTCCTTCTT
* *
4752981 CAAAGTCCACGACTCAGTGGCATCTCTTC-T
1 CAAAGTCCACGACTTAGTGGCTTC-CTTCTT
**
4753011 CAAAGTCCACGACTCT-GTGGCACCCTTTTTCTTTT
1 CAAAGTCCACGACT-TAGTGGCTTCC---TTC--TT
* *
4753046 C-AAGTCCATGACTCAGTGGCATTCCTTCTT
1 CAAAGTCCACGACTTAGTGGC-TTCCTTCTT
* *
4753076 CAAAGTCCATGACTTAGTGGCATCTCTT-TT
1 CAAAGTCCACGACTTAGTGGCTTC-CTTCTT
4753106 CAAAGTCCACGACTT
1 CAAAGTCCACGACTT
4753121 TGTGACACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
29 1 0.01
30 45 0.39
31 44 0.38
32 6 0.05
34 16 0.14
35 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (30 bp):
CAAAGTCCACGACTTAGTGGCTTCCTTCTT
Found at i:4753059 original size:34 final size:34
Alignment explanation
Indices: 4753005--4753257 Score: 164
Period size: 34 Copynumber: 7.8 Consensus size: 34
4752995 CAGTGGCATC
* *
4753005 TCTTCTCAAAGTCCACGACTCTGTGGCACCCTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCA-CCTTTT
*
4753040 TCTTTTC-AAGTCCATGACTCAGTGGCA----TT
1 TCTTTTCAAAGTCCATGACTCTGTGGCACCTTTT
* *
4753069 CCTTCTTCAAAGTCCATGACT-TAGTGGCA----TC
1 TCTT-TTCAAAGTCCATGACTCT-GTGGCACCTTTT
* * *
4753100 TCTTTTCAAAGTCCACGACTTTGTGACACCCTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCA-CCTTTT
*
4753135 TCTTTTC-AAGTCCATGACT-TAGT-GTACC----
1 TCTTTTCAAAGTCCATGACTCT-GTGGCACCTTTT
* * **
4753163 TCTTCTCAAAATCCATGACTCCATGGCACCTTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCACC-TTTT
* * *
4753198 TCTTTT-TAAGTCCATAACTCTGTGGCACTTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCACCTTTT
* *
4753231 TCTTATCAAAGCCCATGACTCTGTGGC
1 TCTTTTCAAAGTCCATGACTCTGTGGC
4753258 TCTCTTCCCA
Statistics
Matches: 170, Mismatches: 29, Indels: 39
0.71 0.12 0.16
Matches are distributed among these distances:
28 6 0.04
29 17 0.10
30 27 0.16
31 23 0.14
32 2 0.01
33 11 0.06
34 65 0.38
35 19 0.11
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (34 bp):
TCTTTTCAAAGTCCATGACTCTGTGGCACCTTTT
Found at i:4753115 original size:95 final size:95
Alignment explanation
Indices: 4752952--4753158 Score: 351
Period size: 95 Copynumber: 2.2 Consensus size: 95
4752942 TGGTGTCCCA
*
4752952 AAGTCCATGACTTAGTGGCTTTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
1 AAGTCCATGACTTAGTGGCATTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
*
4753017 CCACGACTCTGTGGCACCCTTTTTCTTTTC
66 CCACGACTCTGTGACACCCTTTTTCTTTTC
* * * *
4753047 AAGTCCATGACTCAGTGGCATTCCTTCTTCAAAGTCCATGACTTAGTGGCATCTCTTTTCAAAGT
1 AAGTCCATGACTTAGTGGCATTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
*
4753112 CCACGACTTTGTGACACCCTTTTTCTTTTC
66 CCACGACTCTGTGACACCCTTTTTCTTTTC
4753142 AAGTCCATGACTTAGTG
1 AAGTCCATGACTTAGTG
4753159 TACCTCTTCT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 104 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (95 bp):
AAGTCCATGACTTAGTGGCATTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
CCACGACTCTGTGACACCCTTTTTCTTTTC
Found at i:4753120 original size:30 final size:30
Alignment explanation
Indices: 4752950--4753120 Score: 152
Period size: 31 Copynumber: 5.5 Consensus size: 30
4752940 TGTGGTGTCC
* *
4752950 CAAAGTCCATGACTTAGTGGC-TTTCCTTCTT
1 CAAAGTCCACGACTTAGTGGCATCT-CTT-TT
* *
4752981 CAAAGTCCACGACTCAGTGGCATCTCTTCT
1 CAAAGTCCACGACTTAGTGGCATCTCTTTT
*
4753011 CAAAGTCCACGACTCT-GTGGCACCCTTTTTCTTTT
1 CAAAGTCCACGACT-TAGTGGCA-----TCTCTTTT
* *
4753046 C-AAGTCCATGACTCAGTGGCAT-TCCTTCTT
1 CAAAGTCCACGACTTAGTGGCATCT-CTT-TT
*
4753076 CAAAGTCCATGACTTAGTGGCATCTCTTTT
1 CAAAGTCCACGACTTAGTGGCATCTCTTTT
4753106 CAAAGTCCACGACTT
1 CAAAGTCCACGACTT
4753121 TGTGACACCC
Statistics
Matches: 117, Mismatches: 11, Indels: 25
0.76 0.07 0.16
Matches are distributed among these distances:
28 1 0.01
29 4 0.03
30 40 0.34
31 45 0.38
32 3 0.03
34 17 0.15
35 7 0.06
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (30 bp):
CAAAGTCCACGACTTAGTGGCATCTCTTTT
Found at i:4753198 original size:63 final size:64
Alignment explanation
Indices: 4753078--4753225 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 64
4753068 TCCTTCTTCA
* * * ***
4753078 AAGTCCATGACTTAGTGGCATCTCTTTTCAAAGTCCACGACTTTGTGACACCCTTTTTCTTTTC
1 AAGTCCATGACTTAGTGGCACCTCTTCTCAAAATCCACGACTCCATGACACCCTTTTTCTTTTC
* * * * *
4753142 AAGTCCATGACTTAGT-GTACCTCTTCTCAAAATCCATGACTCCATGGCACCTTTTTTCTTTTT
1 AAGTCCATGACTTAGTGGCACCTCTTCTCAAAATCCACGACTCCATGACACCCTTTTTCTTTTC
*
4753205 AAGTCCATAACTCT-GTGGCAC
1 AAGTCCATGACT-TAGTGGCAC
4753226 TTTTTTCTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
63 49 0.71
64 20 0.29
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (64 bp):
AAGTCCATGACTTAGTGGCACCTCTTCTCAAAATCCACGACTCCATGACACCCTTTTTCTTTTC
Found at i:4753285 original size:29 final size:30
Alignment explanation
Indices: 4753253--4753319 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4753243 CCATGACTCT
4753253 GTGGC-TCTCTTC-CCAAAGTCCACAAATTA
1 GTGGCATCTCTTCTCC-AAGTCCACAAATTA
* * *
4753282 GTGGCATCTTTTCTCCAAGTCTACAACTTA
1 GTGGCATCTCTTCTCCAAGTCCACAAATTA
4753312 GTGGCATC
1 GTGGCATC
4753320 CTTTTTCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 26 0.79
31 2 0.06
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (30 bp):
GTGGCATCTCTTCTCCAAGTCCACAAATTA
Found at i:4753302 original size:30 final size:34
Alignment explanation
Indices: 4753260--4753342 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 34
4753250 TCTGTGGCTC
4753260 TCTTCCCAAAGTCCACAAATTAGTGGCAT-C-TTT
1 TCTT-CCAAAGTCCACAAATTAGTGGCATCCTTTT
* *
4753293 TC-TCC-AAGTCTACAACTTAGTGGCATCCTTTT
1 TCTTCCAAAGTCCACAAATTAGTGGCATCCTTTT
4753325 TCTTCCAAAAGTCCACAA
1 TCTTCC-AAAGTCCACAA
4753343 CTCCGTGGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 19 0.45
31 3 0.07
32 6 0.14
33 5 0.12
35 9 0.21
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (34 bp):
TCTTCCAAAGTCCACAAATTAGTGGCATCCTTTT
Found at i:4753343 original size:35 final size:34
Alignment explanation
Indices: 4753260--4753359 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 34
4753250 TCTGTGGCTC
*
4753260 TCTTCCCAAAGTCCACAAATTAGTGGCAT-C-TTT
1 TCTT-CCAAAGTCCACAACTTAGTGGCATCCTTTT
*
4753293 TC-TCC-AAGTCTACAACTTAGTGGCATCCTTTT
1 TCTTCCAAAGTCCACAACTTAGTGGCATCCTTTT
** *
4753325 TCTTCCAAAAGTCCACAACTCCGTGGCACCCTTTT
1 TCTTCC-AAAGTCCACAACTTAGTGGCATCCTTTT
4753360 AAGTCCACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
30 19 0.34
31 3 0.05
32 6 0.11
33 5 0.09
35 23 0.41
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (34 bp):
TCTTCCAAAGTCCACAACTTAGTGGCATCCTTTT
Found at i:4753351 original size:65 final size:60
Alignment explanation
Indices: 4753260--4753388 Score: 141
Period size: 65 Copynumber: 2.1 Consensus size: 60
4753250 TCTGTGGCTC
* * * * *
4753260 TCTTCCCAAAGTCCACAAATTAGTGGCATCTTTTCTCCAAGTCTACAACTTAGTGGCATCCTTTT
1 TCTTCCAAAAGTCCACAAATCAGTGGCACCCTTT-T--AAGTCCACAAC-TAGTGGCA-CCTTTT
* * *
4753325 TCTTCCAAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCGTGGCACCTTTT
1 TCTTCCAAAAGTCCACAAATCAGTGGCACCCTTTTAAGTCCACAACTAGTGGCACCTTTT
4753385 TCTT
1 TCTT
4753389 TTCAAAGCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 10 0.18
61 7 0.12
62 10 0.18
64 1 0.02
65 28 0.50
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.33
Consensus pattern (60 bp):
TCTTCCAAAAGTCCACAAATCAGTGGCACCCTTTTAAGTCCACAACTAGTGGCACCTTTT
Found at i:4753385 original size:26 final size:27
Alignment explanation
Indices: 4753333--4753385 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
4753323 TTTCTTCCAA
4753333 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
4753360 AAGTCCACAACT-CGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
4753386 CTTTTCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:4753580 original size:68 final size:65
Alignment explanation
Indices: 4753354--4753728 Score: 249
Period size: 68 Copynumber: 5.7 Consensus size: 65
4753344 TCCGTGGCAC
* * ** * *
4753354 CCTTTTAAGTCCACAACT-CGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTTGTGGCTTCCCT
1 CCTTTTAAGTCCACAACTCCATGGCA-CTTTTTCTTTT-AAAGCCTACAACTTCATGACAT-CCT
4753418 TTT
63 TTT
* * * * *
4753421 CCTTTTAAGTCCATAACGCCATGGCACTTTTTCCTTTTTAAGTCC-ATAACTCCATGACA-CCTT
1 CCTTTTAAGTCCACAACTCCATGGCACTTTTT-CTTTTAAAG-CCTACAACTTCATGACATCCTT
4753484 TT
64 TT
* * * *
4753486 TCTCTTAAAGTCCACAATTCTATGGCACATTTTTCTTTTCAAAGCCTACAACTTCATGACATCCT
1 CCT-TTTAAGTCCACAACTCCATGGCAC-TTTTTCTTTT-AAAGCCTACAACTTCATGACATCCT
4753551 TTT
63 TTT
* ** *
4753554 CCCTTTTAAGTCCACAACTCCGTGGCACTTTTTTCTATTTAAAGCCTACAACTTTGTGGCA--C-
1 -CCTTTTAAGTCCACAACTCCATGGCAC-TTTTTCT-TTTAAAGCCTACAACTTCATGACATCCT
4753616 ---
63 TTT
* * * * *
4753616 CCTTTTAAGTCCATAACTTCATGGCATATTTTTCCCTTT-AAGTCC-ACAAC-TCTATGGCA-CC
1 CCTTTTAAGTCCACAACTCCATGGCA-CTTTTT-CTTTTAAAG-CCTACAACTTC-ATGACATCC
4753677 --TT
62 TTTT
* *
4753679 CCTTTTAAAGTCCACAACTCCGTGGCACTTTGTCCTTTTAAAAGCCTACA
1 CCTTTT-AAGTCCACAACTCCATGGCACTTT-TTCTTTT-AAAGCCTACA
4753729 CAAGTTAGTG
Statistics
Matches: 245, Mismatches: 41, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
59 1 0.00
60 13 0.05
61 34 0.14
62 1 0.00
63 13 0.05
64 20 0.08
65 14 0.06
66 27 0.11
67 53 0.22
68 64 0.26
69 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.37
Consensus pattern (65 bp):
CCTTTTAAGTCCACAACTCCATGGCACTTTTTCTTTTAAAGCCTACAACTTCATGACATCCTTTT
Found at i:4753720 original size:33 final size:31
Alignment explanation
Indices: 4753333--4753719 Score: 186
Period size: 33 Copynumber: 12.1 Consensus size: 31
4753323 TTTCTTCCAA
*
4753333 AAGTCCACAACTCCGTGGCAC----CCTTTT
1 AAGTCCACAACTCCATGGCACTTTTCCTTTT
* *
4753360 AAGTCCACAACT-CGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCATGGCA-CTTTTCCTTTT
* *** *
4753391 CAAAGCCCACAACTTTGTGGCTTCCCTTTTCCTTTT
1 --AAGTCCACAACTCCATGG---CACTTTTCCTTTT
* *
4753427 AAGTCCATAACGCCATGGCACTTTTTCCTTTTT
1 AAGTCCACAACTCCATGGCAC-TTTTCC-TTTT
* * * *
4753460 AAGTCCATAACTCCATGACACCTTTTTCTCTTA
1 AAGTCCACAACTCCATGGCA-CTTTTCCT-TTT
* * *
4753493 AAGTCCACAATTCTATGGCACATTTTTCTTTT
1 AAGTCCACAACTCCATGGCAC-TTTTCCTTTT
* *
4753525 CAAAG-CCTACAACTTCATGACATCCTTTTCCCTTTT
1 --AAGTCC-ACAACTCCATGGCA--CTTTT-CCTTTT
* *
4753561 AAGTCCACAACTCCGTGGCACTTTTTTCTATTT
1 AAGTCCACAACTCCATGGCAC-TTTTCCT-TTT
***
4753594 AAAG-CCTACAACTTTGTGGCAC----CCTTTT
1 -AAGTCC-ACAACTCCATGGCACTTTTCCTTTT
* * * *
4753622 AAGTCCATAACTTCATGGCATATTTTTCCCTTT
1 AAGTCCACAACTCCATGGC--ACTTTTCCTTTT
* *
4753655 AAGTCCACAACTCTATGGCAC-CTTCCTTTT
1 AAGTCCACAACTCCATGGCACTTTTCCTTTT
*
4753685 AAAGTCCACAACTCCGTGGCACTTTGTCCTTTT
1 -AAGTCCACAACTCCATGGCACTTT-TCCTTTT
4753718 AA
1 AA
4753720 AAGCCTACAC
Statistics
Matches: 276, Mismatches: 47, Indels: 69
0.70 0.12 0.18
Matches are distributed among these distances:
26 7 0.03
27 26 0.09
28 5 0.02
29 3 0.01
30 7 0.03
31 27 0.10
32 16 0.06
33 102 0.37
34 60 0.22
35 6 0.02
36 16 0.06
37 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (31 bp):
AAGTCCACAACTCCATGGCACTTTTCCTTTT
Found at i:4753778 original size:29 final size:30
Alignment explanation
Indices: 4753719--4753778 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
4753709 TGTCCTTTTA
* * *
4753719 AAAGCCTACACAAGTTAGTGGCACCCCCTCT
1 AAAGCCCACACAAGCTAGTGGCA-CACCTCT
4753750 AAAGCCCACACAAGCTAGTGGCA-ACCTCT
1 AAAGCCCACACAAGCTAGTGGCACACCTCT
4753779 TCTAAAGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.17
Consensus pattern (30 bp):
AAAGCCCACACAAGCTAGTGGCACACCTCT
Found at i:4753788 original size:32 final size:31
Alignment explanation
Indices: 4753719--4753963 Score: 151
Period size: 32 Copynumber: 7.6 Consensus size: 31
4753709 TGTCCTTTTA
* * *
4753719 AAAGCCTACACAAGTTAGTGGC-ACCCCCTCT
1 AAAGCCCACACAAG-TGGTGGCAACCCCTTCT
* *
4753750 AAAGCCCACACAAGCTAGTGGCAACCTCTTCT
1 AAAGCCCACACAAG-TGGTGGCAACCCCTTCT
**
4753782 AAAGCCCATGCAAGTCGGTGGCAACCCCCTT-T
1 AAAGCCCACACAAGT-GGTGGCAA-CCCCTTCT
** * *
4753814 AAAAGCTTACACAAGTCGGTGTC-A-CCTTTACT
1 -AAAGCCCACACAAGT-GGTGGCAACCCCTT-CT
* * *
4753846 AAAGCCTACACAAGCTGGTGGCAACCTCTTAT
1 AAAGCCCACACAAG-TGGTGGCAACCCCTTCT
* *
4753878 AAAGCCTACACAAGTCAGTGGCAACCCCCTT-T
1 AAAGCCCACACAAGT-GGTGGCAA-CCCCTTCT
* *
4753910 AAAAGCCCACACAAGTTGGTTGCAA-CCCTCTCA
1 -AAAGCCCACACAAG-TGGTGGCAACCCCT-TCT
*
4753943 AAAACCCACACAAGTTGGTGG
1 AAAGCCCACACAAG-TGGTGG
4753964 GATCTCCTTC
Statistics
Matches: 172, Mismatches: 27, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
30 4 0.02
31 44 0.26
32 74 0.43
33 49 0.28
34 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (31 bp):
AAAGCCCACACAAGTGGTGGCAACCCCTTCT
Found at i:4753815 original size:96 final size:96
Alignment explanation
Indices: 4753715--4753956 Score: 306
Period size: 96 Copynumber: 2.5 Consensus size: 96
4753705 ACTTTGTCCT
* *
4753715 TTTAAAAGCCTACACAAGTTAGTGGCACCCCCTCTAAAGCCCACACAAGCTAGTGGCAACCTCTT
1 TTTAAAAGCCTACACAAGTTGGTGGCACCCTCTCTAAAGCCCACACAAGCTAGTGGCAACCTCTT
* ** *
4753780 CTAAAGCCCATGCAAGTCGGTGGCAACCCCC
66 ATAAAGCCCACACAAGTCAGTGGCAACCCCC
* * * * * *
4753811 TTTAAAAGCTTACACAAGTCGGTGTCA-CCTTTACTAAAGCCTACACAAGCTGGTGGCAACCTCT
1 TTTAAAAGCCTACACAAGTTGGTGGCACCCTCT-CTAAAGCCCACACAAGCTAGTGGCAACCTCT
*
4753875 TATAAAGCCTACACAAGTCAGTGGCAACCCCC
65 TATAAAGCCCACACAAGTCAGTGGCAACCCCC
* * * *
4753907 TTTAAAAGCCCACACAAGTTGGTTGCAACCCTCTCAAAAACCCACACAAG
1 TTTAAAAGCCTACACAAGTTGGTGGC-ACCCTCTCTAAAGCCCACACAAG
4753957 TTGGTGGGAT
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
95 3 0.02
96 100 0.83
97 14 0.12
98 4 0.03
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (96 bp):
TTTAAAAGCCTACACAAGTTGGTGGCACCCTCTCTAAAGCCCACACAAGCTAGTGGCAACCTCTT
ATAAAGCCCACACAAGTCAGTGGCAACCCCC
Found at i:4753829 original size:33 final size:34
Alignment explanation
Indices: 4753715--4753937 Score: 154
Period size: 33 Copynumber: 6.9 Consensus size: 34
4753705 ACTTTGTCCT
**
4753715 TTTA-AAAGCCTACACAAGTTAGTGGC-ACCCCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
* * * *
4753747 --TCTAAAGCCCACACAAG-CTAGTGGCAA-CCTC
1 TTTATAAAGCCTACACAAGTC-GGTGGCAACCCCC
* * **
4753778 -TTCTAAAGCCCATGCAAGTCGGTGGCAACCCCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
* *
4753811 TTTA-AAAGCTTACACAAGTCGGTGTC-A---CC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
*
4753840 TTTACTAAAGCCTACACAAG-CTGGTGGCAA-CCTC
1 TTTA-TAAAGCCTACACAAGTC-GGTGGCAACCCCC
*
4753874 -TTATAAAGCCTACACAAGTCAGTGGCAACCCCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
* * *
4753907 TTTA-AAAGCCCACACAAGTTGGTTGCAACCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCC
4753938 TCTCAAAAAC
Statistics
Matches: 152, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
29 6 0.04
30 2 0.01
31 40 0.26
32 47 0.31
33 51 0.34
34 6 0.04
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (34 bp):
TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
Found at i:4754139 original size:86 final size:86
Alignment explanation
Indices: 4753981--4754244 Score: 285
Period size: 86 Copynumber: 3.0 Consensus size: 86
4753971 TTCTAAGCCT
* * * *
4753981 AATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTCTTAAGTCCAATATCACTGGCCTTGAATC
1 AATGTTGTTGGCCTTGAATCAGCATATTGGCACTTTCTTAAGTCCAATATCACTGGCCTTGAATC
* * **
4754046 AGCATATTGGTGCTTTTGTTT
66 AACATATTGGTGCCTTTGTCC
* * * * * *
4754067 GATGTTGTTAGCCTTGAATCATCATATTGGCACTTTCTTAAGTCTAATATTACTGTCCTTGAATC
1 AATGTTGTTGGCCTTGAATCAGCATATTGGCACTTTCTTAAGTCCAATATCACTGGCCTTGAATC
*
4754132 AATATATTGGTGCCTTTGTCC
66 AACATATTGGTGCCTTTGTCC
* *
4754153 AATGTTGTTGGCCTTGAATCAGCATATTGGTACCTTTCTCTTTCTTAAGTCCAATATCGCTGGCC
1 AATGTTGTTGGCCTTGAATCAGCATATTGG-------CACTTTCTTAAGTCCAATATCACTGGCC
* * *
4754218 TGGAATCAGCATATTGGCGCCTTTGTC
59 TTGAATCAACATATTGGTGCCTTTGTC
4754245 ATCTTTATGT
Statistics
Matches: 144, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
86 98 0.68
93 46 0.32
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (86 bp):
AATGTTGTTGGCCTTGAATCAGCATATTGGCACTTTCTTAAGTCCAATATCACTGGCCTTGAATC
AACATATTGGTGCCTTTGTCC
Found at i:4754180 original size:41 final size:41
Alignment explanation
Indices: 4754034--4754189 Score: 132
Period size: 41 Copynumber: 3.7 Consensus size: 41
4754024 CCAATATCAC
* * *
4754034 TGGCCTTGAATCAGCATATTGGTGCTTTTGTTTGATGTTGT
1 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCTAATGTTGT
* * ** * * **
4754075 TAGCCTTGAATCATCATATTGGCACTTTCTTAAGTCTAATATTAC
1 TGGCCTTGAATCAGCATATTGG---TGCCTT-TGTCTAATGTTGT
* ** *
4754120 TGTCCTTGAATCAATATATTGGTGCCTTTGTCCAATGTTGT
1 TGGCCTTGAATCAGCATATTGGTGCCTTTGTCTAATGTTGT
*
4754161 TGGCCTTGAATCAGCATATTGGTACCTTT
1 TGGCCTTGAATCAGCATATTGGTGCCTTT
4754190 CTCTTTCTTA
Statistics
Matches: 85, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
41 53 0.62
42 4 0.05
44 3 0.04
45 25 0.29
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (41 bp):
TGGCCTTGAATCAGCATATTGGTGCCTTTGTCTAATGTTGT
Found at i:4754227 original size:52 final size:52
Alignment explanation
Indices: 4754161--4754350 Score: 222
Period size: 52 Copynumber: 3.7 Consensus size: 52
4754151 CCAATGTTGT
* * *
4754161 TGGCCTTGAATCAGCATATTGGTACCTTTCTCTTTC-TTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTGTC-ATCATTAAGTCCAATATCGC
* * * * * *
4754213 TGGCCTGGAATCAGCATATTGGCGCCTTTGTCATCTTTATGTCCAATGTCGG
1 TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCATTAAGTCCAATATCGC
* *
4754265 TGGCCTTGAATTAGCACATTGGCACCTTTGTCATCATTAAG-CCAAATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCATTAAGTCC-AATATCGC
* * *
4754317 TAGCCTTGAATCAGCATATTAGCACCTTTATCAT
1 TGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
4754351 TATTCGCATC
Statistics
Matches: 115, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
51 4 0.03
52 111 0.97
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATTGGCACCTTTGTCATCATTAAGTCCAATATCGC
Found at i:4754328 original size:104 final size:104
Alignment explanation
Indices: 4754148--4754350 Score: 266
Period size: 104 Copynumber: 2.0 Consensus size: 104
4754138 TTGGTGCCTT
* * * * *
4754148 TGTCCAATGTTGTTGGCCTTGAATCAGCATATTGGTACCTTTCTCTTTCTTAAGTCCAATATCGC
1 TGTCCAATGTCGGTGGCCTTGAATCAGCACATTGGCACCTTTCTCTATCTTAAGTCCAATATCGC
* * * *
4754213 TGGCCTGGAATCAGCATATTGGCGCCTTTGTCATCTTTA
66 TAGCCTGGAATCAGCATATTAGCACCTTTATCATCTTTA
* *
4754252 TGTCCAATGTCGGTGGCCTTGAATTAGCACATTGGCACCTTTGTC-ATCATTAAG-CCAAATATC
1 TGTCCAATGTCGGTGGCCTTGAATCAGCACATTGGCACCTTTCTCTATC-TTAAGTCC-AATATC
*
4754315 GCTAGCCTTGAATCAGCATATTAGCACCTTTATCAT
64 GCTAGCCTGGAATCAGCATATTAGCACCTTTATCAT
4754351 TATTCGCATC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
103 4 0.05
104 81 0.95
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (104 bp):
TGTCCAATGTCGGTGGCCTTGAATCAGCACATTGGCACCTTTCTCTATCTTAAGTCCAATATCGC
TAGCCTGGAATCAGCATATTAGCACCTTTATCATCTTTA
Found at i:4759806 original size:17 final size:17
Alignment explanation
Indices: 4759779--4759819 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
4759769 AGTCAAAAGC
*
4759779 AAAAGCACAAAAGAAAAAA
1 AAAAGCA-AAAA-CAAAAA
4759798 AAAAGCAAAAACAAAAA
1 AAAAGCAAAAACAAAAA
4759815 AAAAG
1 AAAAG
4759820 TGTAAAAGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.80, C:0.10, G:0.10, T:0.00
Consensus pattern (17 bp):
AAAAGCAAAAACAAAAA
Found at i:4759806 original size:25 final size:22
Alignment explanation
Indices: 4759773--4759843 Score: 79
Period size: 25 Copynumber: 3.0 Consensus size: 22
4759763 TAAAAAAGTC
4759773 AAAAGCAAAAGCACAAAAGAAAAAA
1 AAAAGCAAAA--ACAAAA-AAAAAA
*
4759798 AAAAGCAAAAACAAAAAAAAAGTGT
1 AAAAGCAAAAACAAAAAAAAA---A
4759823 AAAAGCAAAAACAAAAAAAAA
1 AAAAGCAAAAACAAAAAAAAA
4759844 GGGGGACAAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
25 31 0.74
ACGTcount: A:0.77, C:0.10, G:0.10, T:0.03
Consensus pattern (22 bp):
AAAAGCAAAAACAAAAAAAAAA
Found at i:4759808 original size:18 final size:19
Alignment explanation
Indices: 4759779--4759818 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
4759769 AGTCAAAAGC
*
4759779 AAAAGCACAAAAGAAAAAA
1 AAAAGCACAAAACAAAAAA
4759798 AAAAGCA-AAAACAAAAAA
1 AAAAGCACAAAACAAAAAA
4759816 AAA
1 AAA
4759819 GTGTAAAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.82, C:0.10, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAGCACAAAACAAAAAA
Found at i:4759858 original size:25 final size:25
Alignment explanation
Indices: 4759798--4759847 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4759788 AAAGAAAAAA
* *
4759798 AAAAGCAAAAACAAAAAAAAAGTGT
1 AAAAGCAAAAACAAAAAAAAAGGGG
4759823 AAAAGCAAAAACAAAAAAAAAGGGG
1 AAAAGCAAAAACAAAAAAAAAGGGG
4759848 GACAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.72, C:0.08, G:0.16, T:0.04
Consensus pattern (25 bp):
AAAAGCAAAAACAAAAAAAAAGGGG
Found at i:4761124 original size:31 final size:30
Alignment explanation
Indices: 4761086--4761256 Score: 143
Period size: 30 Copynumber: 5.5 Consensus size: 30
4761076 TGTGGTGTCC
*
4761086 CAAAGTCCATGACTTAGTGGCTTTCCTTCTT
1 CAAAGTCCACGACTTAGTGGC-TTCCTTCTT
* *
4761117 CAAAGTCCACGACTCAGTGGCATCTCTTC-T
1 CAAAGTCCACGACTTAGTGGCTTC-CTTCTT
**
4761147 CAAAGTCCACGACTCT-GTGGCACCCTTTTTCTTTT
1 CAAAGTCCACGACT-TAGTGGCTTCC---TTC--TT
* *
4761182 C-AAGTCCATGACTCAGTGGCATTCCTTCTT
1 CAAAGTCCACGACTTAGTGGC-TTCCTTCTT
* *
4761212 CAAAGTCCATGACTTAGTGGCATCTCTT-TT
1 CAAAGTCCACGACTTAGTGGCTTC-CTTCTT
4761242 CAAAGTCCACGACTT
1 CAAAGTCCACGACTT
4761257 TGTGACACCC
Statistics
Matches: 116, Mismatches: 12, Indels: 25
0.76 0.08 0.16
Matches are distributed among these distances:
29 1 0.01
30 45 0.39
31 44 0.38
32 6 0.05
34 16 0.14
35 4 0.03
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (30 bp):
CAAAGTCCACGACTTAGTGGCTTCCTTCTT
Found at i:4761195 original size:34 final size:34
Alignment explanation
Indices: 4761141--4761393 Score: 164
Period size: 34 Copynumber: 7.8 Consensus size: 34
4761131 CAGTGGCATC
* *
4761141 TCTTCTCAAAGTCCACGACTCTGTGGCACCCTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCA-CCTTTT
*
4761176 TCTTTTC-AAGTCCATGACTCAGTGGCA----TT
1 TCTTTTCAAAGTCCATGACTCTGTGGCACCTTTT
* *
4761205 CCTTCTTCAAAGTCCATGACT-TAGTGGCA----TC
1 TCTT-TTCAAAGTCCATGACTCT-GTGGCACCTTTT
* * *
4761236 TCTTTTCAAAGTCCACGACTTTGTGACACCCTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCA-CCTTTT
*
4761271 TCTTTTC-AAGTCCATGACT-TAGT-GTACC----
1 TCTTTTCAAAGTCCATGACTCT-GTGGCACCTTTT
* * **
4761299 TCTTCTCAAAATCCATGACTCCATGGCACCTTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCACC-TTTT
* * *
4761334 TCTTTT-TAAGTCCATAACTCTGTGGCACTTTTT
1 TCTTTTCAAAGTCCATGACTCTGTGGCACCTTTT
* *
4761367 TCTTATCAAAGCCCATGACTCTGTGGC
1 TCTTTTCAAAGTCCATGACTCTGTGGC
4761394 TCTCTTCCCA
Statistics
Matches: 170, Mismatches: 29, Indels: 39
0.71 0.12 0.16
Matches are distributed among these distances:
28 6 0.04
29 17 0.10
30 27 0.16
31 23 0.14
32 2 0.01
33 11 0.06
34 65 0.38
35 19 0.11
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (34 bp):
TCTTTTCAAAGTCCATGACTCTGTGGCACCTTTT
Found at i:4761251 original size:95 final size:95
Alignment explanation
Indices: 4761088--4761294 Score: 351
Period size: 95 Copynumber: 2.2 Consensus size: 95
4761078 TGGTGTCCCA
*
4761088 AAGTCCATGACTTAGTGGCTTTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
1 AAGTCCATGACTTAGTGGCATTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
*
4761153 CCACGACTCTGTGGCACCCTTTTTCTTTTC
66 CCACGACTCTGTGACACCCTTTTTCTTTTC
* * * *
4761183 AAGTCCATGACTCAGTGGCATTCCTTCTTCAAAGTCCATGACTTAGTGGCATCTCTTTTCAAAGT
1 AAGTCCATGACTTAGTGGCATTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
*
4761248 CCACGACTTTGTGACACCCTTTTTCTTTTC
66 CCACGACTCTGTGACACCCTTTTTCTTTTC
4761278 AAGTCCATGACTTAGTG
1 AAGTCCATGACTTAGTG
4761295 TACCTCTTCT
Statistics
Matches: 104, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
95 104 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (95 bp):
AAGTCCATGACTTAGTGGCATTCCTTCTTCAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGT
CCACGACTCTGTGACACCCTTTTTCTTTTC
Found at i:4761256 original size:30 final size:30
Alignment explanation
Indices: 4761086--4761256 Score: 152
Period size: 31 Copynumber: 5.5 Consensus size: 30
4761076 TGTGGTGTCC
* *
4761086 CAAAGTCCATGACTTAGTGGC-TTTCCTTCTT
1 CAAAGTCCACGACTTAGTGGCATCT-CTT-TT
* *
4761117 CAAAGTCCACGACTCAGTGGCATCTCTTCT
1 CAAAGTCCACGACTTAGTGGCATCTCTTTT
*
4761147 CAAAGTCCACGACTCT-GTGGCACCCTTTTTCTTTT
1 CAAAGTCCACGACT-TAGTGGCA-----TCTCTTTT
* *
4761182 C-AAGTCCATGACTCAGTGGCAT-TCCTTCTT
1 CAAAGTCCACGACTTAGTGGCATCT-CTT-TT
*
4761212 CAAAGTCCATGACTTAGTGGCATCTCTTTT
1 CAAAGTCCACGACTTAGTGGCATCTCTTTT
4761242 CAAAGTCCACGACTT
1 CAAAGTCCACGACTT
4761257 TGTGACACCC
Statistics
Matches: 117, Mismatches: 11, Indels: 25
0.76 0.07 0.16
Matches are distributed among these distances:
28 1 0.01
29 4 0.03
30 40 0.34
31 45 0.38
32 3 0.03
34 17 0.15
35 7 0.06
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (30 bp):
CAAAGTCCACGACTTAGTGGCATCTCTTTT
Found at i:4761334 original size:63 final size:64
Alignment explanation
Indices: 4761214--4761361 Score: 165
Period size: 63 Copynumber: 2.3 Consensus size: 64
4761204 TCCTTCTTCA
* * * ***
4761214 AAGTCCATGACTTAGTGGCATCTCTTTTCAAAGTCCACGACTTTGTGACACCCTTTTTCTTTTC
1 AAGTCCATGACTTAGTGGCACCTCTTCTCAAAATCCACGACTCCATGACACCCTTTTTCTTTTC
* * * * *
4761278 AAGTCCATGACTTAGT-GTACCTCTTCTCAAAATCCATGACTCCATGGCACCTTTTTTCTTTTT
1 AAGTCCATGACTTAGTGGCACCTCTTCTCAAAATCCACGACTCCATGACACCCTTTTTCTTTTC
*
4761341 AAGTCCATAACTCT-GTGGCAC
1 AAGTCCATGACT-TAGTGGCAC
4761362 TTTTTTCTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
63 49 0.71
64 20 0.29
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (64 bp):
AAGTCCATGACTTAGTGGCACCTCTTCTCAAAATCCACGACTCCATGACACCCTTTTTCTTTTC
Found at i:4761421 original size:29 final size:30
Alignment explanation
Indices: 4761389--4761455 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
4761379 CCATGACTCT
4761389 GTGGC-TCTCTTC-CCAAAGTCCACAAATTA
1 GTGGCATCTCTTCTCC-AAGTCCACAAATTA
* * *
4761418 GTGGCATCTTTTCTCCAAGTCTACAACTTA
1 GTGGCATCTCTTCTCCAAGTCCACAAATTA
4761448 GTGGCATC
1 GTGGCATC
4761456 CTTTTTCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 26 0.79
31 2 0.06
ACGTcount: A:0.24, C:0.28, G:0.16, T:0.31
Consensus pattern (30 bp):
GTGGCATCTCTTCTCCAAGTCCACAAATTA
Found at i:4761438 original size:30 final size:34
Alignment explanation
Indices: 4761396--4761478 Score: 102
Period size: 30 Copynumber: 2.5 Consensus size: 34
4761386 TCTGTGGCTC
4761396 TCTTCCCAAAGTCCACAAATTAGTGGCAT-C-TTT
1 TCTT-CCAAAGTCCACAAATTAGTGGCATCCTTTT
* *
4761429 TC-TCC-AAGTCTACAACTTAGTGGCATCCTTTT
1 TCTTCCAAAGTCCACAAATTAGTGGCATCCTTTT
4761461 TCTTCCAAAAGTCCACAA
1 TCTTCC-AAAGTCCACAA
4761479 CTCCGTGGCA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
30 19 0.45
31 3 0.07
32 6 0.14
33 5 0.12
35 9 0.21
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (34 bp):
TCTTCCAAAGTCCACAAATTAGTGGCATCCTTTT
Found at i:4761479 original size:35 final size:34
Alignment explanation
Indices: 4761396--4761495 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 34
4761386 TCTGTGGCTC
*
4761396 TCTTCCCAAAGTCCACAAATTAGTGGCAT-C-TTT
1 TCTT-CCAAAGTCCACAACTTAGTGGCATCCTTTT
*
4761429 TC-TCC-AAGTCTACAACTTAGTGGCATCCTTTT
1 TCTTCCAAAGTCCACAACTTAGTGGCATCCTTTT
** *
4761461 TCTTCCAAAAGTCCACAACTCCGTGGCACCCTTTT
1 TCTTCC-AAAGTCCACAACTTAGTGGCATCCTTTT
4761496 AAGTCCACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
30 19 0.34
31 3 0.05
32 6 0.11
33 5 0.09
35 23 0.41
ACGTcount: A:0.24, C:0.31, G:0.12, T:0.33
Consensus pattern (34 bp):
TCTTCCAAAGTCCACAACTTAGTGGCATCCTTTT
Found at i:4761487 original size:65 final size:60
Alignment explanation
Indices: 4761396--4761524 Score: 141
Period size: 65 Copynumber: 2.1 Consensus size: 60
4761386 TCTGTGGCTC
* * * * *
4761396 TCTTCCCAAAGTCCACAAATTAGTGGCATCTTTTCTCCAAGTCTACAACTTAGTGGCATCCTTTT
1 TCTTCCAAAAGTCCACAAATCAGTGGCACCCTTT-T--AAGTCCACAAC-TAGTGGCA-CCTTTT
* * *
4761461 TCTTCCAAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCGTGGCACCTTTT
1 TCTTCCAAAAGTCCACAAATCAGTGGCACCCTTTTAAGTCCACAACTAGTGGCACCTTTT
4761521 TCTT
1 TCTT
4761525 TTCAAAGCCC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
60 10 0.18
61 7 0.12
62 10 0.18
64 1 0.02
65 28 0.50
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.33
Consensus pattern (60 bp):
TCTTCCAAAAGTCCACAAATCAGTGGCACCCTTTTAAGTCCACAACTAGTGGCACCTTTT
Found at i:4761521 original size:26 final size:27
Alignment explanation
Indices: 4761469--4761521 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
4761459 TTTCTTCCAA
4761469 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
*
4761496 AAGTCCACAACT-CGTGGCACCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTT
4761522 CTTTTCAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.23, C:0.34, G:0.15, T:0.28
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCACCCTTTT
Found at i:4761716 original size:68 final size:65
Alignment explanation
Indices: 4761490--4761864 Score: 249
Period size: 68 Copynumber: 5.7 Consensus size: 65
4761480 TCCGTGGCAC
* * ** * *
4761490 CCTTTTAAGTCCACAACT-CGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTTGTGGCTTCCCT
1 CCTTTTAAGTCCACAACTCCATGGCA-CTTTTTCTTTT-AAAGCCTACAACTTCATGACAT-CCT
4761554 TTT
63 TTT
* * * * *
4761557 CCTTTTAAGTCCATAACGCCATGGCACTTTTTCCTTTTTAAGTCC-ATAACTCCATGACA-CCTT
1 CCTTTTAAGTCCACAACTCCATGGCACTTTTT-CTTTTAAAG-CCTACAACTTCATGACATCCTT
4761620 TT
64 TT
* * * *
4761622 TCTCTTAAAGTCCACAATTCTATGGCACATTTTTCTTTTCAAAGCCTACAACTTCATGACATCCT
1 CCT-TTTAAGTCCACAACTCCATGGCAC-TTTTTCTTTT-AAAGCCTACAACTTCATGACATCCT
4761687 TTT
63 TTT
* ** *
4761690 CCCTTTTAAGTCCACAACTCCGTGGCACTTTTTTCTATTTAAAGCCTACAACTTTGTGGCA--C-
1 -CCTTTTAAGTCCACAACTCCATGGCAC-TTTTTCT-TTTAAAGCCTACAACTTCATGACATCCT
4761752 ---
63 TTT
* * * * *
4761752 CCTTTTAAGTCCATAACTTCATGGCATATTTTTCCCTTT-AAGTCC-ACAAC-TCTATGGCA-CC
1 CCTTTTAAGTCCACAACTCCATGGCA-CTTTTT-CTTTTAAAG-CCTACAACTTC-ATGACATCC
4761813 --TT
62 TTTT
* *
4761815 CCTTTTAAAGTCCACAACTCCGTGGCACTTTGTCCTTTTAAAAGCCTACA
1 CCTTTT-AAGTCCACAACTCCATGGCACTTT-TTCTTTT-AAAGCCTACA
4761865 CAAGTTAGTG
Statistics
Matches: 245, Mismatches: 41, Indels: 46
0.74 0.12 0.14
Matches are distributed among these distances:
59 1 0.00
60 13 0.05
61 34 0.14
62 1 0.00
63 13 0.05
64 20 0.08
65 14 0.06
66 27 0.11
67 53 0.22
68 64 0.26
69 5 0.02
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.37
Consensus pattern (65 bp):
CCTTTTAAGTCCACAACTCCATGGCACTTTTTCTTTTAAAGCCTACAACTTCATGACATCCTTTT
Found at i:4761856 original size:33 final size:31
Alignment explanation
Indices: 4761469--4761855 Score: 186
Period size: 33 Copynumber: 12.1 Consensus size: 31
4761459 TTTCTTCCAA
*
4761469 AAGTCCACAACTCCGTGGCAC----CCTTTT
1 AAGTCCACAACTCCATGGCACTTTTCCTTTT
* *
4761496 AAGTCCACAACT-CGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCATGGCA-CTTTTCCTTTT
* *** *
4761527 CAAAGCCCACAACTTTGTGGCTTCCCTTTTCCTTTT
1 --AAGTCCACAACTCCATGG---CACTTTTCCTTTT
* *
4761563 AAGTCCATAACGCCATGGCACTTTTTCCTTTTT
1 AAGTCCACAACTCCATGGCAC-TTTTCC-TTTT
* * * *
4761596 AAGTCCATAACTCCATGACACCTTTTTCTCTTA
1 AAGTCCACAACTCCATGGCA-CTTTTCCT-TTT
* * *
4761629 AAGTCCACAATTCTATGGCACATTTTTCTTTT
1 AAGTCCACAACTCCATGGCAC-TTTTCCTTTT
* *
4761661 CAAAG-CCTACAACTTCATGACATCCTTTTCCCTTTT
1 --AAGTCC-ACAACTCCATGGCA--CTTTT-CCTTTT
* *
4761697 AAGTCCACAACTCCGTGGCACTTTTTTCTATTT
1 AAGTCCACAACTCCATGGCAC-TTTTCCT-TTT
***
4761730 AAAG-CCTACAACTTTGTGGCAC----CCTTTT
1 -AAGTCC-ACAACTCCATGGCACTTTTCCTTTT
* * * *
4761758 AAGTCCATAACTTCATGGCATATTTTTCCCTTT
1 AAGTCCACAACTCCATGGC--ACTTTTCCTTTT
* *
4761791 AAGTCCACAACTCTATGGCAC-CTTCCTTTT
1 AAGTCCACAACTCCATGGCACTTTTCCTTTT
*
4761821 AAAGTCCACAACTCCGTGGCACTTTGTCCTTTT
1 -AAGTCCACAACTCCATGGCACTTT-TCCTTTT
4761854 AA
1 AA
4761856 AAGCCTACAC
Statistics
Matches: 276, Mismatches: 47, Indels: 69
0.70 0.12 0.18
Matches are distributed among these distances:
26 7 0.03
27 26 0.09
28 5 0.02
29 3 0.01
30 7 0.03
31 27 0.10
32 16 0.06
33 102 0.37
34 60 0.22
35 6 0.02
36 16 0.06
37 1 0.00
ACGTcount: A:0.23, C:0.29, G:0.11, T:0.37
Consensus pattern (31 bp):
AAGTCCACAACTCCATGGCACTTTTCCTTTT
Found at i:4761914 original size:29 final size:30
Alignment explanation
Indices: 4761855--4761914 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 30
4761845 TGTCCTTTTA
* * *
4761855 AAAGCCTACACAAGTTAGTGGCACCCCCTCT
1 AAAGCCCACACAAGCTAGTGGCA-CACCTCT
4761886 AAAGCCCACACAAGCTAGTGGCA-ACCTCT
1 AAAGCCCACACAAGCTAGTGGCACACCTCT
4761915 TCTAAAGCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 5 0.19
31 21 0.81
ACGTcount: A:0.32, C:0.35, G:0.17, T:0.17
Consensus pattern (30 bp):
AAAGCCCACACAAGCTAGTGGCACACCTCT
Found at i:4761924 original size:32 final size:31
Alignment explanation
Indices: 4761855--4762099 Score: 151
Period size: 32 Copynumber: 7.6 Consensus size: 31
4761845 TGTCCTTTTA
* * *
4761855 AAAGCCTACACAAGTTAGTGGC-ACCCCCTCT
1 AAAGCCCACACAAG-TGGTGGCAACCCCTTCT
* *
4761886 AAAGCCCACACAAGCTAGTGGCAACCTCTTCT
1 AAAGCCCACACAAG-TGGTGGCAACCCCTTCT
**
4761918 AAAGCCCATGCAAGTCGGTGGCAACCCCCTT-T
1 AAAGCCCACACAAGT-GGTGGCAA-CCCCTTCT
** * *
4761950 AAAAGCTTACACAAGTCGGTGTC-A-CCTTTACT
1 -AAAGCCCACACAAGT-GGTGGCAACCCCTT-CT
* * *
4761982 AAAGCCTACACAAGCTGGTGGCAACCTCTTAT
1 AAAGCCCACACAAG-TGGTGGCAACCCCTTCT
* *
4762014 AAAGCCTACACAAGTCAGTGGCAACCCCCTT-T
1 AAAGCCCACACAAGT-GGTGGCAA-CCCCTTCT
* *
4762046 AAAAGCCCACACAAGTTGGTTGCAA-CCCTCTCA
1 -AAAGCCCACACAAG-TGGTGGCAACCCCT-TCT
*
4762079 AAAACCCACACAAGTTGGTGG
1 AAAGCCCACACAAG-TGGTGG
4762100 GATCTCCTTC
Statistics
Matches: 172, Mismatches: 27, Indels: 29
0.75 0.12 0.13
Matches are distributed among these distances:
30 4 0.02
31 44 0.26
32 74 0.43
33 49 0.28
34 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (31 bp):
AAAGCCCACACAAGTGGTGGCAACCCCTTCT
Found at i:4761951 original size:96 final size:96
Alignment explanation
Indices: 4761851--4762092 Score: 306
Period size: 96 Copynumber: 2.5 Consensus size: 96
4761841 ACTTTGTCCT
* *
4761851 TTTAAAAGCCTACACAAGTTAGTGGCACCCCCTCTAAAGCCCACACAAGCTAGTGGCAACCTCTT
1 TTTAAAAGCCTACACAAGTTGGTGGCACCCTCTCTAAAGCCCACACAAGCTAGTGGCAACCTCTT
* ** *
4761916 CTAAAGCCCATGCAAGTCGGTGGCAACCCCC
66 ATAAAGCCCACACAAGTCAGTGGCAACCCCC
* * * * * *
4761947 TTTAAAAGCTTACACAAGTCGGTGTCA-CCTTTACTAAAGCCTACACAAGCTGGTGGCAACCTCT
1 TTTAAAAGCCTACACAAGTTGGTGGCACCCTCT-CTAAAGCCCACACAAGCTAGTGGCAACCTCT
*
4762011 TATAAAGCCTACACAAGTCAGTGGCAACCCCC
65 TATAAAGCCCACACAAGTCAGTGGCAACCCCC
* * * *
4762043 TTTAAAAGCCCACACAAGTTGGTTGCAACCCTCTCAAAAACCCACACAAG
1 TTTAAAAGCCTACACAAGTTGGTGGC-ACCCTCTCTAAAGCCCACACAAG
4762093 TTGGTGGGAT
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
95 3 0.02
96 100 0.83
97 14 0.12
98 4 0.03
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.20
Consensus pattern (96 bp):
TTTAAAAGCCTACACAAGTTGGTGGCACCCTCTCTAAAGCCCACACAAGCTAGTGGCAACCTCTT
ATAAAGCCCACACAAGTCAGTGGCAACCCCC
Found at i:4761965 original size:33 final size:34
Alignment explanation
Indices: 4761851--4762073 Score: 154
Period size: 33 Copynumber: 6.9 Consensus size: 34
4761841 ACTTTGTCCT
**
4761851 TTTA-AAAGCCTACACAAGTTAGTGGC-ACCCCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
* * * *
4761883 --TCTAAAGCCCACACAAG-CTAGTGGCAA-CCTC
1 TTTATAAAGCCTACACAAGTC-GGTGGCAACCCCC
* * **
4761914 -TTCTAAAGCCCATGCAAGTCGGTGGCAACCCCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
* *
4761947 TTTA-AAAGCTTACACAAGTCGGTGTC-A---CC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
*
4761976 TTTACTAAAGCCTACACAAG-CTGGTGGCAA-CCTC
1 TTTA-TAAAGCCTACACAAGTC-GGTGGCAACCCCC
*
4762010 -TTATAAAGCCTACACAAGTCAGTGGCAACCCCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
* * *
4762043 TTTA-AAAGCCCACACAAGTTGGTTGCAACCC
1 TTTATAAAGCCTACACAAGTCGGTGGCAACCC
4762074 TCTCAAAAAC
Statistics
Matches: 152, Mismatches: 23, Indels: 31
0.74 0.11 0.15
Matches are distributed among these distances:
29 6 0.04
30 2 0.01
31 40 0.26
32 47 0.31
33 51 0.34
34 6 0.04
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.21
Consensus pattern (34 bp):
TTTATAAAGCCTACACAAGTCGGTGGCAACCCCC
Found at i:4762275 original size:86 final size:86
Alignment explanation
Indices: 4762117--4762380 Score: 285
Period size: 86 Copynumber: 3.0 Consensus size: 86
4762107 TTCTAAGCCT
* * *
4762117 AATGTCGTTGGCCTTGAATTAGCACATTGGCATTTTCTTAAGTCCAATATCACTGGCCTTGAATC
1 AATGTTGTTGGCCTTGAATCAGCACATTGGCACTTTCTTAAGTCCAATATCACTGGCCTTGAATC
* * **
4762182 AGCATATTGGTGCTTTTGTTT
66 AACATATTGGTGCCTTTGTCC
* * * * * * *
4762203 GATGTTGTTAGCCTTGAATCATCATATTGGCACTTTCTTAAGTCTAATATTACTGTCCTTGAATC
1 AATGTTGTTGGCCTTGAATCAGCACATTGGCACTTTCTTAAGTCCAATATCACTGGCCTTGAATC
*
4762268 AATATATTGGTGCCTTTGTCC
66 AACATATTGGTGCCTTTGTCC
* *
4762289 AATGTTGTTGGCCTTGAATCAGCACATTGGTACCTTTCTCTTTCTTAAGTCCAATATCGCTGGCC
1 AATGTTGTTGGCCTTGAATCAGCACATTGG-------CACTTTCTTAAGTCCAATATCACTGGCC
* * *
4762354 TGGAATCAGCATATTGGCGCCTTTGTC
59 TTGAATCAACATATTGGTGCCTTTGTC
4762381 ATCTTTATGT
Statistics
Matches: 143, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
86 97 0.68
93 46 0.32
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (86 bp):
AATGTTGTTGGCCTTGAATCAGCACATTGGCACTTTCTTAAGTCCAATATCACTGGCCTTGAATC
AACATATTGGTGCCTTTGTCC
Found at i:4762363 original size:52 final size:52
Alignment explanation
Indices: 4762297--4762486 Score: 213
Period size: 52 Copynumber: 3.7 Consensus size: 52
4762287 CCAATGTTGT
* * *
4762297 TGGCCTTGAATCAGCACATTGGTACCTTTCTCTTTC-TTAAGTCCAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTTGTC-ATCATTAAGTCCAATATCGC
* * * * * * *
4762349 TGGCCTGGAATCAGCATATTGGCGCCTTTGTCATCTTTATGTCCAATGTCGG
1 TGGCCTTGAATCAGCACATTGGCACCTTTGTCATCATTAAGTCCAATATCGC
*
4762401 TGGCCTTGAATTAGCACATTGGCACCTTTGTCATCATTAAG-CCAAATATCGC
1 TGGCCTTGAATCAGCACATTGGCACCTTTGTCATCATTAAGTCC-AATATCGC
* * * *
4762453 TAGCCTTGAATCAGCATATTAGCACCTTTATCAT
1 TGGCCTTGAATCAGCACATTGGCACCTTTGTCAT
4762487 TATTCGCATC
Statistics
Matches: 114, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
51 4 0.04
52 110 0.96
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (52 bp):
TGGCCTTGAATCAGCACATTGGCACCTTTGTCATCATTAAGTCCAATATCGC
Found at i:4762464 original size:104 final size:104
Alignment explanation
Indices: 4762284--4762486 Score: 275
Period size: 104 Copynumber: 2.0 Consensus size: 104
4762274 TTGGTGCCTT
* * * *
4762284 TGTCCAATGTTGTTGGCCTTGAATCAGCACATTGGTACCTTTCTCTTTCTTAAGTCCAATATCGC
1 TGTCCAATGTCGGTGGCCTTGAATCAGCACATTGGCACCTTTCTCTATCTTAAGTCCAATATCGC
* * * *
4762349 TGGCCTGGAATCAGCATATTGGCGCCTTTGTCATCTTTA
66 TAGCCTGGAATCAGCATATTAGCACCTTTATCATCTTTA
* *
4762388 TGTCCAATGTCGGTGGCCTTGAATTAGCACATTGGCACCTTTGTC-ATCATTAAG-CCAAATATC
1 TGTCCAATGTCGGTGGCCTTGAATCAGCACATTGGCACCTTTCTCTATC-TTAAGTCC-AATATC
*
4762451 GCTAGCCTTGAATCAGCATATTAGCACCTTTATCAT
64 GCTAGCCTGGAATCAGCATATTAGCACCTTTATCAT
4762487 TATTCGCATC
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
103 4 0.05
104 82 0.95
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (104 bp):
TGTCCAATGTCGGTGGCCTTGAATCAGCACATTGGCACCTTTCTCTATCTTAAGTCCAATATCGC
TAGCCTGGAATCAGCATATTAGCACCTTTATCATCTTTA
Found at i:4765740 original size:13 final size:13
Alignment explanation
Indices: 4765718--4765760 Score: 63
Period size: 12 Copynumber: 3.5 Consensus size: 13
4765708 AAATTTTTAG
4765718 AATG-CATCTAAT
1 AATGTCATCTAAT
*
4765730 ATTGTCATCTAAT
1 AATGTCATCTAAT
4765743 AATGT-ATCTAAT
1 AATGTCATCTAAT
4765755 AATGTC
1 AATGTC
4765761 TAAAATTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.37, C:0.14, G:0.09, T:0.40
Consensus pattern (13 bp):
AATGTCATCTAAT
Found at i:4766039 original size:14 final size:13
Alignment explanation
Indices: 4766022--4766059 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
4766012 AATGGCATAG
4766022 AAAAAATAAAAAGC
1 AAAAAA-AAAAAGC
4766036 AAAAAAAAAAA-C
1 AAAAAAAAAAAGC
4766048 AAAAGAAAAAAA
1 AAAA-AAAAAAA
4766060 AGCTTTCAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 12 0.52
14 6 0.26
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (13 bp):
AAAAAAAAAAAGC
Found at i:4766180 original size:19 final size:19
Alignment explanation
Indices: 4766156--4766198 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4766146 AGTAAGTGAA
4766156 AAAAAAAAAGAAAAAAAAG
1 AAAAAAAAAGAAAAAAAAG
* * *
4766175 AAAAAAAGAGATAAATAAG
1 AAAAAAAAAGAAAAAAAAG
4766194 AAAAA
1 AAAAA
4766199 TAGTACAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAG
Found at i:4766200 original size:9 final size:9
Alignment explanation
Indices: 4766157--4766198 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
4766147 GTAAGTGAAA
4766157 AAAAAAAAG
1 AAAAAAAAG
4766166 AAAAAAAAG
1 AAAAAAAAG
4766175 AAAAAAAGAG
1 AAAAAAA-AG
* *
4766185 ATAAATAAG
1 AAAAAAAAG
4766194 AAAAA
1 AAAAA
4766199 TAGTACAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4781770 original size:46 final size:46
Alignment explanation
Indices: 4781719--4781812 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
4781709 CATTCACCAT
4781719 CATACTAACGTACTTTCCTTGTGATACTTATTCGCATTCATATTTC
1 CATACTAACGTACTTTCCTTGTGATACTTATTCGCATTCATATTTC
*
4781765 CATACTAACGTACTTTCCTTGTGATACTTATTTGCATTCATATTTC
1 CATACTAACGTACTTTCCTTGTGATACTTATTCGCATTCATATTTC
4781811 CA
1 CA
4781813 AAGTTTATTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.09, T:0.44
Consensus pattern (46 bp):
CATACTAACGTACTTTCCTTGTGATACTTATTCGCATTCATATTTC
Found at i:4783867 original size:28 final size:26
Alignment explanation
Indices: 4783827--4783878 Score: 77
Period size: 28 Copynumber: 1.9 Consensus size: 26
4783817 GGTGAAAATC
*
4783827 AAGGTTGGAGTATCCCTTCGGAGATGGT
1 AAGGTTAGAGTAT-CC-TCGGAGATGGT
4783855 AAGGTTAGAGTATCCTCGGAGATG
1 AAGGTTAGAGTATCCTCGGAGATG
4783879 AAGAATTCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 2 0.09
28 12 0.52
ACGTcount: A:0.25, C:0.13, G:0.35, T:0.27
Consensus pattern (26 bp):
AAGGTTAGAGTATCCTCGGAGATGGT
Found at i:4784220 original size:81 final size:82
Alignment explanation
Indices: 4784071--4784220 Score: 221
Period size: 81 Copynumber: 1.8 Consensus size: 82
4784061 AAAATGGTGG
** * *
4784071 GGTTGGAATATCCCCAGAGATGAAGAGATTTAATGTTTTAGAAAATAAAAATGGGGTTAGAGTAT
1 GGTTGGAATATCCCCAGAGACCAAAAAATTTAATGTTTTAGAAAATAAAAATGGGGTTAGAGTAT
4784136 CCCCTCGGAAACGACAA
66 CCCCTCGGAAACGACAA
* * * *
4784153 GGTTGGAGTATCCCTAGAGACCAAAAAATTTGATG-TTTAGAAAATAAAAATGGGGTTGGAGTAT
1 GGTTGGAATATCCCCAGAGACCAAAAAATTTAATGTTTTAGAAAATAAAAATGGGGTTAGAGTAT
4784217 CCCC
66 CCCC
4784221 AAAAAAATGA
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 32 0.53
82 28 0.47
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (82 bp):
GGTTGGAATATCCCCAGAGACCAAAAAATTTAATGTTTTAGAAAATAAAAATGGGGTTAGAGTAT
CCCCTCGGAAACGACAA
Found at i:4784243 original size:81 final size:80
Alignment explanation
Indices: 4783985--4784337 Score: 259
Period size: 82 Copynumber: 4.4 Consensus size: 80
4783975 AGAAGTAAAA
* * * **
4783985 ATGGGGTTGGAATATCCCTAGAGGTGAAAAAAGTTTAGTGTTTGGGAAATAAAAACAGGGTTAGA
1 ATGGGGTTGGAATATCCCTAGAGATGAAAAAA-TTTA-TGTTTAGAAAATAAAAATGGGGTTAGA
* *
4784050 GTATCCCTTTGAAAATG
64 GTATCCCCTAGAAAATG
* * * *
4784067 GTGGGGTTGGAATATCCCCAGAGATGAAGAGATTTAATGTTTTAGAAAATAAAAATGGGGTTAGA
1 ATGGGGTTGGAATATCCCTAGAGATGAAAAAATTT-ATG-TTTAGAAAATAAAAATGGGGTTAGA
* * *
4784132 GTATCCCCTCGGAAACG
64 GTATCCCCTAGAAAATG
*** * ** *
4784149 ACAAGGTTGGAGTATCCCTAGAGACCAAAAAATTTGATGTTTAGAAAATAAAAATGGGGTTGGAG
1 ATGGGGTTGGAATATCCCTAGAGATGAAAAAATTT-ATGTTTAGAAAATAAAAATGGGGTTAGAG
* *
4784214 TATCCCCAAAAAAATG
65 TATCCCCTAGAAAATG
* * * * * * *
4784230 ATGGGGTTTGAGTATAT-CC--GACATG--AAAATTCAATATTTTGAAAGTAAAAATGGGGTTGG
1 ATGGGG-TTG-GAATATCCCTAGAGATGAAAAAATT-TATGTTTAGAAAATAAAAATGGGGTTAG
* *
4784290 AGTATCCTCTTGAAAATG
63 AGTATCCCCTAGAAAATG
* * * *
4784308 GTAGGGTTGGAGTACCCCT-GAAGATGAAAA
1 ATGGGGTTGGAATATCCCTAG-AGATGAAAA
4784338 TTTTGGTATT
Statistics
Matches: 209, Mismatches: 52, Indels: 21
0.74 0.18 0.07
Matches are distributed among these distances:
76 3 0.01
77 5 0.02
78 49 0.23
79 4 0.02
80 3 0.01
81 46 0.22
82 95 0.45
83 4 0.02
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.27
Consensus pattern (80 bp):
ATGGGGTTGGAATATCCCTAGAGATGAAAAAATTTATGTTTAGAAAATAAAAATGGGGTTAGAGT
ATCCCCTAGAAAATG
Found at i:4789020 original size:52 final size:52
Alignment explanation
Indices: 4788935--4789059 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
4788925 ATATGAAAAG
* * *
4788935 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
*
4788987 TTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
4789039 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
4789060 AAGTTCAATG
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCAATACATCTGGGCAAAT
Found at i:4789070 original size:52 final size:52
Alignment explanation
Indices: 4788935--4789073 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 52
4788925 ATATGAAAAG
* * *
4788935 TTGCTTGCATGTATCGATAC-ATTTA-ATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACAAGTTACA-A-TGTATCAATACATCTGGGCAAAT
** *
4788987 TTGCCTGCATGTATCGATACATTTTATAATGTATCAATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACAAGTTACAATGTATCAATACATCTGGGCAAAT
4789039 TTGCCTGCATGTATCGATACAAAGTT-CAATGTATC
1 TTGCCTGCATGTATCGATAC-AAGTTACAATGTATC
4789074 GGTACAATGT
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
52 69 0.88
53 8 0.10
54 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACAAGTTACAATGTATCAATACATCTGGGCAAAT
Found at i:4790388 original size:20 final size:20
Alignment explanation
Indices: 4790359--4790396 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4790349 TTAAAAACTC
4790359 AAAATATATCGAAACAATGA
1 AAAATATATCGAAACAATGA
* *
4790379 AAAATGTATCGATACAAT
1 AAAATATATCGAAACAAT
4790397 TGGGCCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.24
Consensus pattern (20 bp):
AAAATATATCGAAACAATGA
Found at i:4790394 original size:52 final size:51
Alignment explanation
Indices: 4790330--4790448 Score: 148
Period size: 51 Copynumber: 2.3 Consensus size: 51
4790320 AATAGCCTAT
* **
4790330 ATGTATCAATACATTTGGGTTAAAAACTCAAAATATATCGAAACAATGAAAA
1 ATGTATCGATACATTTGGGCCAAAAACT-AAAATATATCGAAACAATGAAAA
* * * * * *
4790382 ATGTATCGATACAATTGGGCCAAAACCTAGAATGTATCTATACAATGAAAA
1 ATGTATCGATACATTTGGGCCAAAAACTAAAATATATCGAAACAATGAAAA
4790433 ATGTATCGATACATTT
1 ATGTATCGATACATTT
4790449 TCTTTCCAAA
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 34 0.60
52 23 0.40
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACATTTGGGCCAAAAACTAAAATATATCGAAACAATGAAAA
Found at i:4790529 original size:20 final size:20
Alignment explanation
Indices: 4790504--4790557 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 20
4790494 CCTTTTCACC
4790504 ATGTATCGATACATT-CACTT
1 ATGTATCGATACATTAC-CTT
*
4790524 ATGTATCGATGCATTACCTT
1 ATGTATCGATACATTACCTT
*
4790544 ATTGTATTGATACA
1 A-TGTATCGATACA
4790558 AATTTTTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTACCTT
Found at i:4793429 original size:28 final size:27
Alignment explanation
Indices: 4793372--4793452 Score: 92
Period size: 28 Copynumber: 3.0 Consensus size: 27
4793362 ATTAATAAAT
*
4793372 AAGAAATATCAAGGAATTGAAATCAAC
1 AAGAAATATCAAGGAAATGAAATCAAC
*
4793399 AAGAAATATGAAGGGAAATGAAAT-AAGC
1 AAGAAATATCAA-GGAAATGAAATCAA-C
* * *
4793427 AAGAAATATTAAAGAAAAGAAATCAA
1 AAGAAATATCAAGGAAATGAAATCAA
4793453 TGAAGAGGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
27 22 0.48
28 24 0.52
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.16
Consensus pattern (27 bp):
AAGAAATATCAAGGAAATGAAATCAAC
Found at i:4797074 original size:20 final size:20
Alignment explanation
Indices: 4797049--4797104 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
4797039 TCTGGAAAGG
*
4797049 AAATGTATTGATACATAAAT
1 AAATGTATCGATACATAAAT
*
4797069 AAATGTATCGATACATTGAAT
1 AAATGTATCGATACA-TAAAT
4797090 -AATGTATCGATACAT
1 AAATGTATCGATACAT
4797105 GCAGGCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.85
21 4 0.12
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATAAAT
Found at i:4802221 original size:17 final size:17
Alignment explanation
Indices: 4802196--4802229 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4802186 TCACCCTTCA
*
4802196 ACTTCTTTGTCTCTATT
1 ACTTCTTTGCCTCTATT
*
4802213 ACTTTTTTGCCTCTATT
1 ACTTCTTTGCCTCTATT
4802230 TTTATCCAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.59
Consensus pattern (17 bp):
ACTTCTTTGCCTCTATT
Found at i:4813067 original size:23 final size:23
Alignment explanation
Indices: 4813041--4813087 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
4813031 CAAGTTATTC
*
4813041 ACTCTTATTATAT-TCATTTATAA
1 ACTCTT-TTATATCTCATTCATAA
*
4813064 ACTCTTTTGTATCTCATTCATAA
1 ACTCTTTTATATCTCATTCATAA
4813087 A
1 A
4813088 TTGTACTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (23 bp):
ACTCTTTTATATCTCATTCATAA
Found at i:4815049 original size:21 final size:22
Alignment explanation
Indices: 4815015--4815061 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
4815005 TAAGGTGATT
4815015 TTGATGGAAATTTGATGATGAA
1 TTGATGGAAATTTGATGATGAA
* *
4815037 TTGATGG-AATTTGATGCTGAT
1 TTGATGGAAATTTGATGATGAA
4815058 TTGA
1 TTGA
4815062 AGAATTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.30, C:0.02, G:0.28, T:0.40
Consensus pattern (22 bp):
TTGATGGAAATTTGATGATGAA
Found at i:4815068 original size:20 final size:21
Alignment explanation
Indices: 4815023--4815068 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4815013 TTTTGATGGA
*
4815023 AATTTGATGATGAATTGATGG
1 AATTTGATGATGAATTGATAG
* *
4815044 AATTTGATGCTGATTTGA-AG
1 AATTTGATGATGAATTGATAG
4815064 AATTT
1 AATTT
4815069 TGAAGAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.33, C:0.02, G:0.24, T:0.41
Consensus pattern (21 bp):
AATTTGATGATGAATTGATAG
Found at i:4815090 original size:20 final size:21
Alignment explanation
Indices: 4815056--4815094 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
4815046 TTTGATGCTG
4815056 ATTTGAAGAATTTTGAAGAGT
1 ATTTGAAGAATTTTGAAGAGT
4815077 ATTTGAAG-ATTTTGAAGA
1 ATTTGAAGAATTTTGAAGA
4815095 TTGGAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.38
Consensus pattern (21 bp):
ATTTGAAGAATTTTGAAGAGT
Found at i:4815092 original size:9 final size:9
Alignment explanation
Indices: 4815057--4815096 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
4815047 TTGATGCTGA
4815057 TTTGAAGAAT
1 TTTGAAG-AT
4815067 TTTGAAGAGT
1 TTTGAAGA-T
4815077 ATTTGAAGAT
1 -TTTGAAGAT
4815087 TTTGAAGAT
1 TTTGAAGAT
4815096 T
1 T
4815097 GGAAAATGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.39
10 9 0.32
11 8 0.29
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (9 bp):
TTTGAAGAT
Found at i:4818522 original size:21 final size:20
Alignment explanation
Indices: 4818469--4818522 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
4818459 ATTGGGCCAA
*
4818469 ATGTATCGATACAATTCTTG
1 ATGTATCGATACAATTCTTC
4818489 ATGTATC-AGTACAATT-TAATC
1 ATGTATCGA-TACAATTCT--TC
4818510 ATGTATCGATACA
1 ATGTATCGATACA
4818523 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 2 0.07
20 14 0.48
21 12 0.41
22 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:4818529 original size:13 final size:13
Alignment explanation
Indices: 4818511--4818546 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
4818501 AATTTAATCA
4818511 TGTATCGATACAT
1 TGTATCGATACAT
4818524 TGTATCGATACAT
1 TGTATCGATACAT
4818537 TGTATCGATA
1 TGTATCGATA
4818547 TAGTCGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4818620 original size:20 final size:20
Alignment explanation
Indices: 4818597--4818647 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
4818587 AATTCATAAT
*
4818597 GTATCAATACAAAGCAATTC
1 GTATCGATACAAAGCAATTC
** *
4818617 GTATCGATACTTAGCAATTT
1 GTATCGATACAAAGCAATTC
4818637 GTATCGATACA
1 GTATCGATACA
4818648 TCTAGGTCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (20 bp):
GTATCGATACAAAGCAATTC
Found at i:4832491 original size:10 final size:10
Alignment explanation
Indices: 4832476--4832514 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
4832466 CCTTCTTTTT
4832476 AAAAAAAACA
1 AAAAAAAACA
4832486 AAAAAAAACA
1 AAAAAAAACA
* *
4832496 AAAGAAAATA
1 AAAAAAAACA
4832506 AAGAAAAAA
1 AA-AAAAAA
4832515 AAGAGAGAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.87, C:0.05, G:0.05, T:0.03
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:4833964 original size:62 final size:62
Alignment explanation
Indices: 4833599--4834233 Score: 819
Period size: 61 Copynumber: 10.4 Consensus size: 62
4833589 GAGTAGGACG
* * *
4833599 CCTTTCAAAACCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCC-TTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
** * * *
4833659 -C----AAAGCCTGCACAAGCTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
4833714 CCTTTTAAAACCCACATAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGTAGGACGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
4833775 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCTTCAAGGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
4833836 CCTTTTAAAGCCCGCACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAAGATGTCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
4833897 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
4833959 CCTTTTCAAGCCCACACAAGTTGGTGGCACTATTCTAGTCCTCAAAAAGTAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
4834021 CCTTTAAAAGCCCACAGAAGTTGGTGGCAC-ATTCTAGTCCTCAAAGAGCAAGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * * *
4834082 CCTTTTAAAGCCCACATAAAAGTTGGTGCCACTTTTCTAGCCCTCAAAGAGTAGGGCACCTTTT
1 CCTTTTAAAGCCCAC--ACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
4834146 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTATAGTCCTCAAAGAGCATGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
4834208 CCTTTTAAAGCCCACACAAGTTGGTG
1 CCTTTTAAAGCCCACACAAGTTGGTG
4834234 TCACCTTTGA
Statistics
Matches: 501, Mismatches: 60, Indels: 26
0.85 0.10 0.04
Matches are distributed among these distances:
54 21 0.04
55 25 0.05
56 1 0.00
59 1 0.00
60 21 0.04
61 202 0.40
62 177 0.35
63 13 0.03
64 40 0.08
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (62 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:4834188 original size:187 final size:186
Alignment explanation
Indices: 4833578--4834240 Score: 921
Period size: 187 Copynumber: 3.7 Consensus size: 186
4833568 TTTCACCCTT
* *
4833578 TAGTCCTCAAAGAGTAGGACGCC-TTT-C----AAAACCCACACAAGTTGGTGGCA-TTTTCCAG
1 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
** *
4833636 TCCTCAAAGAGCAGGACGCC-TTT-C----AAAGCCTGCACAAGCTGGTGGCACCTTC-AGTCCT
66 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
* *
4833694 CAAAGAGCAGGATGCCTTTTCCTTTTAAAACCCACAT-AAGTTGGTGGCACTTTTC
131 CAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACATAAAGTTGGTGGCACTTTTC
*
4833749 -AGTCCTCAAAGAGTAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-TAG
1 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
* * * *
4833812 TCTTCAAGGAGCAAGACGCCTTTTCCTTTTAAAGCCCGCACAAGTTGGTGGCACCTTCTAGTCCT
66 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
* *
4833877 CAAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCACA-CAAGTTGGTGGCACTTTTC
131 CAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACATAAAGTTGGTGGCACTTTTC
* * *
4833932 TAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTCAAGCCCACACAAGTTGGTGGCACTATTCTAG
1 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
* * * * *
4833997 TCCTCAAAAAGTAGGACGCCTTTTCCTTTAAAAGCCCACAGAAGTTGGTGGCACATTCTAGTCCT
66 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
* *
4834062 CAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCCACATAAAAGTTGGTGCCACTTTTC
131 CAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACAT-AAAGTTGGTGGCACTTTTC
* * * *
4834119 TAGCCCTCAAAGAGTAGGGCACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTATAG
1 TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
* *
4834184 TCCTCAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGTCACCTT
66 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
4834241 TGAAAGCTCA
Statistics
Matches: 431, Mismatches: 42, Indels: 22
0.87 0.08 0.04
Matches are distributed among these distances:
170 21 0.05
171 3 0.01
172 1 0.00
176 41 0.10
177 7 0.02
178 1 0.00
182 26 0.06
183 57 0.13
184 56 0.13
185 93 0.22
187 125 0.29
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (186 bp):
TAGTCCTCAAAGAGTAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCT
CAAAGAGCAAGATGCCTTTTCCTTTTAAAGCCCACATAAAGTTGGTGGCACTTTTC
Found at i:4835012 original size:13 final size:13
Alignment explanation
Indices: 4834994--4835024 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4834984 ACATTTCTTC
4834994 ATGTATCGATACA
1 ATGTATCGATACA
4835007 ATGTATCGATACA
1 ATGTATCGATACA
*
4835020 TTGTA
1 ATGTA
4835025 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4835016 original size:33 final size:33
Alignment explanation
Indices: 4834974--4835040 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
4834964 GTTATAAGCT
4834974 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
4835007 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
4835040 A
1 A
4835041 ATAGTTATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:4835132 original size:32 final size:33
Alignment explanation
Indices: 4835091--4835153 Score: 110
Period size: 32 Copynumber: 1.9 Consensus size: 33
4835081 CAATTTGTCC
*
4835091 ATGTATCGATACAATG-AACATGTATCGATATA
1 ATGTATCGATACAAAGCAACATGTATCGATATA
4835123 ATGTATCGATACAAAGCAACATGTATCGATA
1 ATGTATCGATACAAAGCAACATGTATCGATA
4835154 CATCTGGGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.41, C:0.14, G:0.16, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCAACATGTATCGATATA
Found at i:4835700 original size:17 final size:17
Alignment explanation
Indices: 4835674--4835742 Score: 86
Period size: 17 Copynumber: 4.1 Consensus size: 17
4835664 GTTTTCGTTT
4835674 TTCT-CCCCTTAAAAAA
1 TTCTCCCCCTTAAAAAA
*
4835690 TTCTCCCCCTTAAACAA
1 TTCTCCCCCTTAAAAAA
* **
4835707 TTATCTTCCTTAAAAAA
1 TTCTCCCCCTTAAAAAA
*
4835724 TTCTCCCCCTTAAACAA
1 TTCTCCCCCTTAAAAAA
4835741 TT
1 TT
4835743 ATCTTCTCCC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 4 0.09
17 39 0.91
ACGTcount: A:0.33, C:0.32, G:0.00, T:0.35
Consensus pattern (17 bp):
TTCTCCCCCTTAAAAAA
Found at i:4835723 original size:34 final size:34
Alignment explanation
Indices: 4835680--4835748 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
4835670 GTTTTTCTCC
4835680 CCTTAAAAAATTCTCCCCCTTAAACAATTATCTT
1 CCTTAAAAAATTCTCCCCCTTAAACAATTATCTT
4835714 CCTTAAAAAATTCTCCCCCTTAAACAATTATCTT
1 CCTTAAAAAATTCTCCCCCTTAAACAATTATCTT
4835748 C
1 C
4835749 TCCCCCTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.30, G:0.00, T:0.35
Consensus pattern (34 bp):
CCTTAAAAAATTCTCCCCCTTAAACAATTATCTT
Found at i:4836911 original size:13 final size:13
Alignment explanation
Indices: 4836893--4836921 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
4836883 AAATAGTACC
4836893 CAATGTATCGATA
1 CAATGTATCGATA
4836906 CAATGTATCGATA
1 CAATGTATCGATA
4836919 CAA
1 CAA
4836922 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:4845823 original size:131 final size:131
Alignment explanation
Indices: 4845589--4845894 Score: 316
Period size: 131 Copynumber: 2.3 Consensus size: 131
4845579 TTTTCATCTC
* * *
4845589 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCAAATTTTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAAATTTTCACAATCGGGGATACTCCAAC
* * * * * * *
4845654 CTCGTTATTTCCGAGGGGACACTCTAACCCCGGCTTTATTTCTAAAATATTGA-TTTCTCATAGT
66 CCCGTTATTTCCAAGGAGACACTCTAACCCCGACTTTATTTCTAAAACACTAATTTTC-CATAGT
4845718 CA
130 CA
* * *
4845720 -GGGATACTCCAACCCCGATTTTA-TTTCTAAAACTTC-AATCTTTCCACAATCGGGTATACTCT
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACATCAAAT-TTT-CACAATCGGGGATACTCC
* * * * * *
4845782 TACCCCGTTATTTTCAAGGAGATACTCTAACCCTGATTTTATTTCTAGAACACTAATTTTCCATA
63 AACCCCGTTATTTCCAAGGAGACACTCTAACCCCGACTTTATTTCTAAAACACTAATTTTCCATA
4845847 GTCA
128 GTCA
* * * * *
4845851 GGGGATACTCCAGCCTCG-TTGTTATCTCCAAAATATCAAATTTT
1 GGGGATACTCCAACCCCGATT-TTATTTTCAAAACATCAAATTTT
4845895 TCATCAGGAG
Statistics
Matches: 142, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
129 7 0.05
130 32 0.23
131 67 0.47
132 31 0.22
133 5 0.04
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (131 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAAATTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCCAAGGAGACACTCTAACCCCGACTTTATTTCTAAAACACTAATTTTCCATAGTC
A
Found at i:4846973 original size:45 final size:45
Alignment explanation
Indices: 4846919--4847074 Score: 176
Period size: 44 Copynumber: 3.5 Consensus size: 45
4846909 CTGTTTTCCA
* *
4846919 TATGGTTACCACCTTAGTCAAATTCTTTTTTATTTTGATTTAATG
1 TATGGTTACCACCCTAGTCAAATTCTTTTTTATTTTGATTTAACG
* * *
4846964 CATGGTTACCACACTAGTCAAA-TCTTTCTTT-TTTCT-ATCTAACG
1 TATGGTTACCACCCTAGTCAAATTCTTT-TTTATTT-TGATTTAACG
* * * *
4847008 TATGGTTACCACCCTGGTTAGATTC-TTTTTATTTTGATTTGACG
1 TATGGTTACCACCCTAGTCAAATTCTTTTTTATTTTGATTTAACG
*
4847052 TAAGGTTACCACCCTAGTCAAAT
1 TATGGTTACCACCCTAGTCAAAT
4847075 CTATTGCCCA
Statistics
Matches: 90, Mismatches: 16, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
43 4 0.04
44 61 0.68
45 25 0.28
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (45 bp):
TATGGTTACCACCCTAGTCAAATTCTTTTTTATTTTGATTTAACG
Found at i:4847262 original size:41 final size:40
Alignment explanation
Indices: 4847131--4847809 Score: 425
Period size: 40 Copynumber: 16.8 Consensus size: 40
4847121 TTTTGTTCCA
* * * ** **
4847131 GTTGGCTTTATTAGTTTTGCCTTGGCCAATGTTTAAATCT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * * *
4847171 GTAGGCTTTATCAGTTTCACCCTGGCCAACTTTCTAATC-
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * * * *
4847210 GATTGACTTTATCGGTTTTGCCCTGGTCAACCTTTTCAATCT
1 G-TTGGCTTTATCAGTTTCGCCCTGGCCAACC-TTCCAATCT
* * * *
4847252 ATTAGCTTTATCGGTTTCACCCTGGCCAACCTTCCAATCT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * ** * *
4847292 CTTGACTTTATTGGTTTCGCCCTAGCCAACCTTCTAATCT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * * * *
4847332 ATTGGTTTTATC-GATTTCACCTTGGCTAACCCTTCCAATCT
1 GTTGGCTTTATCAG-TTTCGCCCTGGCCAA-CCTTCCAATCT
* * * *
4847373 GTTGGCTCTATCGGTTTCACCATGGCCAACCTTCCAATCT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * * * * *
4847413 ATTGGTTTTA-CTAGTTTCGCCCTAGTCAACCCTTCAAATCG
1 GTTGGCTTTATC-AGTTTCGCCCTGGCCAA-CCTTCCAATCT
** * * *
4847454 GTTGATTTTATTAGTTTTGCCCTGGTCAACACTTCCAATCT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAAC-CTTCCAATCT
* *
4847495 GTTGGCTTTATCAGTTTTGCCCTGGCCAACCTTCCAATTT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
*
4847535 GTTGGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* ** * * * * * ** *
4847575 GTTGGTTTTATTGGTTTTGTCCTGACTAACTTTTTAATCG
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * * * *
4847615 GTTAGCTTTATCAGTTT-GACCTTTGTCAACCTTTTCAATCT
1 GTTGGCTTTATCAGTTTCG-CCCTGGCCAACC-TTCCAATCT
* * * ** *
4847656 ATTGGCTTTATCAATTTTGCCCTAACCAACCTTCCAATCC
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* ** * * *
4847696 ATTGGCTTTATTTGTTTCTCCCTAGCTAACCTTCCAAT-T
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
* * * * *
4847735 GGTTGGCTTTATCAAATTT-GCCTTGGTCAGCCCTTCCAATCC
1 -GTTGGCTTTATC-AGTTTCGCCCTGGCCA-ACCTTCCAATCT
* ** * *
4847777 ATTGGCTTTATTTGTTTCTCCCTGGCTAACCTT
1 GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTT
4847810 TTAATCGGTC
Statistics
Matches: 488, Mismatches: 133, Indels: 36
0.74 0.20 0.05
Matches are distributed among these distances:
39 4 0.01
40 296 0.61
41 186 0.38
42 2 0.00
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (40 bp):
GTTGGCTTTATCAGTTTCGCCCTGGCCAACCTTCCAATCT
Found at i:4847269 original size:81 final size:79
Alignment explanation
Indices: 4847174--4847748 Score: 377
Period size: 81 Copynumber: 7.1 Consensus size: 79
4847164 TAAATCTGTA
* * * * *
4847174 GGCTTTATCAGTTTCACCCTGGCCAACTTTCTAATCGATTGACTTTATCGGTTTTGCCCTGGTCA
1 GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCG-TTGACTTTATCAGTTTCGCCCTGGCCA
*
4847239 ACCTTTTCAATCTATT
65 ACC-TTCCAATCTATT
* * * ** *
4847255 AGCTTTATCGGTTTCACCCTGGCCAACCTTCCAATCTCTTGACTTTATTGGTTTCGCCCTAGCCA
1 GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATC-GTTGACTTTATCAGTTTCGCCCTGGCCA
*
4847320 ACCTTCTAATCTATT
65 ACCTTCCAATCTATT
* * * * * * * *
4847335 GGTTTTATC-GATTTCACCTTGGCTAACCCTTCCAATCTGTTGGCTCTATCGGTTTCACCATGGC
1 GGCTTTATCAG-TTTCACCCTGGCCAA-CCTTCCAATC-GTTGACTTTATCAGTTTCGCCCTGGC
4847399 CAACCTTCCAATCTATT
63 CAACCTTCCAATCTATT
* * * * * * * * *
4847416 GGTTTTA-CTAGTTTCGCCCTAGTCAACCCTTCAAATCGGTTGATTTTATTAGTTTTGCCCTGGT
1 GGCTTTATC-AGTTTCACCCTGGCCAA-CCTTCCAATC-GTTGACTTTATCAGTTTCGCCCTGGC
*
4847480 CAACACTTCCAATCTGTT
63 CAAC-CTTCCAATCTATT
** * * *
4847498 GGCTTTATCAGTTTTGCCCTGGCCAACCTTCCAATTTGTTGGCTTTATCAGTTTCACCCTGGCCA
1 GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAA-TCGTTGACTTTATCAGTTTCGCCCTGGCCA
*
4847563 ACCTTCCAATCTGTT
65 ACCTTCCAATCTATT
* ** *** * * * ** * * *
4847578 GGTTTTATTGGTTTTGTCCTGACTAACTTTTTAATCGGTT-AGCTTTATCAGTTT-GACCTTTGT
1 GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATC-GTTGA-CTTTATCAGTTTCG-CCCTGGC
*
4847641 CAACCTTTTCAATCTATT
63 CAACC-TTCCAATCTATT
* ** ** * * ** * * *
4847659 GGCTTTATCAATTTTGCCCTAACCAACCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTAGCTA
1 GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAAT-CGTTGACTTTATCAGTTTCGCCCTGGCCA
*
4847724 ACCTTCCAAT-TGGTT
65 ACCTTCCAATCT-ATT
4847739 GGCTTTATCA
1 GGCTTTATCA
4847749 AATTTGCCTT
Statistics
Matches: 388, Mismatches: 90, Indels: 33
0.76 0.18 0.06
Matches are distributed among these distances:
79 3 0.01
80 111 0.29
81 238 0.61
82 35 0.09
83 1 0.00
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (79 bp):
GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCGTTGACTTTATCAGTTTCGCCCTGGCCAA
CCTTCCAATCTATT
Found at i:4847661 original size:121 final size:119
Alignment explanation
Indices: 4847174--4847787 Score: 484
Period size: 121 Copynumber: 5.1 Consensus size: 119
4847164 TAAATCTGTA
* * * * ** * *
4847174 GGCTTTATCAGTTTCACCCTGGCCAACTTTCTAATC-GATTGACTTTATCGGTTTTGCCCTGGTC
1 GGCTTTATCAGTTTCGCCCTAGCCAACCTTCCAATCTG-TTGGTTTTATTGGTTTTGCCCTGCT-
* * * * * *
4847238 AACCTTTTCAATCTATTAGCTTTATCGGTTTCACCCTGGCCAACCTTCCAATCTCTT
64 AACC-TTCCAATCTGTTGGCTTTATCAGTTTGACCCTGGCCAACCTTCCAATCTATT
* ** * * * * ** *
4847295 GACTTTATTGGTTTCGCCCTAGCCAACCTTCTAATCTATTGGTTTTATCGATTTCACCTTGGCTA
1 GGCTTTATCAGTTTCGCCCTAGCCAACCTTCCAATCTGTTGGTTTTATTGGTTTTGCCCT-GCTA
* * * *
4847360 ACCCTTCCAATCTGTTGGCTCTATCGGTTTCACCATGGCCAACCTTCCAATCTATT
65 A-CCTTCCAATCTGTTGGCTTTATCAGTTTGACCCTGGCCAACCTTCCAATCTATT
* * * * * * *
4847416 GGTTTTA-CTAGTTTCGCCCTAGTCAACCCTTCAAATCGGTTGATTTTATTAGTTTTGCCCTGGT
1 GGCTTTATC-AGTTTCGCCCTAGCCAA-CCTTCCAATCTGTTGGTTTTATTGGTTTTGCCCTGCT
* *
4847480 CAACACTTCCAATCTGTTGGCTTTATCAGTTTTG-CCCTGGCCAACCTTCCAATTTGTT
64 -AAC-CTTCCAATCTGTTGGCTTTATCAG-TTTGACCCTGGCCAACCTTCCAATCTATT
* * *
4847538 GGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCTGTTGGTTTTATTGGTTTTGTCCTGACTA
1 GGCTTTATCAGTTTCGCCCTAGCCAACCTTCCAATCTGTTGGTTTTATTGGTTTTGCCCTG-CTA
* ** * * * * * *
4847603 ACTTTTTAATCGGTTAGCTTTATCAGTTTGACCTTTGTCAACCTTTTCAATCTATT
65 ACCTTCCAATCTGTTGGCTTTATCAGTTTGACCCTGGCCAACC-TTCCAATCTATT
* * * ** * *
4847659 GGCTTTATCAATTTTGCCCTAACCAACCTTCCAATCCATTGGCTTTATTTGTTTCT-CCCTAGCT
1 GGCTTTATCAGTTTCGCCCTAGCCAACCTTCCAATCTGTTGGTTTTATTGGTTT-TGCCCT-GCT
* * * * *
4847723 AACCTTCCAAT-TGGTTGGCTTTATCAAATTTG-CCTTGGTCAGCCCTTCCAATCCATT
64 AACCTTCCAATCT-GTTGGCTTTATC-AGTTTGACCCTGGCCA-ACCTTCCAATCTATT
4847780 GGCTTTAT
1 GGCTTTAT
4847788 TTGTTTCTCC
Statistics
Matches: 393, Mismatches: 83, Indels: 34
0.77 0.16 0.07
Matches are distributed among these distances:
119 4 0.01
120 28 0.07
121 254 0.65
122 103 0.26
123 4 0.01
ACGTcount: A:0.19, C:0.27, G:0.14, T:0.40
Consensus pattern (119 bp):
GGCTTTATCAGTTTCGCCCTAGCCAACCTTCCAATCTGTTGGTTTTATTGGTTTTGCCCTGCTAA
CCTTCCAATCTGTTGGCTTTATCAGTTTGACCCTGGCCAACCTTCCAATCTATT
Found at i:4847703 original size:161 final size:162
Alignment explanation
Indices: 4847362--4847746 Score: 413
Period size: 161 Copynumber: 2.4 Consensus size: 162
4847352 CTTGGCTAAC
* * * * *
4847362 CCTTCCAATCTGTTGGCTCTATCGGTTTCACCATGGCCAACCTTCCAATCTATTGGTTTTACTAG
1 CCTTCCAATCTGTTGGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCTGTTGGTTTTATTAG
* * *
4847427 TTTCGCCCTAGTCAACCCTTCAAATCGGTTGATTTTATTAGTTTTGCCCTGGTCAACACTTCCAA
66 TTTCGCCCTACTCAACCCTTCAAATCGGTTGACTTTATCAGTTTTGCCCTGGTCAACACTTCCAA
* * **
4847492 TCTGTTGGCTTTATCAGTTTTGCCCTGGCCAA
131 TCTATTGGCTTTATCAATTTTGCCCTAACCAA
* *
4847524 CCTTCCAATTTGTTGGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCTGTTGGTTTTATTGG
1 CCTTCCAATCTGTTGGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCTGTTGGTTTTATTAG
* * * ** * *
4847589 TTTTGTCCTGACT-AA-CTTTTTAATCGGTT-AGCTTTATCAG-TTTGACCTTTGTCAAC-CTTT
66 TTTCGCCCT-ACTCAACCCTTCAAATCGGTTGA-CTTTATCAGTTTTG-CCCTGGTCAACAC-TT
*
4847649 TCAATCTATTGGCTTTATCAATTTTGCCCTAACCAA
127 CCAATCTATTGGCTTTATCAATTTTGCCCTAACCAA
** ** * * * *
4847685 CCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTAGCTAACCTTCCAAT-TGGTTGGCTTTAT
1 CCTTCCAATCTGTTGGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCT-GTTGGTTTTAT
4847747 CAAATTTGCC
Statistics
Matches: 187, Mismatches: 31, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
160 7 0.04
161 111 0.59
162 67 0.36
163 2 0.01
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (162 bp):
CCTTCCAATCTGTTGGCTTTATCAGTTTCACCCTGGCCAACCTTCCAATCTGTTGGTTTTATTAG
TTTCGCCCTACTCAACCCTTCAAATCGGTTGACTTTATCAGTTTTGCCCTGGTCAACACTTCCAA
TCTATTGGCTTTATCAATTTTGCCCTAACCAA
Found at i:4847753 original size:81 final size:80
Alignment explanation
Indices: 4847657--4847809 Score: 227
Period size: 81 Copynumber: 1.9 Consensus size: 80
4847647 TTTCAATCTA
4847657 TTGGCTTTATCAATTTTGCCCTAACCA-ACCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTAG
1 TTGGCTTTATCAA-TTTGCCCTAACCAGACCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTAG
4847721 CTAACCTTCCAATTGG
65 CTAACCTTCCAATTGG
* *** * *
4847737 TTGGCTTTATCAAATTTGCCTTGGTCAGCCCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTGG
1 TTGGCTTTATC-AATTTGCCCTAACCAGACCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTAG
4847802 CTAACCTT
65 CTAACCTT
4847810 TTAATCGGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 20 0.31
81 45 0.69
ACGTcount: A:0.18, C:0.28, G:0.13, T:0.41
Consensus pattern (80 bp):
TTGGCTTTATCAATTTGCCCTAACCAGACCTTCCAATCCATTGGCTTTATTTGTTTCTCCCTAGC
TAACCTTCCAATTGG
Found at i:4850784 original size:152 final size:150
Alignment explanation
Indices: 4850334--4850787 Score: 498
Period size: 152 Copynumber: 3.0 Consensus size: 150
4850324 TTTTATGCTG
* * *
4850334 AAGGTGTACATTTAGGATGGGTTCATCCCTTTACCTTTTTAAGTCCTTTATGGTTACCGAGATAC
1 AAGGTGTACGTTTAGGATAGGTTCATCCCTTTAACTTTTTAAGT-CTTTA-GGTTACCGAGATAC
* * * * * * *
4850399 TTTTACGTCAAAGTTATCCCCTAGAGGTATTTTAGTAATTTTCCTAAAATCAAGTCTTAAGTCAT
64 TTTTACGTCAAAGGTATCCCATAAAGGCATTTTAGTAATTTTTCTAAAATCAAGTCCTAGGTCAT
* *
4850464 CATCGGGTTCGCTTCTATGCCG
129 CATCGAGTTCGCTTCTATGCCA
* * * * * **
4850486 AAGGCGTATGTATAAGATAGGTTCATCCCTTTATCTTTTTAAGTTCTTTAGGATTATTGAGATAC
1 AAGGTGTACGTTTAGGATAGGTTCATCCCTTTAACTTTTTAAG-TCTTTAGG-TTACCGAGATAC
** * * * * * *
4850551 TTTTACGTCAAAGGTATGTCGTAAGGGCATTTTAGTAATTTTTCTAAAA-CTGAGTCCCAGATCG
64 TTTTACGTCAAAGGTATCCCATAAAGGCATTTTAGTAATTTTTCTAAAATC-AAGTCCTAGGTCA
* *
4850615 TCATCGACTCCGCTTCTATGCCA
128 TCATCGAGTTCGCTTCTATGCCA
**
4850638 AAGGTGTACGTTTAGGATAGGTTCATCTTTTTAACTTTTTAAGTCTTTCAGAGTTACCGAGATAC
1 AAGGTGTACGTTTAGGATAGGTTCATCCCTTTAACTTTTTAAGTCTTT-AG-GTTACCGAGATAC
* * * *
4850703 TTTTATGTCAAAGGTATCCCATAAAAGCATTTTAGTAATTTTTCTAAAATCAAATCCTAGGTTAT
64 TTTTACGTCAAAGGTATCCCATAAAGGCATTTTAGTAATTTTTCTAAAATCAAGTCCTAGGTCAT
*
4850768 CA-CTGAGTTCGTTTCTATGC
129 CATC-GAGTTCGCTTCTATGC
4850788 TGACGGTTGT
Statistics
Matches: 244, Mismatches: 51, Indels: 14
0.79 0.17 0.05
Matches are distributed among these distances:
151 9 0.04
152 232 0.95
153 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.39
Consensus pattern (150 bp):
AAGGTGTACGTTTAGGATAGGTTCATCCCTTTAACTTTTTAAGTCTTTAGGTTACCGAGATACTT
TTACGTCAAAGGTATCCCATAAAGGCATTTTAGTAATTTTTCTAAAATCAAGTCCTAGGTCATCA
TCGAGTTCGCTTCTATGCCA
Found at i:4857982 original size:20 final size:20
Alignment explanation
Indices: 4857959--4858031 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4857949 ACAATTCAAA
4857959 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4857979 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4858000 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4858020 GTATCGATACAT
1 GTATCGATACAT
4858032 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4858003 original size:21 final size:21
Alignment explanation
Indices: 4857977--4858052 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
4857967 ACATGTTGCA
4857977 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4857998 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
4858018 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
4858039 ATGTATCGATACAT
1 ATGTATCGATACAT
4858053 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4858010 original size:41 final size:41
Alignment explanation
Indices: 4857959--4858052 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
4857949 ACAATTCAAA
*
4857959 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
4858000 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
4858041 GTATCGATACAT
1 GTATCGATACAT
4858053 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:4858109 original size:13 final size:13
Alignment explanation
Indices: 4858091--4858116 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4858081 TACAGCAAGT
4858091 ATGTATCGATACA
1 ATGTATCGATACA
4858104 ATGTATCGATACA
1 ATGTATCGATACA
4858117 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4862197 original size:15 final size:15
Alignment explanation
Indices: 4862177--4862207 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4862167 TAAAAATGTC
*
4862177 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
4862192 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
4862207 C
1 C
4862208 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:4864283 original size:13 final size:13
Alignment explanation
Indices: 4864265--4864289 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4864255 GGAAATTCTA
4864265 TGTATCGATACAC
1 TGTATCGATACAC
4864278 TGTATCGATACA
1 TGTATCGATACA
4864290 GGGTGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:4866149 original size:34 final size:34
Alignment explanation
Indices: 4866082--4866177 Score: 178
Period size: 34 Copynumber: 2.9 Consensus size: 34
4866072 AATTTTGATA
4866082 TGAATTACTTGATTAAGGGGGAGA--TTTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTTTTT
4866114 TGAATTACTTGATTAAGGGGGAGATTTTTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTTTTT
4866148 TGAATTACTTGATTAAGGGGGAGATTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTT
4866178 AATAAACGGG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
32 24 0.39
34 38 0.61
ACGTcount: A:0.25, C:0.03, G:0.25, T:0.47
Consensus pattern (34 bp):
TGAATTACTTGATTAAGGGGGAGATTTTTTTTTT
Found at i:4866821 original size:20 final size:20
Alignment explanation
Indices: 4866798--4866866 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
4866788 ACAATTCAAA
4866798 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
4866818 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
4866839 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
4866859 GTATCGAT
1 GTATCGAT
4866867 CCATAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:4866842 original size:21 final size:21
Alignment explanation
Indices: 4866816--4866891 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4866806 ACATGTTGCA
4866816 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
4866837 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
* *
4866857 ATGTATCGATCCATAAAAAAG
1 ATGTATCGATACATGAAAAAG
4866878 ATGTATCGATACAT
1 ATGTATCGATACAT
4866892 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:4866849 original size:41 final size:41
Alignment explanation
Indices: 4866798--4866891 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
4866788 ACAATTCAAA
*
4866798 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
4866839 GTATCGATACATGTTGCAATGTATCGATCCATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
4866880 GTATCGATACAT
1 GTATCGATACAT
4866892 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:4866948 original size:13 final size:13
Alignment explanation
Indices: 4866930--4866955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4866920 TACAGCAAGT
4866930 ATGTATCGATACA
1 ATGTATCGATACA
4866943 ATGTATCGATACA
1 ATGTATCGATACA
4866956 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4868097 original size:10 final size:10
Alignment explanation
Indices: 4868082--4868119 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
4868072 GTGATACGTA
4868082 AACAGTGATG
1 AACAGTGATG
4868092 AACAGTGATG
1 AACAGTGATG
*
4868102 AATAGTGATG
1 AACAGTGATG
*
4868112 AATAGTGA
1 AACAGTGA
4868120 AAATGAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.42, C:0.05, G:0.29, T:0.24
Consensus pattern (10 bp):
AACAGTGATG
Found at i:4869778 original size:13 final size:13
Alignment explanation
Indices: 4869760--4869784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4869750 ACTAAAGCAA
4869760 TGTATCGATACAT
1 TGTATCGATACAT
4869773 TGTATCGATACA
1 TGTATCGATACA
4869785 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4872636 original size:22 final size:22
Alignment explanation
Indices: 4872611--4872654 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4872601 ACATTTTCTC
4872611 TCCTTGCCAAGTATTTGCCACA
1 TCCTTGCCAAGTATTTGCCACA
*
4872633 TCCTTGCCAAGTGTTTGCCACA
1 TCCTTGCCAAGTATTTGCCACA
4872655 ATTCACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (22 bp):
TCCTTGCCAAGTATTTGCCACA
Done.