Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold383
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: 1247277
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.21
Warning! 434286 characters in sequence are not A, C, G, or T
File 2 of 5
Found at i:602182 original size:20 final size:20
Alignment explanation
Indices: 602159--602231 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
602149 ACAATTCAAA
602159 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
602179 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
602200 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
602220 GTATCGATACAT
1 GTATCGATACAT
602232 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:602203 original size:21 final size:21
Alignment explanation
Indices: 602177--602252 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
602167 ACATGTTGCA
602177 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
602198 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
602218 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
602239 ATGTATCGATACAT
1 ATGTATCGATACAT
602253 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:602210 original size:41 final size:41
Alignment explanation
Indices: 602159--602252 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
602149 ACAATTCAAA
*
602159 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
602200 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
602241 GTATCGATACAT
1 GTATCGATACAT
602253 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:602309 original size:13 final size:13
Alignment explanation
Indices: 602291--602316 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
602281 TACAGCAAGT
602291 ATGTATCGATACA
1 ATGTATCGATACA
602304 ATGTATCGATACA
1 ATGTATCGATACA
602317 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:604114 original size:24 final size:24
Alignment explanation
Indices: 604082--604140 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
604072 CACTGTATCA
604082 ATACATGAACAGTGATAAATAGTG
1 ATACATGAACAGTGATAAATAGTG
* *
604106 ATACATGAACAGTTATGAATAGTG
1 ATACATGAACAGTGATAAATAGTG
604130 ATACATGAACA
1 ATACATGAACA
604141 ATGAAGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.46, C:0.10, G:0.19, T:0.25
Consensus pattern (24 bp):
ATACATGAACAGTGATAAATAGTG
Found at i:604338 original size:20 final size:20
Alignment explanation
Indices: 604310--604354 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
604300 TTTATGTATC
604310 GATACAAATACCTATATATT
1 GATACAAATACCTATATATT
* *
604330 GATATAAATACCTATGTATT
1 GATACAAATACCTATATATT
604350 GATAC
1 GATAC
604355 TTTGAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (20 bp):
GATACAAATACCTATATATT
Found at i:608209 original size:20 final size:21
Alignment explanation
Indices: 608184--608222 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
608174 TGTTGATTGC
608184 TTGCTT-TTTCTTC-TTTTTTT
1 TTGCTTCTTT-TTCATTTTTTT
608204 TTGCTTCTTTTTCATTTTT
1 TTGCTTCTTTTTCATTTTT
608223 CCATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.03, C:0.15, G:0.05, T:0.77
Consensus pattern (21 bp):
TTGCTTCTTTTTCATTTTTTT
Found at i:611105 original size:96 final size:97
Alignment explanation
Indices: 611005--611216 Score: 282
Period size: 96 Copynumber: 2.2 Consensus size: 97
610995 CTCTTGAAGG
* * * * *
611005 AATGGGGTTGGAGTATCCCCAACGATGATAATTTAGGCAAAAATAATATTTAAATCGTGATAAGT
1 AATGGGGTTAGAGTATCCCCAACGATGACAATTTAAGCAAAAATAAGATTTAAATCGTGACAAGT
* *
611070 TTAAAAATATA-TTGGAGTATCCCCTCAAAAA
66 TTAAAAACAGAGTTGGAGTATCCCCTCAAAAA
* * *
611101 AATGGGGTTAGAGTATCCCCGATGATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGT
1 AATGGGGTTAGAGTATCCCCAACGATGACAATTTAAGCAAAAATAAGATTTAAATCGTGACAAGT
* * * *
611166 TTGAAAACAGAGTTGGAGTATTCCCTCGAAAG
66 TTAAAAACAGAGTTGGAGTATCCCCTCAAAAA
*
611198 AATGGGATTAGAGTATCCC
1 AATGGGGTTAGAGTATCCC
611217 TTCGGAAAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
96 65 0.65
97 35 0.35
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (97 bp):
AATGGGGTTAGAGTATCCCCAACGATGACAATTTAAGCAAAAATAAGATTTAAATCGTGACAAGT
TTAAAAACAGAGTTGGAGTATCCCCTCAAAAA
Found at i:611211 original size:27 final size:26
Alignment explanation
Indices: 611181--611238 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
611171 AACAGAGTTG
611181 GAGTATTCCC-TCGAAAGAATGGGATTA
1 GAGTATTCCCTTCGAAA-AATGGG-TTA
* *
611208 GAGTA-TCCCTTCGGAAAATGGGTTG
1 GAGTATTCCCTTCGAAAAATGGGTTA
611233 GAGTAT
1 GAGTAT
611239 CCCCATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
25 7 0.26
26 10 0.37
27 10 0.37
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (26 bp):
GAGTATTCCCTTCGAAAAATGGGTTA
Found at i:611227 original size:26 final size:25
Alignment explanation
Indices: 611181--611241 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
611171 AACAGAGTTG
611181 GAGTATTCCCTCGAAAGAATGGGATTA
1 GAGTA-TCCCTCGAAAGAATGGG-TTA
* *
611208 GAGTATCCCTTCGGAA-AATGGGTTG
1 GAGTATCCC-TCGAAAGAATGGGTTA
611233 GAGTATCCC
1 GAGTATCCC
611242 CATGAATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 11 0.35
26 10 0.32
27 10 0.32
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (25 bp):
GAGTATCCCTCGAAAGAATGGGTTA
Found at i:620634 original size:13 final size:13
Alignment explanation
Indices: 620616--620641 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
620606 CAATTTTTTG
620616 TGTATCGATACAT
1 TGTATCGATACAT
620629 TGTATCGATACAT
1 TGTATCGATACAT
620642 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:621390 original size:21 final size:21
Alignment explanation
Indices: 621349--621392 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
621339 CTCCCCTTTA
* *
621349 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
621370 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
621391 TC
1 TC
621393 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:622744 original size:21 final size:20
Alignment explanation
Indices: 622715--622757 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
622705 GGCTAGTGTG
**
622715 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCATGACCT
*
622736 GGGAGTGCCGGTCATGACCT
1 GGGACTGCCGGTCATGACCT
622756 GG
1 GG
622758 TGATGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.26, G:0.42, T:0.21
Consensus pattern (20 bp):
GGGACTGCCGGTCATGACCT
Found at i:623223 original size:20 final size:20
Alignment explanation
Indices: 623198--623249 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
623188 ATAATCACCC
* *
623198 TGTATCGATACAATA-TACAA
1 TGTATCGATACAA-AGAAAAA
623218 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
623238 TGTATCGATACA
1 TGTATCGATACA
623250 TTGAATTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:623443 original size:8 final size:8
Alignment explanation
Indices: 623430--623455 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
623420 AGCATCATTC
623430 ATCACAAA
1 ATCACAAA
623438 ATCACAAA
1 ATCACAAA
623446 ATCACAAA
1 ATCACAAA
623454 AT
1 AT
623456 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:627173 original size:21 final size:21
Alignment explanation
Indices: 627144--627188 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
627134 AAGTTTTCAT
*
627144 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
627164 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
627186 TTT
1 TTT
627189 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:629420 original size:13 final size:13
Alignment explanation
Indices: 629402--629427 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
629392 CAATTTTTTG
629402 TGTATCGATACAT
1 TGTATCGATACAT
629415 TGTATCGATACAT
1 TGTATCGATACAT
629428 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:630339 original size:43 final size:43
Alignment explanation
Indices: 630290--630375 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
630280 TTCGAATATG
630290 CATATGTTGAAATTTATACAATCGATAGTGAGTAAAGTCAACC
1 CATATGTTGAAATTTATACAATCGATAGTGAGTAAAGTCAACC
630333 CATATGTTGAAATTTATACAATCGATAGTGAGTAAAGTCAACC
1 CATATGTTGAAATTTATACAATCGATAGTGAGTAAAGTCAACC
630376 AAATTTATTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (43 bp):
CATATGTTGAAATTTATACAATCGATAGTGAGTAAAGTCAACC
Found at i:630846 original size:20 final size:20
Alignment explanation
Indices: 630802--630855 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 20
630792 CTACCACTGT
630802 TTGTATCGATACATTTCACCA
1 TTGTATCGATACATTTCA-CA
*
630823 -TGTATCGATACATTATGA-A
1 TTGTATCGATACATT-TCACA
630842 TTGTATCGATACAT
1 TTGTATCGATACAT
630856 AGGAGCGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 27 0.90
21 2 0.07
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATTTCACA
Found at i:632226 original size:52 final size:51
Alignment explanation
Indices: 632191--632308 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 51
632181 ATTAATAAAG
*
632191 GTATCAATACATTTAGG-TCAAAAACCCAGAATGTATCGATACGATAAAAAAT
1 GTATCGATACATTT-GGATCAAAAACCCAGAATGTATCGATAC-ATAAAAAAT
*
632243 GTATCGATACATTTGGATCAAAAACCTAGAATGTATCGATACAATAAAAAAT
1 GTATCGATACATTTGGATCAAAAACCCAGAATGTATCGATAC-ATAAAAAAT
632295 GTATCGATACATTT
1 GTATCGATACATTT
632309 TCTTTCTAGA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
51 2 0.03
52 60 0.97
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (51 bp):
GTATCGATACATTTGGATCAAAAACCCAGAATGTATCGATACATAAAAAAT
Found at i:632834 original size:85 final size:84
Alignment explanation
Indices: 632670--632855 Score: 241
Period size: 85 Copynumber: 2.2 Consensus size: 84
632660 GGTAGTCAAG
* * *
632670 TCAACAAAGGATGAAAAGGGTTACCCGAGACTAAGCCGATAGGTAAACAAAGGATACAAAAGTTG
1 TCAACAAAGGAT-AAAAGGGTTACCCAAGACTAAGCAGATAGGCAAACAAAGGATACAAAAGTTG
* * *
632735 CTTGGGATTGAATTGACAAA
65 CTTGAGAATAAATTGACAAA
* *
632755 TCAACAAAGGATAAAAGGATTTACCCAAGACTAAGTAGATAGGCAAACAAAGGATA-AAAAGGTT
1 TCAACAAAGGATAAAAGG-GTTACCCAAGACTAAGCAGATAGGCAAACAAAGGATACAAAA-GTT
*
632819 GAC-TGAGAATAAATTGACAAG
64 G-CTTGAGAATAAATTGACAAA
632840 TCAACAAAGGATAAAA
1 TCAACAAAGGATAAAA
632856 AGTGATACCT
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
84 10 0.11
85 78 0.88
86 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (84 bp):
TCAACAAAGGATAAAAGGGTTACCCAAGACTAAGCAGATAGGCAAACAAAGGATACAAAAGTTGC
TTGAGAATAAATTGACAAA
Found at i:633039 original size:35 final size:35
Alignment explanation
Indices: 632999--633172 Score: 120
Period size: 35 Copynumber: 4.7 Consensus size: 35
632989 AACCATCATC
632999 TCAAATGATAATGAAAAGAGTTTGACCAAGTATAG
1 TCAAATGATAATGAAAAGAGTTTGACCAAGTATAG
* *
633034 TCAAATGAGAATGAAAAGATGTTTGACTAAGGCGATAACCATCATG
1 TCAAATGATAATGAAAAGA-GTTTGACCAA---G-T----AT-A-G
*
633080 TCAAACTG-TAATG-AAAGGGTTTGACCAAGTATAG
1 TCAAA-TGATAATGAAAAGAGTTTGACCAAGTATAG
* * * * *
633114 TCAAACAGGT-ATGAAAAGGGTTTAATCAAGTATAG
1 TCAAA-TGATAATGAAAAGAGTTTGACCAAGTATAG
*
633149 TCAAATGAGAATGAAAAGATGTTT
1 TCAAATGATAATGAAAAGA-GTTT
633173 AACTAGGGCA
Statistics
Matches: 111, Mismatches: 12, Indels: 31
0.72 0.08 0.20
Matches are distributed among these distances:
34 12 0.11
35 52 0.47
36 15 0.14
39 1 0.01
40 2 0.02
41 1 0.01
44 11 0.10
45 5 0.05
46 10 0.09
47 2 0.02
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.26
Consensus pattern (35 bp):
TCAAATGATAATGAAAAGAGTTTGACCAAGTATAG
Found at i:633051 original size:80 final size:80
Alignment explanation
Indices: 632954--633119 Score: 221
Period size: 80 Copynumber: 2.1 Consensus size: 80
632944 AACTATCATA
* *
632954 TCAAACGAAAATGAAAAGA-GTTTGA-TGAGGGTGAGAACCATCATCTCAAA-TGATAATGAAAA
1 TCAAACGAAAATGAAAAGATGTTTGACT-AAGGCGAGAACCATCATCTCAAACTG-TAATG-AAA
633016 GAGTTTGACCAAGTATAG
63 GAGTTTGACCAAGTATAG
* * * * *
633034 TCAAATGAGAATGAAAAGATGTTTGACTAAGGCGATAACCATCATGTCAAACTGTAATGAAAGGG
1 TCAAACGAAAATGAAAAGATGTTTGACTAAGGCGAGAACCATCATCTCAAACTGTAATGAAAGAG
633099 TTTGACCAAGTATAG
66 TTTGACCAAGTATAG
633114 TCAAAC
1 TCAAAC
633120 AGGTATGAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
80 42 0.56
81 30 0.40
82 3 0.04
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (80 bp):
TCAAACGAAAATGAAAAGATGTTTGACTAAGGCGAGAACCATCATCTCAAACTGTAATGAAAGAG
TTTGACCAAGTATAG
Found at i:633215 original size:46 final size:46
Alignment explanation
Indices: 633157--633245 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
633147 AGTCAAATGA
*
633157 GAATGAAAAGATGTTTAACTAGGGCAAAAACCATCATGTCAAAAAT
1 GAATGAAAAGATGTTTAACCAGGGCAAAAACCATCATGTCAAAAAT
*
633203 GAATGAAAAGATGTTTAACCAGGGCGAAAACCATCATGTCAAA
1 GAATGAAAAGATGTTTAACCAGGGCAAAAACCATCATGTCAAA
633246 CAGTAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.20
Consensus pattern (46 bp):
GAATGAAAAGATGTTTAACCAGGGCAAAAACCATCATGTCAAAAAT
Found at i:633416 original size:80 final size:80
Alignment explanation
Indices: 633204--633431 Score: 264
Period size: 81 Copynumber: 2.8 Consensus size: 80
633194 GTCAAAAATG
* *
633204 AATGAAAAGATGTTTAACCAGGGCGAAAACCATCATGTCAAACAGTAA-AAAAATTG-GTTTGAC
1 AATGGAAAGATGTTTAACCAGGGC-AAAACCATCATGTCAAACAGTAATGAAAA--GAGTTTGAC
* * *
633267 TAGGTACAGTCAAACGAG
63 TAGGTACAATCAAACAAA
* * * * **
633285 AATGGAAATATGTTTGACTAGAGGGAAAACCATCATGTCAAATGGTAATGAAAAGAGTTTGACTA
1 AATGGAAAGATGTTTAACCAG-GGCAAAACCATCATGTCAAACAGTAATGAAAAGAGTTTGACTA
*
633350 GGTACAATTAAACAAA
65 GGTACAATCAAACAAA
* *
633366 AATGGAAAGAT-TTAAACCAGGGCAAGAACCATCATGTCAAACAGTAATGAAAAGAGTTTAACTA
1 AATGGAAAGATGTTTAACCAGGGCAA-AACCATCATGTCAAACAGTAATGAAAAGAGTTTGACTA
633430 GG
65 GG
633432 ATAAGAGCCA
Statistics
Matches: 123, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
79 4 0.03
80 44 0.36
81 69 0.56
82 6 0.05
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (80 bp):
AATGGAAAGATGTTTAACCAGGGCAAAACCATCATGTCAAACAGTAATGAAAAGAGTTTGACTAG
GTACAATCAAACAAA
Found at i:635994 original size:113 final size:112
Alignment explanation
Indices: 635568--636096 Score: 643
Period size: 111 Copynumber: 4.8 Consensus size: 112
635558 GATCGGGTCA
* * * *
635568 TATAAAATATGAATTCTTTTGAAAATCAAACAAATTTGAT-TCCTTTATCTCAAAAATTTTAAAA
1 TATAAAATATGAATTTTTTTGAAAATCAAACAAATTTGATAT-CGTTGTCTCAAAAATTTCAAAA
* *
635632 CTGATAGGATACATGCCTTATTTT-CTAGGCACGAATAGATCAAGTTG
65 CTGATAGGATACATGCCTTATTTTCCTAGGCACAAATGGATCAAGTTG
* * *
635679 TATAAAAT-TG-ATTTTTTTAAAAATCAGACAAATTTGATATCATTGTCTCAAAAATTTCAAAAC
1 TATAAAATATGAATTTTTTTGAAAATCAAACAAATTTGATATCGTTGTCTCAAAAATTTCAAAAC
** ** *
635742 TGATAGGATATGTGCCCCATTTTCCTAGGCAAAAATGGATCAAGTTG
66 TGATAGGATACATGCCTTATTTTCCTAGGCACAAATGGATCAAGTTG
* * * * *
635789 TATAAAATATGATTTTTTTTTAAAATCAGACAAATTTGATGTTGTT-TCTCAAAAATTTCAAAAC
1 TATAAAATATGAATTTTTTTGAAAATCAAACAAATTTGATATCGTTGTCTCAAAAATTTCAAAAC
* * * *
635853 TAATAGGATACATGTCTTATTTTCCTAGGCACAAATGGATCATGTCG
66 TGATAGGATACATGCCTTATTTTCCTAGGCACAAATGGATCAAGTTG
* * *
635900 TATAAAATATGAAATTTTTTTGAAAATGAAACAAATTTGATGTCGTTGTCTCAAAAATTTAAAAA
1 TATAAAATATG-AATTTTTTTGAAAATCAAACAAATTTGATATCGTTGTCTCAAAAATTTCAAAA
* * * * *
635965 TTGATTGGATACATGCCCTATTTTCCTAGGCATAAATGGATCAAATTG
65 CTGATAGGATACATGCCTTATTTTCCTAGGCACAAATGGATCAAGTTG
* *
636013 TATACAATATGAA-ATTTTTG--AAT-AAAC----TTGATATCGTTGTCTCAAAAATTTCAAAAC
1 TATAAAATATGAATTTTTTTGAAAATCAAACAAATTTGATATCGTTGTCTCAAAAATTTCAAAAC
*
636070 TAATAGGATACATGCCTTATTTTCCTA
66 TGATAGGATACATGCCTTATTTTCCTA
636097 TGGATCAGGT
Statistics
Matches: 362, Mismatches: 50, Indels: 19
0.84 0.12 0.04
Matches are distributed among these distances:
104 51 0.14
108 4 0.01
109 67 0.19
110 31 0.09
111 83 0.23
112 61 0.17
113 65 0.18
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (112 bp):
TATAAAATATGAATTTTTTTGAAAATCAAACAAATTTGATATCGTTGTCTCAAAAATTTCAAAAC
TGATAGGATACATGCCTTATTTTCCTAGGCACAAATGGATCAAGTTG
Found at i:635996 original size:224 final size:219
Alignment explanation
Indices: 635568--636096 Score: 635
Period size: 224 Copynumber: 2.4 Consensus size: 219
635558 GATCGGGTCA
* * *
635568 TATAAAATATGAATTCTTTTGAAAATCAAACAAATTTGATTCCT-TTATCTCAAAAATTTTAAAA
1 TATAAAATATG-ATTATTTTTAAAATC-AACAAATTTGATT--TGTTATCTCAAAAATTTCAAAA
* * *
635632 CTGATAGGATACATGCCTTATTTT-CTAGGCACGAATAGATCAAGTTGTATAAAATTGATTTTTT
62 CTAATAGGATACATGCCTTATTTTCCTAGGCACAAATAGATCAAGTCGTATAAAATTGATTTTTT
* * **
635696 TAAAAATCAGACAAATTTGATATCATTGTCTCAAAAATTTCAAAACTGATAGGATATGTGCCCCA
127 TAAAAATCAAACAAATTTGATATCATTGTCTCAAAAATTTAAAAACTGATAGGATACATGCCCCA
*
635761 TTTTCCTAGGCAAAAATGGATCAAGTTG
192 TTTTCCTAGGCAAAAATGGATCAAATTG
*
635789 TATAAAATATGATTTTTTTTTAAAATCAGACAAATTTGATGTTGTT-TCTCAAAAATTTCAAAAC
1 TATAAAATATGA-TTATTTTTAAAATCA-ACAAATTTGAT-TTGTTATCTCAAAAATTTCAAAAC
* * *
635853 TAATAGGATACATGTCTTATTTTCCTAGGCACAAATGGATCATGTCGTATAAAATATGAAATTTT
63 TAATAGGATACATGCCTTATTTTCCTAGGCACAAATAGATCAAGTCGTATAAAAT-TG--ATTTT
* * * * * *
635918 TTTGAAAATGAAACAAATTTGATGTCGTTGTCTCAAAAATTTAAAAATTGATTGGATACATGCCC
125 TTTAAAAATCAAACAAATTTGATATCATTGTCTCAAAAATTTAAAAACTGATAGGATACATGCCC
* *
635983 TATTTTCCTAGGCATAAATGGATCAAATTG
190 CATTTTCCTAGGCAAAAATGGATCAAATTG
* * * * * *
636013 TATACAATATGA-AATTTTT-GAAT----AAACTTGATATCGTTGTCTCAAAAATTTCAAAACTA
1 TATAAAATATGATTATTTTTAAAATCAACAAATTTGAT-TTGTTATCTCAAAAATTTCAAAACTA
636072 ATAGGATACATGCCTTATTTTCCTA
65 ATAGGATACATGCCTTATTTTCCTA
636097 TGGATCAGGT
Statistics
Matches: 269, Mismatches: 30, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
216 12 0.04
217 44 0.16
220 41 0.15
221 66 0.25
222 8 0.03
224 98 0.36
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (219 bp):
TATAAAATATGATTATTTTTAAAATCAACAAATTTGATTTGTTATCTCAAAAATTTCAAAACTAA
TAGGATACATGCCTTATTTTCCTAGGCACAAATAGATCAAGTCGTATAAAATTGATTTTTTTAAA
AATCAAACAAATTTGATATCATTGTCTCAAAAATTTAAAAACTGATAGGATACATGCCCCATTTT
CCTAGGCAAAAATGGATCAAATTG
Found at i:638850 original size:21 final size:21
Alignment explanation
Indices: 638826--638878 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
638816 TTTTACAATT
* **
638826 TGTATTGATACAATTGGTGAA
1 TGTATCGATACAATAAGTGAA
638847 TGTATCGATAC-ATAAGTGAA
1 TGTATCGATACAATAAGTGAA
638867 TGTATCGATACA
1 TGTATCGATACA
638879 TCTTTGAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATAAGTGAA
Found at i:638886 original size:20 final size:20
Alignment explanation
Indices: 638842--638879 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
638832 GATACAATTG
638842 GTGAATGTATCGATACATAA
1 GTGAATGTATCGATACATAA
638862 GTGAATGTATCGATACAT
1 GTGAATGTATCGATACAT
638880 CTTTGAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
GTGAATGTATCGATACATAA
Found at i:638993 original size:51 final size:52
Alignment explanation
Indices: 638935--639072 Score: 188
Period size: 52 Copynumber: 2.7 Consensus size: 52
638925 TCTGGAAGGA
* * * *
638935 AAATGTATCGATATATTTTTCATTGTATCAATACATTCT-GGGTTTTGACTC
1 AAATGTATCGATAAATTCTTCATTGTATCGATACATTCTAGGGTTTTGACCC
* * *
638986 AAATGTATTGATAAATTCTTCATTGTATTGATACATTCTAGGTTTTTGACCC
1 AAATGTATCGATAAATTCTTCATTGTATCGATACATTCTAGGGTTTTGACCC
* *
639038 AAATGTATCGATACATTCTTCAATGTATCGATACA
1 AAATGTATCGATAAATTCTTCATTGTATCGATACA
639073 CATAGGTAAA
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
51 34 0.45
52 41 0.55
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (52 bp):
AAATGTATCGATAAATTCTTCATTGTATCGATACATTCTAGGGTTTTGACCC
Found at i:643611 original size:16 final size:17
Alignment explanation
Indices: 643568--643612 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
643558 AGTCAAATAC
643568 AAAAGCACAAAAAAATGA
1 AAAAGCA-AAAAAAATGA
643586 AAAATG-AAAAAAAA-GA
1 AAAA-GCAAAAAAAATGA
643602 AAAAGCAAAAA
1 AAAAGCAAAAA
643613 TAAAAAAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 1 0.04
16 11 0.44
17 7 0.28
18 5 0.20
19 1 0.04
ACGTcount: A:0.78, C:0.07, G:0.11, T:0.04
Consensus pattern (17 bp):
AAAAGCAAAAAAAATGA
Found at i:643639 original size:12 final size:12
Alignment explanation
Indices: 643622--643646 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
643612 ATAAAAAAGT
643622 ACAAAGGCAAAA
1 ACAAAGGCAAAA
643634 ACAAAGGCAAAA
1 ACAAAGGCAAAA
643646 A
1 A
643647 AGGGAACAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.16, G:0.16, T:0.00
Consensus pattern (12 bp):
ACAAAGGCAAAA
Found at i:647241 original size:52 final size:52
Alignment explanation
Indices: 647161--647280 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
647151 AAAAGTTACT
* *
647161 TGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
647213 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
647265 TGCATGTATCGATACA
1 TGCATGTATCGATACA
647281 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:647293 original size:52 final size:52
Alignment explanation
Indices: 647161--647300 Score: 185
Period size: 52 Copynumber: 2.7 Consensus size: 52
647151 AAAAGTTACT
* *
647161 TGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAGATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
647213 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*
647265 TGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
647301 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:647307 original size:13 final size:13
Alignment explanation
Indices: 647289--647313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
647279 CAAAGATCGG
647289 TGTATCGATACAA
1 TGTATCGATACAA
647302 TGTATCGATACA
1 TGTATCGATACA
647314 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:647395 original size:33 final size:33
Alignment explanation
Indices: 647353--647422 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
647343 GGCAGTAGCT
647353 TACATTGTATCGATACAAAAAAATATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
* ***
647386 TACATTGTATCGATACAACATTTTATGTATCGA
1 TACATTGTATCGATACAAAAAAATATGTATCGA
647419 TACA
1 TACA
647423 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.34
Consensus pattern (33 bp):
TACATTGTATCGATACAAAAAAATATGTATCGA
Found at i:647396 original size:13 final size:13
Alignment explanation
Indices: 647378--647402 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
647368 CAAAAAAATA
647378 TGTATCGATACAT
1 TGTATCGATACAT
647391 TGTATCGATACA
1 TGTATCGATACA
647403 ACATTTTATG
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:648534 original size:49 final size:49
Alignment explanation
Indices: 648277--649037 Score: 996
Period size: 49 Copynumber: 15.7 Consensus size: 49
648267 AAAAGGATGT
*
648277 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
648329 CGATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
648372 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG-GGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
648420 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
648468 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
648517 CAATGTGCTGAGTCAAGGCTAGCTACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
648566 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
648615 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
648664 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
648713 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
648762 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
648814 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
648857 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG-GGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
648905 CAATGTGCTGATTCAAGGCCAGCTACGTTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
648953 CAATGTGCTGATTCAAAGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
649002 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
649038 GAAGGGTTGC
Statistics
Matches: 632, Mismatches: 60, Indels: 37
0.87 0.08 0.05
Matches are distributed among these distances:
43 77 0.12
48 185 0.29
49 299 0.47
50 1 0.00
52 70 0.11
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:649081 original size:33 final size:33
Alignment explanation
Indices: 649037--649108 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 33
649027 TATTGGGCTT
*
649037 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* *
649070 AGAATGGTTGCCACCAACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
649103 A-AAGGG
1 AGAAGGG
649109 AAAAAGAGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
32 4 0.11
33 31 0.89
ACGTcount: A:0.21, C:0.17, G:0.36, T:0.26
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:649197 original size:34 final size:34
Alignment explanation
Indices: 649108--649339 Score: 319
Period size: 34 Copynumber: 6.9 Consensus size: 34
649098 TTTGGAAAGG
*
649108 GAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
*
649143 GAAAAAGTGTGCCACAGAGTTGTGGGCTTTAAAAA
1 GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA
* *
649178 GAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGAT
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AA
* *
649212 GAAAAAAGTGCCACGGAGTTGTGGGCTTT-GAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
*
649245 GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
*
649279 GAAGAAGGTGCCACGGAGTTGTGGGCTTT--AAA
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
* *
649311 GGAAAAGGTGCCACGAAGTTGTGGGCTTT
1 GAAAAAGGTGCCACGGAGTTGTGGGCTTT
649340 GAAGAAAAAA
Statistics
Matches: 180, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
32 29 0.16
33 34 0.19
34 74 0.41
35 43 0.24
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.22
Consensus pattern (34 bp):
GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
Found at i:649267 original size:67 final size:67
Alignment explanation
Indices: 649091--649434 Score: 334
Period size: 67 Copynumber: 5.2 Consensus size: 67
649081 CACCAACTTG
* * *
649091 TGTGGGCTTTGGAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCC
1 TGTGGGCTTT-GAAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAA-AGTGCC
*
649156 ACAGAGT
61 ACGGAGT
* *
649163 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACG
1 TGTGGGCTTT-GAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA-GAAAAAAGTGCCACG
649227 GAGT
64 GAGT
* *
649231 TGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA-AGAAGAAGGTGCCACGG
1 TGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAGAGAAAAAAGTGCCACGG
649295 AGT
65 AGT
* * * *
649298 TGTGGGCTTT-AAAGGAAAAGGTGCCACGAAGTTGTGGGCTTT-GA-AGAAAAAA-TGCCACTGA
1 TGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAAAGTGCCACGGA
649359 GT
66 GT
* * * * * * *
649361 CGTGGACTTTG--AGACAAAA--TGCCACTGAGTCGTGGACTTTAAAG-GAAAAGA-TGCCACTG
1 TGTGGGCTTTGAAAGA-AAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAAAGTGCCACGG
649420 AGT
65 AGT
* *
649423 CGTGGACTTTGA
1 TGTGGGCTTTGA
649435 GCAGAGATTG
Statistics
Matches: 238, Mismatches: 26, Indels: 25
0.82 0.09 0.09
Matches are distributed among these distances:
61 17 0.07
62 31 0.13
63 22 0.09
64 7 0.03
66 30 0.13
67 55 0.23
68 30 0.13
69 26 0.11
70 7 0.03
72 13 0.05
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (67 bp):
TGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAGAAAAAAGTGCCACGGA
GT
Found at i:649279 original size:101 final size:100
Alignment explanation
Indices: 649107--649434 Score: 370
Period size: 101 Copynumber: 3.3 Consensus size: 100
649097 CTTTGGAAAG
* *
649107 GGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTT
1 GGAAAAA-AGTGCCACGGAGTTGTGGGCTTT-GAAAGAAAAAG-GTGCCACAGAGTTGTGGGCTT
*
649172 TAAAAAGAAAAAGGTGCCACGGAGTTGTGGAC-TTAAA
63 TGAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAA
*
649209 GATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 G--GAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTT
* *
649274 GAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAA
64 GAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAA
* * * * * *
649311 GG-AAAAGGTGCCACGAAGTTGTGGGCTTTG-AAGAAAAA-ATGCCACTGAGTCGTGGACTTTG-
1 GGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGA
* *
649372 --AGACAAAA--TGCCACTGAGTCGTGGACTTTAAA
66 AAAGA-AAAAGGTGCCACGGAGTTGTGGACTTTAAA
* * * *
649404 GGAAAAGA-TGCCACTGAGTCGTGGACTTTGA
1 GGAAAAAAGTGCCACGGAGTTGTGGGCTTTGA
649435 GCAGAGATTG
Statistics
Matches: 198, Mismatches: 22, Indels: 20
0.82 0.09 0.08
Matches are distributed among these distances:
93 41 0.21
94 6 0.03
95 3 0.02
97 19 0.10
98 8 0.04
99 26 0.13
100 1 0.01
101 49 0.25
102 17 0.09
103 22 0.11
104 6 0.03
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (100 bp):
GGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGAAAAAGGTGCCACAGAGTTGTGGGCTTTGA
AAAGAAAAAGGTGCCACGGAGTTGTGGACTTTAAA
Found at i:649324 original size:32 final size:33
Alignment explanation
Indices: 649091--649432 Score: 279
Period size: 34 Copynumber: 10.3 Consensus size: 33
649081 CACCAACTTG
* *
649091 TGTGGGCTTTGGAAAGGGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTTT--AAAAGG-AAAAG-GTGCCACGGAGT
* *
649128 TGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGT
1 TGTGGGCTTT-AAAAGGAAAAG-GTGCCACGGAGT
*
649163 TGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAGGTGCCACGGAGT
* * *
649197 TGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGT
1 TGTGGGCTTTAAA-A-GGAAAAGGTGCCACGGAGT
* *
649231 TGTGGGCTTTGAAAGAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGT
649264 TGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAA-AAGGTGCCACGGAGT
*
649298 TGTGGGCTTT-AAAGGAAAAGGTGCCACGAAGT
1 TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGT
* ** *
649330 TGTGGGCTTT-GAA-GAAAAAATGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGT
* * * * * *
649361 CGTGGACTTTGAGA-CAAAA--TGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGT
* * * *
649391 CGTGGACTTT-AAAGGAAAAGATGCCACTGAGT
1 TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGT
* *
649423 CGTGGACTTT
1 TGTGGGCTTT
649433 GAGCAGAGAT
Statistics
Matches: 270, Mismatches: 25, Indels: 25
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.01
30 25 0.09
31 22 0.08
32 58 0.21
33 36 0.13
34 70 0.26
35 43 0.16
36 4 0.01
37 10 0.04
ACGTcount: A:0.32, C:0.13, G:0.32, T:0.22
Consensus pattern (33 bp):
TGTGGGCTTTAAAAGGAAAAGGTGCCACGGAGT
Found at i:649415 original size:62 final size:61
Alignment explanation
Indices: 649331--649494 Score: 215
Period size: 62 Copynumber: 2.6 Consensus size: 61
649321 CCACGAAGTT
* *
649331 GTGGGCTTTGAAGAAAAAATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGAGTC
1 GTGGACTTT-AAGAAAAGATGCCACTGAGTCGTGGACTTTGAG-CAGAGAATGCCACTGAGTC
*
649392 GTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTGCCACTGAGTC
1 GTGGACTTT-AA-GAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
* * *
649455 GTGGACTTTGAGAAGAGATTGCCACTGAGTCATGGACTTT
1 GTGGACTTTAAGAAAAGA-TGCCACTGAGTCGTGGACTTT
649495 AAAAAGGTAT
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
61 18 0.20
62 52 0.57
63 22 0.24
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (61 bp):
GTGGACTTTAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGAATGCCACTGAGTC
Found at i:649433 original size:93 final size:92
Alignment explanation
Indices: 649186--649497 Score: 297
Period size: 93 Copynumber: 3.3 Consensus size: 92
649176 AAGAAAAAGG
* *
649186 TGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAGTTGTGGGCTTTGAAAGAAAA
1 TGCCACGGAGTCGTGGACTTTAAAG--GAAAAGA-TGCCAC-GAGTTGTGGGCTTTG-AAGAAAA
* * * * *
649250 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAA
61 A-ATGCCACTGAGTCGTGGACTTTG-AGA-AAGAA
* * *
649285 GGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGAAGTTGTGGGCTTTGAAGAAAAAA
1 --TGCCACGGAGTCGTGGACTTTAAAGGAAAAGATGCCACG-AGTTGTGGGCTTTGAAGAAAAAA
649350 TGCCACTGAGTCGTGGACTTTGAGACAA-AA
63 TGCCACTGAGTCGTGGACTTTGAGA-AAGAA
* * * * * *
649380 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGATGCCACTGAGTCGTGGACTTTG-AGCAGAGATT
1 TGCCACGGAGTCGTGGACTTTAAAGGAAAAGATGCCAC-GAGTTGTGGGCTTTGAAG-AAAAAAT
*
649444 GCCACTGAGTCGTGGACTTTGAGAAGAGAT
64 GCCACTGAGTCGTGGACTTTGAGAA-AGAA
* *
649474 TGCCACTGAGTCATGGACTTTAAA
1 TGCCACGGAGTCGTGGACTTTAAA
649498 AAGGTATTTG
Statistics
Matches: 185, Mismatches: 20, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
92 3 0.02
93 75 0.41
94 25 0.14
95 2 0.01
96 4 0.02
97 19 0.10
98 9 0.05
99 20 0.11
100 5 0.03
101 17 0.09
102 6 0.03
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.23
Consensus pattern (92 bp):
TGCCACGGAGTCGTGGACTTTAAAGGAAAAGATGCCACGAGTTGTGGGCTTTGAAGAAAAAATGC
CACTGAGTCGTGGACTTTGAGAAAGAA
Found at i:649450 original size:31 final size:31
Alignment explanation
Indices: 649350--649494 Score: 197
Period size: 31 Copynumber: 4.7 Consensus size: 31
649340 GAAGAAAAAA
*
649350 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
649380 TGCCACTGAGTCGTGGACTTTAAAGGAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GA-GAAGAGAT
*
649412 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
649443 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
649474 TGCCACTGAGTCATGGACTTT
1 TGCCACTGAGTCGTGGACTTT
649495 AAAAAGGTAT
Statistics
Matches: 104, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
30 26 0.25
31 53 0.51
32 24 0.23
33 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:650529 original size:17 final size:17
Alignment explanation
Indices: 650507--650544 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
650497 CTCACCGAGA
*
650507 TTTTCTGTTTTGTTTTT
1 TTTTCTGTTTTCTTTTT
*
650524 TTTTCTTTTTTCTTTTT
1 TTTTCTGTTTTCTTTTT
650541 TTTT
1 TTTT
650545 TGTGTTTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.08, G:0.05, T:0.87
Consensus pattern (17 bp):
TTTTCTGTTTTCTTTTT
Found at i:652789 original size:64 final size:59
Alignment explanation
Indices: 652673--652866 Score: 171
Period size: 59 Copynumber: 3.2 Consensus size: 59
652663 CCAAATCTTT
* * * * *
652673 TTCTCAAAGTTCAC-ACTTAGTGGCATCCCCTT-TTAAAGTCCACGACCCAGTGGCTGGCATCCT
1 TTCTTAAAGTCCACGACTTAGTGGCAT-CTCTTCTCAAAGTCCACGACCCA---G-TGGCA-CCC
* * **
652736 TTCTTAAAGTCCATGACTTAGTGGCATCTCTTCTCAAAGTCCACGGCTTAGTGGCACCC
1 TTCTTAAAGTCCACGACTTAGTGGCATCTCTTCTCAAAGTCCACGACCCAGTGGCACCC
* * * *
652795 TTCTTAAAGTCCACGATTTAGTGGCATCTCTTC-CAAAGTCCACAACTCAGTGGCATCTC
1 TTCTTAAAGTCCACGACTTAGTGGCATCTCTTCTCAAAGTCCACGACCCAGTGGCA-CCC
*
652854 TTC-CAAAGTCCAC
1 TTCTTAAAGTCCAC
652867 AACTCTGTGG
Statistics
Matches: 112, Mismatches: 16, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
58 28 0.25
59 38 0.34
60 5 0.04
61 1 0.01
63 15 0.13
64 25 0.22
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.29
Consensus pattern (59 bp):
TTCTTAAAGTCCACGACTTAGTGGCATCTCTTCTCAAAGTCCACGACCCAGTGGCACCC
Found at i:652807 original size:29 final size:30
Alignment explanation
Indices: 652673--652895 Score: 181
Period size: 29 Copynumber: 7.4 Consensus size: 30
652663 CCAAATCTTT
*
652673 TTCTCAAAGTTCAC-ACTTAGTGGCATCCCC
1 TTCTCAAAGTCCACGACTTAGTGGCAT-CCC
* * * *
652703 TT-TTAAAGTCCACGACCCAGTGGCTGGCATCCT
1 TTCTCAAAGTCCACGA--C-TTAG-TGGCATCCC
* * *
652736 TTCTTAAAGTCCATGACTTAGTGGCATCTC
1 TTCTCAAAGTCCACGACTTAGTGGCATCCC
*
652766 TTCTCAAAGTCCACGGCTTAGTGGCA-CCC
1 TTCTCAAAGTCCACGACTTAGTGGCATCCC
* * *
652795 TTCTTAAAGTCCACGATTTAGTGGCATCTC
1 TTCTCAAAGTCCACGACTTAGTGGCATCCC
* * *
652825 TTC-CAAAGTCCACAACTCAGTGGCATCTC
1 TTCTCAAAGTCCACGACTTAGTGGCATCCC
*
652854 TTC-CAAAGTCCACAACTCT-GTGGCA-CCC
1 TTCTCAAAGTCCACGACT-TAGTGGCATCCC
*
652882 TTTTTCAAAGTCCA
1 -TTCTCAAAGTCCA
652896 TAACTCTGTG
Statistics
Matches: 158, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
28 2 0.01
29 81 0.51
30 47 0.30
31 2 0.01
32 2 0.01
33 6 0.04
34 18 0.11
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTTAGTGGCATCCC
Found at i:652892 original size:88 final size:87
Alignment explanation
Indices: 652741--652987 Score: 250
Period size: 88 Copynumber: 2.8 Consensus size: 87
652731 ATCCTTTCTT
** * ** *
652741 AAAGTCCATGACTTAGTGGCATCTCTTCTCAAAGTCCACGGCT-TAGTGGCACCCTTCTTAAAGT
1 AAAGTCCACAACTCAGTGGCATCTCTTC-CAAAGTCCACAACTCT-GTGGCACCCTTTTTAAAGT
* *
652805 CCACGA-TTTAGTGGCATCTCTTCC
64 CCACAACTCT-GTGGCATCTCTTCC
652829 AAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCTGTGGCACCCTTTTTCAAAGTC
1 AAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCTGTGGCACCCTTTTT-AAAGTC
* **
652894 CATAACTCTGTGGCATCTCTTTT
65 CACAACTCTGTGGCATCTCTTCC
* * * * ** **
652917 AACGTCCGCAACTCCGTGGCACCT-TTGTAAAGTCCACAACTCCATGGCACCCATTTTT-AAGTC
1 AAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCTGTGGCACCC-TTTTTAAAGTC
652980 CACAACTC
65 CACAACTC
652988 CATGGCACCC
Statistics
Matches: 135, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
86 12 0.09
87 49 0.36
88 72 0.53
89 2 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (87 bp):
AAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCTGTGGCACCCTTTTTAAAGTCC
ACAACTCTGTGGCATCTCTTCC
Found at i:652907 original size:59 final size:58
Alignment explanation
Indices: 652828--653014 Score: 179
Period size: 59 Copynumber: 3.3 Consensus size: 58
652818 GCATCTCTTC
* *
652828 CAAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCTGTGGCACCCTTTTT
1 CAAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCCGTGGCA-CCTTTGT
* * ** * *
652887 CAAAGTCCATAACTCTGTGGCATCTCTTTTAACGTCCGCAACTCCGTGGCACCTTTGT
1 CAAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCCGTGGCACCTTTGT
* *** *
652945 -AAAGTCCACAACTCCA-TGGCA-CCCATTTTTAAGTCCACAACTCCATGGCACCCTTT-T
1 CAAAGTCCACAACT-CAGTGGCATCTC-TTCCAAAGTCCACAACTCCGTGGCA-CCTTTGT
653002 --AAGTCCACAACTC
1 CAAAGTCCACAACTC
653015 TATGGCACCC
Statistics
Matches: 110, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
55 1 0.01
56 14 0.13
57 39 0.35
58 12 0.11
59 44 0.40
ACGTcount: A:0.26, C:0.34, G:0.13, T:0.27
Consensus pattern (58 bp):
CAAAGTCCACAACTCAGTGGCATCTCTTCCAAAGTCCACAACTCCGTGGCACCTTTGT
Found at i:652986 original size:57 final size:56
Alignment explanation
Indices: 652859--653028 Score: 202
Period size: 57 Copynumber: 3.0 Consensus size: 56
652849 ATCTCTTCCA
* * * *
652859 AAGTCCACAACTCTGTGGCACCCTTTTTCAAAGTCCATAACTCTGTGGCA-TCTCTTTT
1 AAGTCCACAACTCCGTGGCACCC-TTTT-AAAGTCCACAACTCTATGGCACCCT-TTTT
* *
652917 AACGTCCGCAACTCCGTGGCA-CCTTTGTAAAGTCCACAACTCCATGGCACCCATTTTT
1 AA-GTCCACAACTCCGTGGCACCCTTT-TAAAGTCCACAACTCTATGGCACCC-TTTTT
*
652975 AAGTCCACAACTCCATGGCACCCTTTT-AAGTCCACAACTCTATGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTATGGCACCCTTTT
653029 AAAAGCCCAC
Statistics
Matches: 98, Mismatches: 9, Indels: 13
0.82 0.08 0.11
Matches are distributed among these distances:
55 4 0.04
56 22 0.22
57 38 0.39
58 17 0.17
59 17 0.17
ACGTcount: A:0.24, C:0.33, G:0.14, T:0.29
Consensus pattern (56 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCTATGGCACCCTTTTT
Found at i:653102 original size:32 final size:32
Alignment explanation
Indices: 653007--653535 Score: 162
Period size: 28 Copynumber: 17.6 Consensus size: 32
652997 CTTTTAAGTC
* * *
653007 CACAACTCTA-TGGCACCCTTTTAAAAGCCCA
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
*
653038 CACAAGTC-AGTGGCAACC-CTTCTAAAGCCCA
1 CACAAGTCTAGTGGCAACCTTTTC-AAAGCCCA
* *
653069 CATAAGTCTA-TGACAACCTTTTTCAAAGCCCA
1 CACAAGTCTAGTGGCAACC-TTTTCAAAGCCCA
* *
653101 CATAAGT-TAGTGGCAACCCTTTCAAAAGCCCA
1 CACAAGTCTAGTGGCAACCTTTTC-AAAGCCCA
* ** * *
653133 CACAAGTC-GGTGGCGTCTTTTTTTGAAAGCCCA
1 CACAAGTCTAGTGGCAAC--CTTTTCAAAGCCCA
* *
653166 C-CTAAGTC-AGTGGC-ACCCTCTCAAAG-CC-
1 CAC-AAGTCTAGTGGCAACCTTTTCAAAGCCCA
* * * * *
653194 CATAAGTC-GGTGG-AATCCCCTCTCAAAG-AC-
1 CACAAGTCTAGTGGCAA--CCTTTTCAAAGCCCA
* * *
653224 CACAAGT-TAGTGGCACCCTATTAAAAG-CC-
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* *
653253 CACAAGTC-AGTGAC-ACCTTTTAAAAG--C-
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* * *
653280 CACAAGTC-AGTGGCATCTCCTTTCAAA-ACC-
1 CACAAGTCTAGTGGCAAC-CTTTTCAAAGCCCA
* * *
653310 CACAAGTC-AGTGG-TACCCTTTAAAAG-CC-
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* *
653338 CACAAGTC-AGTGGCATCTCCTCTT-AAAG-CC-
1 CACAAGTCTAGTGGCA--ACCTTTTCAAAGCCCA
*
653368 CACAAGTC-AGTGGCATCC-TTTCAAAG-CC-
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* * *
653396 CACAAGTC-AGTGGCATCC-TCTCAAAG-AC-
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* **
653424 CATAAGT-GGGTGGCAACC-TTTCAAAGCCCA
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* * * *
653454 CACAAATCGA-TGGCAACCTTTTAAAAGCCTA
1 CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
* * * *
653485 CACAAGT-TAGTAGCGATCTTTTTCTAAAGTCCA
1 CACAAGTCTAGTGGC-AACCTTTTC-AAAGCCCA
* *
653518 CACAAATC-GGTGGCAACC
1 CACAAGTCTAGTGGCAACC
653536 CTCTCAAAAG
Statistics
Matches: 389, Mismatches: 73, Indels: 71
0.73 0.14 0.13
Matches are distributed among these distances:
27 16 0.04
28 101 0.26
29 31 0.08
30 80 0.21
31 67 0.17
32 53 0.14
33 38 0.10
34 3 0.01
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (32 bp):
CACAAGTCTAGTGGCAACCTTTTCAAAGCCCA
Found at i:653153 original size:63 final size:64
Alignment explanation
Indices: 653025--653195 Score: 186
Period size: 63 Copynumber: 2.7 Consensus size: 64
653015 TATGGCACCC
* * *
653025 TTTTAAAAGCCCACACAAGTCAGTGGCAACCC-TTCTAAAGCCCACATAAGTCTATGACAACC-T
1 TTTTAAAAGCCCACATAAGTCAGTGGCAACCCTTTC-AAAGCCCACACAAGTCGATGACAACCTT
* * * * ** *
653088 TTTTCAAAGCCCACATAAGTTAGTGGCAACCCTTTCAAAAGCCCACACAAGTCGGTGGCGTCTTT
1 TTTTAAAAGCCCACATAAGTCAGTGGCAACCCTTTC-AAAGCCCACACAAGTCGATGACAACCTT
* * *
653153 TTTTGAAAGCCCACCTAAGTCAGTGGC-ACCCTCTCAAAGCCCA
1 TTTTAAAAGCCCACATAAGTCAGTGGCAACCCTTTCAAAGCCCA
653196 TAAGTCGGTG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
63 37 0.41
64 29 0.32
65 25 0.27
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (64 bp):
TTTTAAAAGCCCACATAAGTCAGTGGCAACCCTTTCAAAGCCCACACAAGTCGATGACAACCTT
Found at i:653206 original size:28 final size:28
Alignment explanation
Indices: 652785--653455 Score: 325
Period size: 29 Copynumber: 22.9 Consensus size: 28
652775 TCCACGGCTT
* * * * *
652785 AGTGGCACCCTTCTTAAAGTCCACGATTT
1 AGTGGCACCCTT-TCAAAGCCCACAAGTC
* * * *
652814 AGTGGCATCTCTTCCAAAGTCCACAACTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* * * *
652843 AGTGGCATCTCTTCCAAAGTCCACAACTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* * * *
652872 TGTGGCACCCTTTTTCAAAGTCCATAACTC
1 AGTGGCACCC--TTTCAAAGCCCACAAGTC
* * * * * * *
652902 TGTGGCATCTCTTTTAACGTCCGCAACTC
1 AGTGGCA-CCCTTTCAAAGCCCACAAGTC
* * * *
652931 CGTGGCA-CCTTTGTAAAGTCCACAACTCC
1 AGTGGCACCCTTT-CAAAGCCCACAAGT-C
** * *
652960 A-TGGCACCCATTTTTAAGTCCACAACTCC
1 AGTGGCACCC-TTTCAAAGCCCACAAGT-C
* * *
652989 A-TGGCACCCTTT-TAAGTCCACAACTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
653015 TA-TGGCACCCTTTTAAAAGCCCACACAAGTC
1 -AGTGGCACCC-TTTCAAAG-CC-CACAAGTC
653046 AGTGGCAACCC-TTCTAAAGCCCACATAAGTC
1 AGTGGC-ACCCTTTC-AAAGCCCAC--AAGTC
* * *
653077 TA-TGACAACCTTTTTCAAAGCCCACATAAGTT
1 -AGTGGC-ACC-CTTTCAAAGCCCAC--AAGTC
653109 AGTGGCAACCCTTTCAAAAGCCCACACAAGTC
1 AGTGGC-ACCCTTTC-AAAG-CC-CACAAGTC
* * ** *
653141 GGTGGCGTCTTTTTTTGAAAGCCCACCTAAGTC
1 AGTGGC-AC--CCTTTCAAAGCCCA-C-AAGTC
* *
653174 AGTGGCACCCTCTCAAAGCCCATAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * *
653202 GGTGGAATCCCCTCTCAAAGACCACAAGTT
1 AGTGGCA--CCCTTTCAAAGCCCACAAGTC
*
653232 AGTGGCACCCTATTAAAAGCCCACAAGTC
1 AGTGGCACCCT-TTCAAAGCCCACAAGTC
* * *
653261 AGTGACACCTTTTAAAAG-CCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
*
653288 AGTGGCATCTCCTTTCAAAACCCACAAGTC
1 AGTGGCA-C-CCTTTCAAAGCCCACAAGTC
* *
653318 AGTGGTACCCTTTAAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
653346 AGTGGCATCTCCTCTT-AAAGCCCACAAGTC
1 AGTGGCA-C-CCT-TTCAAAGCCCACAAGTC
*
653376 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * *
653404 AGTGGCATCCTCTCAAAGACCATAAGTG
1 AGTGGCACCCTTTCAAAGCCCACAAGTC
* *
653432 GGTGGCAACCTTTCAAAGCCCACA
1 AGTGGCACCCTTTCAAAGCCCACA
653456 CAAATCGATG
Statistics
Matches: 528, Mismatches: 75, Indels: 79
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.00
27 43 0.08
28 131 0.25
29 137 0.26
30 108 0.20
31 38 0.07
32 45 0.09
33 19 0.04
34 6 0.01
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (28 bp):
AGTGGCACCCTTTCAAAGCCCACAAGTC
Found at i:653458 original size:86 final size:86
Alignment explanation
Indices: 653169--653455 Score: 275
Period size: 86 Copynumber: 3.3 Consensus size: 86
653159 AAGCCCACCT
* * * * * * *
653169 AAGTCAGTGGCAC-CCTCTCAAAGCCCATAAGTCGGTGGAATCCCCTCTCAAAGA-CCACAAGTT
1 AAGTCAGTGGCACACCTCTTAAAGCCCACAAGTCAGTGGCA-CTCCTTTCAAA-ACCCACAAGTC
* *
653232 AGTGGCACCCTATTAAAAGCCCAC
64 AGTGGCACCCT-CTAAAAGACCAC
*
653256 AAGTCAGT-G-ACACCTTTTAAAAG-CCACAAGTCAGTGGCATCTCCTTTCAAAACCCACAAGTC
1 AAGTCAGTGGCACACCTCTT-AAAGCCCACAAGTCAGTGGCA-CTCCTTTCAAAACCCACAAGTC
* * *
653318 AGTGGTACCCTTTAAAAGCCCAC
64 AGTGGCACCCTCTAAAAGACCAC
* *
653341 AAGTCAGTGGCATCTCCTCTTAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCA
1 AAGTCAGTGGCA-CACCTCTTAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAACCCACAAGTCA
* * *
653405 GTGGCATCCTCTCAAAGACCAT
65 GTGGCACCCTCTAAAAGACCAC
**
653427 AAGTGGGTGGCA-ACCT-TTCAAAGCCCACA
1 AAGTCAGTGGCACACCTCTT-AAAGCCCACA
653456 CAAATCGATG
Statistics
Matches: 171, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
83 2 0.01
84 13 0.08
85 23 0.13
86 94 0.55
87 17 0.10
88 22 0.13
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.21
Consensus pattern (86 bp):
AAGTCAGTGGCACACCTCTTAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAACCCACAAGTCAG
TGGCACCCTCTAAAAGACCAC
Found at i:653846 original size:63 final size:63
Alignment explanation
Indices: 653769--653963 Score: 288
Period size: 63 Copynumber: 3.1 Consensus size: 63
653759 GACTTAGCAT
*
653769 ATTGACACTCTTCTCAACCTTTTATCATCTTTAAGTCTAATGTTGTTGGCCTTGAATCAACAC
1 ATTGGCACTCTTCTCAACCTTTTATCATCTTTAAGTCTAATGTTGTTGGCCTTGAATCAACAC
* * * *
653832 ATTGGCACTTTTCTCATCCTTTTATCAT-TTTCAAGTCCAATGTCGTTGGCCTTGAATCAACAC
1 ATTGGCACTCTTCTCAACCTTTTATCATCTTT-AAGTCTAATGTTGTTGGCCTTGAATCAACAC
* * *
653895 ATTGGCACTCTTCTC-ATC-TTTATCACCTTTAAGTCTAATGTTGTTGGCCTTGAATCAGCAC
1 ATTGGCACTCTTCTCAACCTTTTATCATCTTTAAGTCTAATGTTGTTGGCCTTGAATCAACAC
653956 ATTGGCAC
1 ATTGGCAC
653964 CTTTGTCATA
Statistics
Matches: 118, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
61 43 0.36
62 7 0.06
63 68 0.58
ACGTcount: A:0.23, C:0.25, G:0.13, T:0.39
Consensus pattern (63 bp):
ATTGGCACTCTTCTCAACCTTTTATCATCTTTAAGTCTAATGTTGTTGGCCTTGAATCAACAC
Found at i:654838 original size:20 final size:20
Alignment explanation
Indices: 654813--654850 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
654803 GATATAATTG
*
654813 GTGAATGCATCGATACATAA
1 GTGAATGCATCAATACATAA
*
654833 GTGAATGTATCAATACAT
1 GTGAATGCATCAATACAT
654851 GTCTGAAATG
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:0.39, C:0.13, G:0.18, T:0.29
Consensus pattern (20 bp):
GTGAATGCATCAATACATAA
Found at i:655770 original size:13 final size:13
Alignment explanation
Indices: 655752--655778 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
655742 ACATTATGCT
655752 TTGTATCGATACA
1 TTGTATCGATACA
655765 TTGTATCGATACA
1 TTGTATCGATACA
655778 T
1 T
655779 GGACAATTGT
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):
TTGTATCGATACA
Found at i:655862 original size:13 final size:13
Alignment explanation
Indices: 655844--655896 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
655834 CGATACATGG
*
655844 TACATTGTATTGA
1 TACATTGTATCGA
655857 TACATTGTATCGA
1 TACATTGTATCGA
655870 TACA-TG-AT-G-
1 TACATTGTATCGA
655879 -A-ATTGTATCGA
1 TACATTGTATCGA
655890 TACATTG
1 TACATTG
655897 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:655865 original size:33 final size:33
Alignment explanation
Indices: 655828--655896 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
655818 CTACCACTGT
* *
655828 TTGTATCGATACATGGT-ACATTGTATTGATACA
1 TTGTATCGATACATGATGA-ATTGTATCGATACA
655861 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAATTGTATCGATACA
655894 TTG
1 TTG
655897 CTTGTAACGA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (33 bp):
TTGTATCGATACATGATGAATTGTATCGATACA
Found at i:662712 original size:19 final size:19
Alignment explanation
Indices: 662684--662740 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
662674 ATGTATCGAT
* * *
662684 ACATTTTATCGATGCATGT
1 ACATTGTATCGATACATGG
*
662703 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
662722 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
662741 AAACTGATAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:662795 original size:20 final size:20
Alignment explanation
Indices: 662770--662822 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
662760 TACCACTATT
*
662770 TGTATCGATACATGGT-ACAC
1 TGTATCGATACATGATGA-AC
*
662790 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAC
662810 TGTATCGATACAT
1 TGTATCGATACAT
662823 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAC
Found at i:669720 original size:20 final size:21
Alignment explanation
Indices: 669695--669734 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
669685 TTTGCTAGCT
669695 TTTTTTTTCTC-ATTTTCTTC
1 TTTTTTTTCTCTATTTTCTTC
669715 TTTTTTTTCTCTATTTTCTT
1 TTTTTTTTCTCTATTTTCTT
669735 TTCTAACCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTTTTCTCTATTTTCTTC
Found at i:673142 original size:6 final size:6
Alignment explanation
Indices: 673131--673161 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
673121 AAAATACAAT
673131 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
673162 GGGGTGCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:673633 original size:20 final size:20
Alignment explanation
Indices: 673608--673654 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
673598 AGATATATCA
*
673608 ATACATTTTTCAATGGATCG
1 ATACATTTATCAATGGATCG
* * *
673628 ATACATGTATGAATGTATCG
1 ATACATTTATCAATGGATCG
673648 ATACATT
1 ATACATT
673655 CTGTCTTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (20 bp):
ATACATTTATCAATGGATCG
Found at i:673699 original size:71 final size:70
Alignment explanation
Indices: 673569--673704 Score: 191
Period size: 71 Copynumber: 1.9 Consensus size: 70
673559 TACGTTTTTT
* ****
673569 AATGTATCGATACATTTTGTCTTTTACCCAGATATATCAATACATTTTTCAATGGATCGATACAT
1 AATGTATCGATACATTCTGTCTTTTACCCAGATATATCAATACATTGAAAAATGGATCGATACAT
673634 GTATG
66 GTATG
* * *
673639 AATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACATTGAAAAATGTATCGATACA
1 AATGTATCGATACATTCTGTC-TTTTACCCAGATATATCAATACATTGAAAAATGGATCGATACA
673704 T
65 T
673705 CTGTAGACAC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
70 20 0.35
71 37 0.65
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.38
Consensus pattern (70 bp):
AATGTATCGATACATTCTGTCTTTTACCCAGATATATCAATACATTGAAAAATGGATCGATACAT
GTATG
Found at i:675016 original size:16 final size:16
Alignment explanation
Indices: 674995--675030 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
674985 CCAAACACAA
*
674995 AAAAAAAAGAAAAAAG
1 AAAAAAAACAAAAAAG
*
675011 AAAAAAAACAAAACAG
1 AAAAAAAACAAAAAAG
675027 AAAA
1 AAAA
675031 TCTCGGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.06, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAACAAAAAAG
Found at i:676153 original size:67 final size:67
Alignment explanation
Indices: 676075--676424 Score: 390
Period size: 67 Copynumber: 5.3 Consensus size: 67
676065 ATCTCTGCTC
* *
676075 AAAGTCCACGACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 AAAGCCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
676140 TT
66 TT
* * * *
676142 AAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTT
1 AAAGCCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
676207 TT
66 TT
* * *
676209 AAAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA--------CCCTT
1 AAAGCCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
676266 TT
66 TT
*
676268 -AAGCCCACAACTCCGTGGCACTCTTTTCCTTT-AAAGCCCACAACTACGTGGCACTC-TTTT-C
1 AAAGCCCACAACTCCGTGGCAC-C--TTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
676329 CTTCT
63 CTTTT
*
676334 -AAGCCCACAACTCCGTGACACTCTTTTTCCCTCTTCAAAGCCCACAACTCCGTGGCAC-CTTTT
1 AAAGCCCACAACTCCGTGGCAC-C---TT-CCT-TTCAAAGCCCACAACTCCGTGGCACTCTTTT
676397 T--CTTTT
60 TCCCTTTT
*
676403 AAAGCCCACAATTCCGTGGCAC
1 AAAGCCCACAACTCCGTGGCAC
676425 TCTTTTTCCC
Statistics
Matches: 254, Mismatches: 13, Indels: 29
0.86 0.04 0.10
Matches are distributed among these distances:
58 19 0.07
59 8 0.03
60 20 0.08
61 6 0.02
66 27 0.11
67 120 0.47
68 3 0.01
69 7 0.03
70 44 0.17
ACGTcount: A:0.21, C:0.37, G:0.13, T:0.29
Consensus pattern (67 bp):
AAAGCCCACAACTCCGTGGCACCTTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
TT
Found at i:676305 original size:33 final size:33
Alignment explanation
Indices: 676075--676458 Score: 334
Period size: 33 Copynumber: 11.6 Consensus size: 33
676065 ATCTCTGCTC
* *
676075 AAAGTCCACGACTCCGTGGCAC-C--TTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
676105 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAAGCCCACAACTCCGTGGCACTC-TTTT-CC-TTT
* * *
676142 AAAGTCCACGACTCCGTGGCAC-CTTCTT--TTC
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTT
*
676173 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTT-CC-TTT
* * *
676209 AAAGTCCACGACTCCGTGGCAC-CTTCTT--TTC
1 AAAGCCCACAACTCCGTGGCACTCTT-TTCCTTT
676240 AAAGCCCACAACTCCGTGGCA--C----CCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
*
676267 TAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
*
676300 AAAGCCCACAACTACGTGGCACTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTCCTT-T
*
676334 -AAGCCCACAACTCCGTGACACTCTTTTTCCCTCTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTT-CCT-TT
*
676369 CAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTT
1 -AAAGCCCACAACTCCGTGGCACTC-TTTTCCTTT
*
676403 AAAGCCCACAATTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTT-CCTTT
* * * *
676438 TAAGTCCACAAGTCGGTGGCA
1 AAAGCCCACAACTCCGTGGCA
676459 ATCACTCTCC
Statistics
Matches: 294, Mismatches: 29, Indels: 56
0.78 0.08 0.15
Matches are distributed among these distances:
27 22 0.07
29 1 0.00
30 1 0.00
31 62 0.21
32 4 0.01
33 79 0.27
34 17 0.06
35 35 0.12
36 50 0.17
37 23 0.08
ACGTcount: A:0.21, C:0.36, G:0.14, T:0.30
Consensus pattern (33 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTCCTTT
Found at i:676483 original size:33 final size:33
Alignment explanation
Indices: 676444--676589 Score: 206
Period size: 33 Copynumber: 4.4 Consensus size: 33
676434 CTTTTAAGTC
676444 CACAAGTCGGTGGCAATCACTCTCCAAAGCCCA
1 CACAAGTCGGTGGCAATCACTCTCCAAAGCCCA
*
676477 CACAAGTCGGTGGCAATCACTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAATCACTCTCCAAAGCCCA
*
676510 CACAAGTCGGTGGCAA-CCCT-TCTCAAAGCCCA
1 CACAAGTCGGTGGCAATCACTCTC-CAAAGCCCA
* * *
676542 CACAAGTCGGTGGCAACCATTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAATCA-CTCTCCAAAGCCCA
*
676576 CACAAGTAGGTGGC
1 CACAAGTCGGTGGC
676590 GACCCTTCTA
Statistics
Matches: 102, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
31 2 0.02
32 27 0.26
33 49 0.48
34 22 0.22
35 2 0.02
ACGTcount: A:0.29, C:0.34, G:0.20, T:0.17
Consensus pattern (33 bp):
CACAAGTCGGTGGCAATCACTCTCCAAAGCCCA
Found at i:676548 original size:65 final size:66
Alignment explanation
Indices: 676444--676605 Score: 233
Period size: 66 Copynumber: 2.5 Consensus size: 66
676434 CTTTTAAGTC
* *
676444 CACAAGTCGGTGGCAATCAC-TCTCCAAAGCCCACACAAGTCGGTGGCAATCA-CTCTCTAAAGC
1 CACAAGTCGGTGGCAA-CCCTTCT-CAAAGCCCACACAAGTCGGTGGCAACCATCTCTCTAAAGC
676507 CCA
64 CCA
*
676510 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCATTTCTCTAAAGCCC
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCATCTCTCTAAAGCCC
676575 A
66 A
* *
676576 CACAAGTAGGTGGCGACCCTTCT--AAGCCCA
1 CACAAGTCGGTGGCAACCCTTCTCAAAGCCCA
676606 ATATCGCTGG
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
64 7 0.08
65 29 0.33
66 53 0.60
ACGTcount: A:0.29, C:0.35, G:0.19, T:0.17
Consensus pattern (66 bp):
CACAAGTCGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCATCTCTCTAAAGCCC
A
Found at i:676707 original size:43 final size:43
Alignment explanation
Indices: 676593--676868 Score: 336
Period size: 43 Copynumber: 6.1 Consensus size: 43
676583 AGGTGGCGAC
* * *
676593 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTT-TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
676637 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* *
676686 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
*
676729 TCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
1 ----C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
676778 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
* * *
676821 CCATTCAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
676864 CCTTT
1 CCTTT
676869 TCCATCTTCA
Statistics
Matches: 203, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
43 123 0.61
45 2 0.01
47 1 0.00
48 1 0.00
49 73 0.36
50 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (43 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:676760 original size:92 final size:92
Alignment explanation
Indices: 676593--676868 Score: 438
Period size: 92 Copynumber: 3.1 Consensus size: 92
676583 AGGTGGCGAC
*
676593 CCTTCTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
676658 TAGCTGGCCTTGACTCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
676686 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
676751 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
* * * *
676778 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--CA---TTCAGTCCAATAT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
*
676837 AGCTGGCCTTGAATCAGCATATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
676864 CCTTT
1 CCTTT
676869 TCCATCTTCA
Statistics
Matches: 176, Mismatches: 7, Indels: 7
0.93 0.04 0.04
Matches are distributed among these distances:
86 42 0.24
89 2 0.01
91 1 0.01
92 127 0.72
93 4 0.02
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:676851 original size:135 final size:138
Alignment explanation
Indices: 676611--676921 Score: 457
Period size: 135 Copynumber: 2.2 Consensus size: 138
676601 GCCCAATATC
* * *
676611 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAG
1 GCTGGCCTTGAATCAGCACATTGGCA---TC--CTTTAAGTCCAATATAGCTGGCCTTGAATCAG
* *
676676 CACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTT-CATCTT
61 CACATTGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTTCCATCTT
*
676739 TAAGTCCAATGTA
126 CAAGTCCAATGTA
676752 GCTGGCCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
1 GCTGGCCTTGAATCAGCACATTGGCATCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
* *
676816 TGGCACCATTCAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTCAAG
66 TGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTCTTCCATCTTCAAG
*
676881 TTCAATGTA
130 TCCAATGTA
*
676890 GCTGGCCTTGAATCAGCACATTGACATCCTTT
1 GCTGGCCTTGAATCAGCACATTGGCATCCTTT
676922 TTCTCATCTT
Statistics
Matches: 156, Mismatches: 10, Indels: 10
0.89 0.06 0.06
Matches are distributed among these distances:
135 80 0.51
137 4 0.03
138 42 0.27
139 5 0.03
141 25 0.16
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (138 bp):
GCTGGCCTTGAATCAGCACATTGGCATCCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAT
TGGCACCATTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTTCCATCTTCAAGT
CCAATGTA
Found at i:677125 original size:169 final size:169
Alignment explanation
Indices: 676915--677377 Score: 743
Period size: 169 Copynumber: 2.7 Consensus size: 169
676905 GCACATTGAC
*
676915 ATCCTTTTTCTCATCTTT-AAGCCCAATATCGTTAGCCGTGAATCAACATATTGGCATCTTTATC
1 ATCCTTTTTCTCATCTTTGAA-CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATC
676979 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
65 ACTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTA
*
677044 TCTTCGAG-CCTAATATCGCTAGCCGCATATTGGCTCTTTT
130 TCTTCAAGTCC-AATATCGCTAGCCGCATATTGGCTCTTTT
677084 ATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
1 ATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
677149 CTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
66 CTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
*
677214 CTTTAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
131 CTTCAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
* *
677253 ATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACGTATTGGTCCT-TTTATC
1 ATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACATATTGG-CATCTTTATC
* * * * * * * * *
677317 GCTCTTCATCCTCATCATCTTTAAGTCCAGTGTGGCAGGCCTTGAATCTGCACAGTGGCAC
65 ACTTTTC-TCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
677378 ACTGCAAGAC
Statistics
Matches: 276, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
169 224 0.81
170 52 0.19
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (169 bp):
ATCCTTTTTCTCATCTTTGAACCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA
CTTTTCTCATCTTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTAT
CTTCAAGTCCAATATCGCTAGCCGCATATTGGCTCTTTT
Found at i:677954 original size:13 final size:13
Alignment explanation
Indices: 677936--677960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
677926 CATAAAATGT
677936 TGTATCGATACAA
1 TGTATCGATACAA
677949 TGTATCGATACA
1 TGTATCGATACA
677961 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:677958 original size:33 final size:33
Alignment explanation
Indices: 677916--677985 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
677906 TTCAACGATT
677916 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
677949 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
677982 TGTA
1 TGTA
677986 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:678043 original size:13 final size:13
Alignment explanation
Indices: 678025--678049 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
678015 ATTACTCACA
678025 TGTATCGATACAT
1 TGTATCGATACAT
678038 TGTATCGATACA
1 TGTATCGATACA
678050 CTGATCTTTG
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:678114 original size:52 final size:52
Alignment explanation
Indices: 678058--678182 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
678048 CACTGATCTT
*
678058 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
678110 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
678162 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
678183 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:687666 original size:13 final size:13
Alignment explanation
Indices: 687648--687673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
687638 TACAGCAAGT
687648 ATGTATCGATACA
1 ATGTATCGATACA
687661 ATGTATCGATACA
1 ATGTATCGATACA
687674 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:691755 original size:15 final size:15
Alignment explanation
Indices: 691735--691765 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
691725 TAAAAATGTC
*
691735 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
691750 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
691765 C
1 C
691766 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:693862 original size:13 final size:13
Alignment explanation
Indices: 693844--693869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
693834 ACATTTTTCT
693844 TTGTATCGATACA
1 TTGTATCGATACA
693857 TTGTATCGATACA
1 TTGTATCGATACA
693870 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:694033 original size:20 final size:20
Alignment explanation
Indices: 693990--694035 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
693980 AAATCTTTTG
693990 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
694011 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
694031 CAAAA
1 CAAAA
694036 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:696444 original size:13 final size:13
Alignment explanation
Indices: 696426--696451 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
696416 TACAGCAAGT
696426 ATGTATCGATACA
1 ATGTATCGATACA
696439 ATGTATCGATACA
1 ATGTATCGATACA
696452 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:697743 original size:22 final size:22
Alignment explanation
Indices: 697715--697765 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
697705 TCTAACCTCG
*
697715 AAGCCTTACCTATTAAGGTTCA
1 AAGCCTTACCTATGAAGGTTCA
* *
697737 AAGCCTTACCTATGCAGTTTCA
1 AAGCCTTACCTATGAAGGTTCA
697759 AAGCCTT
1 AAGCCTT
697766 CAAGATTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (22 bp):
AAGCCTTACCTATGAAGGTTCA
Found at i:697854 original size:11 final size:10
Alignment explanation
Indices: 697830--697866 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
697820 AACCTAAGTT
697830 AAACTTTATC
1 AAACTTTATC
697840 AAACTTTAGTC
1 AAACTTTA-TC
*
697851 AAACTTGATC
1 AAACTTTATC
697861 AAACTT
1 AAACTT
697867 GGGTCAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 16 0.64
11 9 0.36
ACGTcount: A:0.41, C:0.19, G:0.05, T:0.35
Consensus pattern (10 bp):
AAACTTTATC
Found at i:697872 original size:21 final size:21
Alignment explanation
Indices: 697830--697873 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
697820 AACCTAAGTT
* *
697830 AAACTTTATCAAACTTTAGTC
1 AAACTTGATCAAACTTGAGTC
*
697851 AAACTTGATCAAACTTGGGTC
1 AAACTTGATCAAACTTGAGTC
697872 AA
1 AA
697874 CAAAGTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (21 bp):
AAACTTGATCAAACTTGAGTC
Found at i:698210 original size:28 final size:27
Alignment explanation
Indices: 698171--698223 Score: 63
Period size: 28 Copynumber: 1.9 Consensus size: 27
698161 ATAATATTTA
698171 AATTAAAATTTC-TTATGTGGAATTTTT
1 AATTAAAATTTCATT-TGTGGAATTTTT
* *
698198 AATTAAACTTTTCATTTTTGGAATTT
1 AATTAAA-ATTTCATTTGTGGAATTT
698224 ACAATTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 7 0.32
28 13 0.59
29 2 0.09
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.53
Consensus pattern (27 bp):
AATTAAAATTTCATTTGTGGAATTTTT
Found at i:698291 original size:27 final size:27
Alignment explanation
Indices: 698234--698285 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
698224 ACAATTTATG
698234 GAATTTTTAATTAAAATTTTTACATAT
1 GAATTTTTAATTAAAATTTTTACATAT
*
698261 GAATTTTTAAATTAAGA-TTTTACAT
1 GAATTTTT-AATTAAAATTTTTACAT
698286 GAGAATGTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (27 bp):
GAATTTTTAATTAAAATTTTTACATAT
Found at i:701137 original size:78 final size:78
Alignment explanation
Indices: 701004--701165 Score: 281
Period size: 78 Copynumber: 2.1 Consensus size: 78
700994 AATTATTACA
*
701004 ATTCATAATTTTAGTCTAAATGTTTTACAATATGCTTAATTTAATTAAAGGGATGTCAATCACTT
1 ATTCATAATTTTAGTCTAAATGTTTTACAATATGCTTAATTCAATTAAAGGGATGTCAATCACTT
701069 GCTAAGTATTCCT
66 GCTAAGTATTCCT
*
701082 ATTCATAATTTTAGTCTAAATGTTTTACAATATGCTTAATTCAATT-AAGGAGATGTCAATTACT
1 ATTCATAATTTTAGTCTAAATGTTTTACAATATGCTTAATTCAATTAAAGG-GATGTCAATCACT
*
701146 TGCTAAGTATTCGT
65 TGCTAAGTATTCCT
701160 ATTCAT
1 ATTCAT
701166 TCTCTTATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
77 4 0.05
78 76 0.95
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (78 bp):
ATTCATAATTTTAGTCTAAATGTTTTACAATATGCTTAATTCAATTAAAGGGATGTCAATCACTT
GCTAAGTATTCCT
Found at i:701605 original size:3 final size:3
Alignment explanation
Indices: 701597--701636 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
701587 TGTGAAATGA
701597 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
701637 TAAATGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:703314 original size:17 final size:16
Alignment explanation
Indices: 703289--703333 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 16
703279 AAAAAAATAG
703289 AGAAAAAAATAGAGAAAA
1 AGAAAAAAA-AGA-AAAA
703307 AGAAAAAAAAGAAAAA
1 AGAAAAAAAAGAAAAA
703323 AGAGAAAAAAA
1 AGA-AAAAAAA
703334 AAGGAATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.27
17 10 0.38
18 9 0.35
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (16 bp):
AGAAAAAAAAGAAAAA
Found at i:703332 original size:9 final size:9
Alignment explanation
Indices: 703281--703332 Score: 54
Period size: 8 Copynumber: 5.7 Consensus size: 9
703271 CAATAGCAAA
703281 AAAAATAGAG
1 AAAAA-AGAG
*
703291 AAAAAAATAG
1 -AAAAAAGAG
703301 AGAAAAAGA-
1 A-AAAAAGAG
703310 AAAAAA-AG
1 AAAAAAGAG
703318 AAAAAAGAG
1 AAAAAAGAG
703327 AAAAAA
1 AAAAAA
703333 AAAGGAATTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
7 1 0.03
8 11 0.31
9 10 0.28
10 9 0.25
11 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (9 bp):
AAAAAAGAG
Found at i:703335 original size:12 final size:12
Alignment explanation
Indices: 703278--703336 Score: 68
Period size: 12 Copynumber: 4.8 Consensus size: 12
703268 AGGCAATAGC
703278 AAAAAAAATAGAG
1 AAAAAAAA-AGAG
*
703291 AAAAAAATAGAG
1 AAAAAAAAAGAG
703303 AAAAAGAAAA-A-
1 AAAAA-AAAAGAG
703314 AAAGAAAAAAGAG
1 AAA-AAAAAAGAG
703327 AAAAAAAAAG
1 AAAAAAAAAG
703337 GAATTCTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
11 7 0.17
12 20 0.50
13 13 0.32
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAGAG
Found at i:709740 original size:59 final size:59
Alignment explanation
Indices: 709672--709867 Score: 216
Period size: 59 Copynumber: 3.3 Consensus size: 59
709662 AAGGATCATT
* * * * * *
709672 TTGCAATTTTCGTGTATTGTAGGGTCATTTAGGTCATTTTACATAATCTAGGGACCATG
1 TTGCAATTTTCATGCATTTTAGGGTTATTTAAGTTATTTTACATAATCTAGGGACCATG
* * *
709731 TTGCAATTTTCATGCATTTTAGGATTATTTAAGTTATTTTTCATAATCTAGGGATCAT-
1 TTGCAATTTTCATGCATTTTAGGGTTATTTAAGTTATTTTACATAATCTAGGGACCATG
* * * **
709789 TTAGCAATTTTCATGCATTTTATGGTTGTTTATGTTATTTTTA-ATAATCTAGTTACCATG
1 TT-GCAATTTTCATGCATTTTAGGGTTATTTAAGTTA-TTTTACATAATCTAGGGACCATG
* *
709849 TTACAATTTTCATACATTT
1 TTGCAATTTTCATGCATTT
709868 AGTTTATGCT
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
58 2 0.02
59 107 0.93
60 6 0.05
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (59 bp):
TTGCAATTTTCATGCATTTTAGGGTTATTTAAGTTATTTTACATAATCTAGGGACCATG
Found at i:709954 original size:107 final size:107
Alignment explanation
Indices: 709770--709974 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 107
709760 TAAGTTATTT
** ** *
709770 TTCATAATCTAGGGATCATTTAGCAATTTTCATGCATTTTATGGTTGTTTATGTTATTTTTAATA
1 TTCATAATCTAGGGATCATTTAGCAATTTTCATGCATTTTAAAGTTACTTAGGTTATTTTTAATA
**
709835 ATCTAGTTACCATGTTACAATTTTCATACATTTAGTTTATGC
66 ATCTAGGAACCATGTTACAATTTTCATACATTTAGTTTATGC
* * * *
709877 TTCATAGTGTAGGGATCATTTTGGAATTTTCATGCATTTTAAAGTTACTTAGGTTATTTTCT-AT
1 TTCATAATCTAGGGATCATTTAGCAATTTTCATGCATTTTAAAGTTACTTAGGTTATTTT-TAAT
* * * *
709941 GA-CTTAGGAACCATTTTGCAATTTTCATGCATTT
65 AATC-TAGGAACCATGTTACAATTTTCATACATTT
709975 TAAGGTCATT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
106 1 0.01
107 79 0.98
108 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.47
Consensus pattern (107 bp):
TTCATAATCTAGGGATCATTTAGCAATTTTCATGCATTTTAAAGTTACTTAGGTTATTTTTAATA
ATCTAGGAACCATGTTACAATTTTCATACATTTAGTTTATGC
Found at i:710015 original size:59 final size:58
Alignment explanation
Indices: 709889--710024 Score: 166
Period size: 59 Copynumber: 2.3 Consensus size: 58
709879 CATAGTGTAG
* * * *
709889 GGATCATTTTGGAATTTTCATGCATTTTAAAGTTACTTAGGTTATTTTCTATGACTTA
1 GGATCATTTTGCAATTTTCATGCATTTTAAAGTCACTTAGGTTATTTTCCATAACTTA
* * * *
709947 GGAACCATTTTGCAATTTTCATGCATTTTAAGGTCATTTAGGTTATTTTCCATAATTTA
1 GG-ATCATTTTGCAATTTTCATGCATTTTAAAGTCACTTAGGTTATTTTCCATAACTTA
710006 TGGATCATTTAT-CAATTTT
1 -GGATCATTT-TGCAATTTT
710025 AGAGTTTGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
58 2 0.03
59 61 0.92
60 3 0.05
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (58 bp):
GGATCATTTTGCAATTTTCATGCATTTTAAAGTCACTTAGGTTATTTTCCATAACTTA
Found at i:711040 original size:32 final size:32
Alignment explanation
Indices: 710929--711040 Score: 86
Period size: 32 Copynumber: 3.5 Consensus size: 32
710919 GATCTAGATG
* * *
710929 AAACTAGTAACCTAAGATTGAGGACCCAAGGA
1 AAACTAGTAACCTAAAATTGAGGACCTAAGTA
* * * * *
710961 AAACTACTAGCCTAAATTTTAGGA-CTAGGGTA
1 AAACTAGTAACCTAAAATTGAGGACCTA-AGTA
* *
710993 AAACCA--ACACTCTAAAACTGAGGACCTAAGTA
1 AAACTAGTA-AC-CTAAAATTGAGGACCTAAGTA
711025 AAACTAGTAACCTAAA
1 AAACTAGTAACCTAAA
711041 GTCAAAGATT
Statistics
Matches: 59, Mismatches: 15, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
30 1 0.02
31 3 0.05
32 49 0.83
33 5 0.08
34 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.20
Consensus pattern (32 bp):
AAACTAGTAACCTAAAATTGAGGACCTAAGTA
Found at i:711195 original size:32 final size:32
Alignment explanation
Indices: 711112--711196 Score: 80
Period size: 32 Copynumber: 2.7 Consensus size: 32
711102 AAAGTTGAAA
* **
711112 ACCTAAGTGAAACTAGCAATTTGAAATTAAAG
1 ACCTAAGTGAAACTAGTAACCTGAAATTAAAG
* ** * * *
711144 ACCTAGGCAAAACTTGTAACCTGAAATTTAGG
1 ACCTAAGTGAAACTAGTAACCTGAAATTAAAG
*
711176 ACCTAAGTGAAACTCGTAACC
1 ACCTAAGTGAAACTAGTAACC
711197 CAAAGCTGAG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (32 bp):
ACCTAAGTGAAACTAGTAACCTGAAATTAAAG
Found at i:711291 original size:27 final size:27
Alignment explanation
Indices: 711261--711313 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
711251 ACTAGTAACT
711261 TGAAGTTGAAGG-CCAAGGTAAAACTAG
1 TGAAGTT-AAGGACCAAGGTAAAACTAG
* *
711288 TGAAGTTAAGGACCTAGGTGAAACTA
1 TGAAGTTAAGGACCAAGGTAAAACTA
711314 ATAATTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 19 0.83
ACGTcount: A:0.40, C:0.11, G:0.28, T:0.21
Consensus pattern (27 bp):
TGAAGTTAAGGACCAAGGTAAAACTAG
Found at i:715675 original size:12 final size:12
Alignment explanation
Indices: 715654--715682 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
715644 TCGAAACCAA
715654 GATA-ATGTATC
1 GATACATGTATC
715665 GATACATGTATC
1 GATACATGTATC
715677 GATACA
1 GATACA
715683 AAGCAATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (12 bp):
GATACATGTATC
Found at i:716662 original size:16 final size:16
Alignment explanation
Indices: 716641--716676 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
716631 TTCATTAAGG
**
716641 AAAGTTAAGTACAAGC
1 AAAGTTAAAAACAAGC
716657 AAAGTTAAAAACAAGC
1 AAAGTTAAAAACAAGC
716673 AAAG
1 AAAG
716677 AAACAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.11, G:0.17, T:0.14
Consensus pattern (16 bp):
AAAGTTAAAAACAAGC
Found at i:720773 original size:19 final size:19
Alignment explanation
Indices: 720749--720787 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
720739 TTTTCCTTTA
720749 TAAAGTTCGCATGGAGTTT
1 TAAAGTTCGCATGGAGTTT
*
720768 TAAAGTTCGTATGGAGTTT
1 TAAAGTTCGCATGGAGTTT
720787 T
1 T
720788 CTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (19 bp):
TAAAGTTCGCATGGAGTTT
Found at i:721843 original size:13 final size:13
Alignment explanation
Indices: 721825--721850 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
721815 CAATTTTTTG
721825 TGTATCGATACAT
1 TGTATCGATACAT
721838 TGTATCGATACAT
1 TGTATCGATACAT
721851 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:722573 original size:63 final size:63
Alignment explanation
Indices: 722494--722619 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
722484 AAATAAATTT
722494 AACAAATTTGTACATTCTCCCCCTTAATAAAATAATTCACGCATTCTCTCCTTTATCTCCCCC
1 AACAAATTTGTACATTCTCCCCCTTAATAAAATAATTCACGCATTCTCTCCTTTATCTCCCCC
722557 AACAAATTTGTACATTCTCCCCCTTAATAAAATAATTCACGCATTCTCTCCTTTATCTCCCCC
1 AACAAATTTGTACATTCTCCCCCTTAATAAAATAATTCACGCATTCTCTCCTTTATCTCCCCC
722620 GTTTATTAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.29, C:0.33, G:0.03, T:0.35
Consensus pattern (63 bp):
AACAAATTTGTACATTCTCCCCCTTAATAAAATAATTCACGCATTCTCTCCTTTATCTCCCCC
Found at i:722653 original size:21 final size:21
Alignment explanation
Indices: 722612--722655 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
722602 CTCTCCTTTA
* *
722612 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
722633 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
722654 TC
1 TC
722656 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:726561 original size:15 final size:15
Alignment explanation
Indices: 726541--726571 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
726531 ATTTCGTTTG
*
726541 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
726556 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
726571 G
1 G
726572 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:730654 original size:13 final size:13
Alignment explanation
Indices: 730636--730661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
730626 CAATTTTTTG
730636 TGTATCGATACAT
1 TGTATCGATACAT
730649 TGTATCGATACAT
1 TGTATCGATACAT
730662 ACTTGCTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:732294 original size:21 final size:21
Alignment explanation
Indices: 732270--732316 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
732260 ACCATCTTGC
732270 AATTCAATTATCTTCTTTTCT
1 AATTCAATTATCTTCTTTTCT
* *
732291 AATTCACTTATTTTCTTTTCT
1 AATTCAATTATCTTCTTTTCT
732312 AATTC
1 AATTC
732317 GTCTTCTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.57
Consensus pattern (21 bp):
AATTCAATTATCTTCTTTTCT
Found at i:735375 original size:157 final size:157
Alignment explanation
Indices: 734977--735511 Score: 497
Period size: 157 Copynumber: 3.4 Consensus size: 157
734967 AGCATTTTCG
* * * * *
734977 TAAAGGACTTAAAAAGACTCATAAAAAGGATGAACCTATCCAAAACGCCTACCTTCGGCATAAAA
1 TAAAGGACTTAAAAAGACTCAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
* * * * * * *
735042 GCGAACCCGGTCACGACCTAGGAGTTGATTCTAAAAAATTACCAAAATACCCTTAGGGGTATACC
66 GCGGACCCGGTAACGACTTAGGAGTTAAGTCTAAAAAATTACCAAAATACCCCTAGGGATATACC
*
735107 TTCGATGTAAAAGTATCCTAGCAACCC
131 TTCGATGTAAAAGTATCCGAGCAACCC
* * *
735134 TAAAGGACTTAAAAAGACTCATAAAAGGGATGAACCTATCCTAAGTGCCCACCTTCGACATAAAA
1 TAAAGGACTTAAAAAGACTCAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
* * ** * **
735199 ACAGACCCAATAACGACTTAGGAGTTAAGTCTAGAAAATTATGAAAATACCCCTAGGGATATACC
66 GCGGACCCGGTAACGACTTAGGAGTTAAGTCTAAAAAATTACCAAAATACCCCTAGGGATATACC
735264 TTCGATGTAAAAGTATCCCGA-CAACCC
131 TTCGATGTAAAAGTAT-CCGAGCAACCC
* * * *
735291 TAAAGGACTTAAAATGACT-AGAGATGGAGAT-AGACCTATCCTAAATGCCCACCTTCGGCATCA
1 TAAAGGACTTAAAAAGACTCAGAAAAGG-GATGA-ACCTATCCTAAATGCCCACCTTCGGCATAA
* * * ** * * * * * * * *
735354 AAGCGGACCCGGTGACAACTTAGGACTCGATTTTTAGAAAGTACTAAAAAACCCCTA-TGAGTAT
64 AAGCGGACCCGGTAACGACTTAGGAGTTAAGTCTAAAAAATTACCAAAATACCCCTAGGGA-TAT
* * * * * *
735418 ACCTTCAACGTAAAAGTACCTCGA-TAATCT
128 ACCTTCGATGTAAAAGTATC-CGAGCAACCC
* * * * * * * *
735448 TAAAGGGCTTAAAAAGACT-AGAAATGTGATGGACCTATCCTTAATGCCCATCGTCGACATAAAA
1 TAAAGGACTTAAAAAGACTCAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
735512 ATGGACCGGT
Statistics
Matches: 309, Mismatches: 63, Indels: 13
0.80 0.16 0.03
Matches are distributed among these distances:
156 39 0.13
157 267 0.86
158 3 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (157 bp):
TAAAGGACTTAAAAAGACTCAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAA
GCGGACCCGGTAACGACTTAGGAGTTAAGTCTAAAAAATTACCAAAATACCCCTAGGGATATACC
TTCGATGTAAAAGTATCCGAGCAACCC
Found at i:737639 original size:57 final size:57
Alignment explanation
Indices: 737483--737642 Score: 194
Period size: 57 Copynumber: 2.8 Consensus size: 57
737473 GTTGCTGTGG
* * * * *
737483 CTGTTTTGTCATGCCATTGGTTCTCTCCTACTGCTTGCTTCTTGCTTGTTTGCTGTTG
1 CTGTTTTGTCTTGCCATTGGTTCTTTCCTGCTGCTTGC-TCTTGCTTGTTTGCTATTA
* ** * *
737541 CTATTTTGTCTTGCCATTGGTTCTTTTGTGCTACTTGCTCTTGTTTGTTTGCTATTA
1 CTGTTTTGTCTTGCCATTGGTTCTTTCCTGCTGCTTGCTCTTGCTTGTTTGCTATTA
* * *
737598 CTGTTTTGTCTTGTCGTTGGTTCTTTCCTGCTGCTTACTCTTGCT
1 CTGTTTTGTCTTGCCATTGGTTCTTTCCTGCTGCTTGCTCTTGCT
737643 CGTGTTTAGA
Statistics
Matches: 84, Mismatches: 18, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
57 53 0.63
58 31 0.37
ACGTcount: A:0.06, C:0.22, G:0.19, T:0.53
Consensus pattern (57 bp):
CTGTTTTGTCTTGCCATTGGTTCTTTCCTGCTGCTTGCTCTTGCTTGTTTGCTATTA
Found at i:739959 original size:54 final size:55
Alignment explanation
Indices: 739876--739979 Score: 149
Period size: 54 Copynumber: 1.9 Consensus size: 55
739866 GCCAACAACC
*
739876 CAACAAAAGATAAAAAGATTTACCCGGGACTAAGCCG-ACAGGTAAACAAATGAAT
1 CAACAAAAGATAAAAAGATTTACCCGGGACTAAG-CGAACAAGTAAACAAATGAAT
* **
739931 CAACAATAGAT-AAAAGATTTACTTGGGACTAAGCGAACAAGTAAACAAA
1 CAACAAAAGATAAAAAGATTTACCCGGGACTAAGCGAACAAGTAAACAAA
739980 AGAAGAAAGT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
53 2 0.05
54 32 0.73
55 10 0.23
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.16
Consensus pattern (55 bp):
CAACAAAAGATAAAAAGATTTACCCGGGACTAAGCGAACAAGTAAACAAATGAAT
Found at i:740311 original size:84 final size:83
Alignment explanation
Indices: 740214--740672 Score: 284
Period size: 84 Copynumber: 5.5 Consensus size: 83
740204 TAGGTTTGTG
*
740214 AAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCAACGAACGATAAAGGATTTACCCAGGAC
1 AAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCAACGAAAGATAAAGGATTTACCCAGGAC
740279 TGGGCCGGTGGGTAAACA
66 TGGGCCGGTGGGTAAACA
* * * * * *
740297 AAGGATAAAGAAGTTGACCAAGATCAGACCGACAAGTCAA-GAAAAGATAAAAGGGA-GTACCTA
1 AAGGATAAA-AAGTTGATCGAGATTAAACCGACAAGTCAACG-AAAGAT-AAA-GGATTTACCCA
*** * * **
740360 GGACCAAGCCGATAGGG-GAATG
62 GGACTGGGCCGGT-GGGTAAACA
* * * *
740382 AAGAATAAAAAGTTGATCGAGATT-AACCTGACAAGTCAAC-AAGGGATAAA-GATTTACTCAAG
1 AAGGATAAAAAGTTGATCGAGATTAAACC-GACAAGTCAACGAA-AGATAAAGGATTTACCCAGG
*
740444 AGTGGGCCGGTGGGTAAACA
64 ACTGGGCCGGTGGGTAAACA
* ** * * * * ** *
740464 AAGGATAAAAATGTTGATCGAGATTAGATTGACAAGTTAACAAAAGAAAAAAAGAAGTACCTAGG
1 AAGGATAAAAA-GTTGATCGAGATTAAACCGACAAGTCAACGAAAG-ATAAAGGATTTACCCAGG
*** * **** * **
740529 ACCAAGTCGACAAGTGAATG
64 ACTGGGCCGGTGGGTAAACA
* * * * * **
740549 AAGGATAAAAAATTGATCGGGATTAAACTGACAAATCAATGAGGGATAAAGGATTTACCC-GAGA
1 AAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCAACGAAAGATAAAGGATTTACCCAG-GA
* *
740613 CTGGGCCAGCGGGTAAACA
65 CTGGGCCGGTGGGTAAACA
* ** * *
740632 AAAGATAAAAATGTTGGCCGAGATTAGACTGACAAGTCAAC
1 AAGGATAAAAA-GTTGATCGAGATTAAACCGACAAGTCAAC
740673 AATAAAAGGA
Statistics
Matches: 269, Mismatches: 90, Indels: 33
0.69 0.23 0.08
Matches are distributed among these distances:
81 5 0.02
82 24 0.09
83 72 0.27
84 109 0.41
85 53 0.20
86 6 0.02
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.17
Consensus pattern (83 bp):
AAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCAACGAAAGATAAAGGATTTACCCAGGAC
TGGGCCGGTGGGTAAACA
Found at i:740400 original size:168 final size:167
Alignment explanation
Indices: 740122--740898 Score: 836
Period size: 168 Copynumber: 4.7 Consensus size: 167
740112 AAGCCAACAA
* * * * * * *
740122 GTAAACAAGGGATAAAAAAGTTAACCGAGATTAGACCGATAAGTCAATAAAATATAAAAGAAAGT
1 GTAAACAAAGGAT-AAAAAGTTGACCGAGATTAGACTGACAAGTCAACAAAAGATAAAAGGAAGT
* * * ***
740187 ACTTGGGACCAAGACGATAGGTTTGTGAAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCA
65 ACTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCA
* *
740252 ACGAACGATAAAGGATTTACCC-AGGACTGGGCCGGTGG
130 ACGAAGGATAAAGGATTTACCCGA-GACTGGGCCGGCGG
* * * * *
740290 GTAAACAAAGGATAAAGAAGTTGACCAAGATCAGACCGACAAGTCAAGAAAAGATAAAAGGGAGT
1 GTAAACAAAGGATAAA-AAGTTGACCGAGATTAGACTGACAAGTCAACAAAAGATAAAAGGAAGT
* * * * * *
740355 ACCTAGGACCAAGCCGATAGGGGAATGAAGAATAAAAAGTTGATCGAGATT-AACCTGACAAGTC
65 ACTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACC-GACAAGTC
* * * *
740419 AAC-AAGGGATAAA-GATTTACTCAAGAGTGGGCCGGTGG
129 AACGAA-GGATAAAGGATTTACCCGAGACTGGGCCGGCGG
* * * * *
740457 GTAAACAAAGGATAAAAATGTTGATCGAGATTAGATTGACAAGTTAACAAAAGAAAAAAAGAAGT
1 GTAAACAAAGGATAAAAA-GTTGACCGAGATTAGACTGACAAGTCAACAAAAGATAAAAGGAAGT
* * * * * * *
740522 ACCTAGGACCAAGTCGACAAGTGAATGAAGGATAAAAAATTGATCGGGATTAAACTGACAAATCA
65 ACTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCA
* * *
740587 ATGAGGGATAAAGGATTTACCCGAGACTGGGCCAGCGG
130 ACGAAGGATAAAGGATTTACCCGAGACTGGGCCGGCGG
* *
740625 GTAAACAAAAGATAAAAATGTTGGCCGAGATTAGACTGACAAGTCAAC---A-ATAAAAGGAAGT
1 GTAAACAAAGGATAAAAA-GTTGACCGAGATTAGACTGACAAGTCAACAAAAGATAAAAGGAAGT
* * * *
740686 ACTTGGGACCAAGTCAACAAGTGAATGAAGGATAAAAAGTTGACCGAGATTAAACTGACAAGTCA
65 ACTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCA
* * * *
740751 ACGAGGGATAAAGGATTTACCCGAGACTGGGCTGACAG
130 ACGAAGGATAAAGGATTTACCCGAGACTGGGCCGGCGG
* * * * *
740789 GTAAACAAAAGATAAAAAAGTTGA-CTAGGATTGGACTGACAAGTCAACAAAAGATAGAAGAAAG
1 GTAAACAAAGGAT-AAAAAGTTGACCGA-GATTAGACTGACAAGTCAACAAAAGATAAAAGGAAG
* * *
740853 TACTTGGGACCAAGCCGACAAGTGCATAAAGGAT-AAAGGTTGATCG
64 TACTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGATCG
740899 GAGACTGAGC
Statistics
Matches: 519, Mismatches: 76, Indels: 29
0.83 0.12 0.05
Matches are distributed among these distances:
163 2 0.00
164 137 0.26
165 6 0.01
166 2 0.00
167 153 0.29
168 219 0.42
ACGTcount: A:0.44, C:0.14, G:0.25, T:0.18
Consensus pattern (167 bp):
GTAAACAAAGGATAAAAAGTTGACCGAGATTAGACTGACAAGTCAACAAAAGATAAAAGGAAGTA
CTTGGGACCAAGCCGACAAGTGAATGAAGGATAAAAAGTTGATCGAGATTAAACCGACAAGTCAA
CGAAGGATAAAGGATTTACCCGAGACTGGGCCGGCGG
Found at i:741125 original size:85 final size:85
Alignment explanation
Indices: 741018--741216 Score: 211
Period size: 85 Copynumber: 2.3 Consensus size: 85
741008 AAGAGATGAA
* * * *
741018 GAAGTCTCCCAGGTCTAAGCTGATAAGCAGACAAAAGATGAAGGAGTCT-CTCGGGTTTAAGTCG
1 GAAGTCTCCCAGGACTAAGCTGATAAGCAGACAAAAGATGAAGAAGTCTCCT-GGGTCTAAGCCG
741082 ATGGGCAAACAATTGATAAAG
65 ATGGGCAAACAATTGATAAAG
* * * ** * ** *
741103 GAAGTCTCTCAGGACTGAGCTGATAGGTGGACGATGGATGAAGAAGTCTCCTGTGTCTAAGCCGA
1 GAAGTCTCCCAGGACTAAGCTGATAAGCAGACAAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGA
*
741168 TGGGCAGACAATTGATAAAG
66 TGGGCAAACAATTGATAAAG
* ** * *
741188 GAGGTCTCCTGGGTCTAAGCTGATGAGCA
1 GAAGTCTCCCAGGACTAAGCTGATAAGCA
741217 AACAGTTAAT
Statistics
Matches: 89, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
85 87 0.98
86 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (85 bp):
GAAGTCTCCCAGGACTAAGCTGATAAGCAGACAAAAGATGAAGAAGTCTCCTGGGTCTAAGCCGA
TGGGCAAACAATTGATAAAG
Found at i:741229 original size:43 final size:43
Alignment explanation
Indices: 741146--741240 Score: 118
Period size: 43 Copynumber: 2.2 Consensus size: 43
741136 ATGGATGAAG
* * * * *
741146 AAGTCTCCTGTGTCTAAGCCGATGGGCAGACAATTGATAAAGG
1 AAGTCTCCTGGGTCTAAGCCGATGAGCAAACAATTAATAAAGA
* * *
741189 AGGTCTCCTGGGTCTAAGCTGATGAGCAAACAGTTAATAAAGA
1 AAGTCTCCTGGGTCTAAGCCGATGAGCAAACAATTAATAAAGA
741232 AAGTCTCCT
1 AAGTCTCCT
741241 AGGACTGAGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (43 bp):
AAGTCTCCTGGGTCTAAGCCGATGAGCAAACAATTAATAAAGA
Found at i:741245 original size:128 final size:126
Alignment explanation
Indices: 741012--741360 Score: 337
Period size: 128 Copynumber: 2.7 Consensus size: 126
741002 CAAATAAAGA
* * ** * *
741012 GATGAAGAAGTCTCCCAGGTCTAAGCTGATAAGCAGACAAAAGATGAAGGAGTCTCTCGGGTTTA
1 GATGAAGAAGTCT-CCTGGTCTAAGCCGATGGGCAGACAAAAGATAAAGGAGTCTCTCGGGTCTA
* * * * **
741077 AGTCGATGGGCAAACAATTGATAAAGGAAGTCTCTCAGGACTGAGCTGATAGGTGGACGATG
65 AGTCGATGAGCAAACAATTAATAAAGAAAGTCTCTCAGGACTGAGCTGACAGGTAAACGATG
**
741139 GATGAAGAAGTCTCCTGTGTCTAAGCCGATGGGCAGACAATTGATAAAGGAGGTCTC-CTGGGTC
1 GATGAAGAAGTCTCCTG-GTCTAAGCCGATGGGCAGACAAAAGATAAAGGA-GTCTCTC-GGGTC
* *
741203 TAAG-CTGATGAGCAAACAGTTAATAAAGAAAGTCTC-CTAGGACTGAGCTGACAGGTAAACGGT
63 TAAGTC-GATGAGCAAACAATTAATAAAGAAAGTCTCTC-AGGACTGAGCTGACAGGTAAACGAT
741266 G
126 G
* * * * * * * * * * *
741267 GATGAAAAAATCTCCTGGGTCAAAGCCGATGGGTAAACGAAAGATGAAGAAAGTTTCTCGAGTCA
1 GATGAAGAAGTCTCCT-GGTCTAAGCCGATGGGCAGACAAAAGATAAAG-GAGTCTCTCGGGTCT
*
741332 AAGTCGAT-AGGCAGACAATTAATAAAGAA
64 AAGTCGATGA-GCAAACAATTAATAAAGAA
741361 GGTTCCCAGG
Statistics
Matches: 181, Mismatches: 31, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
126 3 0.02
127 44 0.24
128 130 0.72
129 4 0.02
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (126 bp):
GATGAAGAAGTCTCCTGGTCTAAGCCGATGGGCAGACAAAAGATAAAGGAGTCTCTCGGGTCTAA
GTCGATGAGCAAACAATTAATAAAGAAAGTCTCTCAGGACTGAGCTGACAGGTAAACGATG
Found at i:741522 original size:42 final size:42
Alignment explanation
Indices: 741392--741534 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 42
741382 TGGTAGATGG
741392 TGGATGAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAAACGA
1 TGGATGAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAAACGA
** * * *
741434 AAGATGAA-ATAATCTCCCGAGTCTAAGCTGACGGACAAACGG
1 TGGATGAAGA-AGTCTCCCGAGTCTAAGCTGACGGGCAAACGA
* * * *
741476 TGGATGAAGAAGTCTCTCGAATCTAAG-TCGATGGGCAGACGA
1 TGGATGAAGAAGTCTCCCGAGTCTAAGCT-GACGGGCAAACGA
* *
741518 TGGATAAAAAAGTCTCC
1 TGGATGAAGAAGTCTCC
741535 AAGGTCAAAG
Statistics
Matches: 81, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.02
42 78 0.96
43 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.27, T:0.19
Consensus pattern (42 bp):
TGGATGAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAAACGA
Found at i:741546 original size:84 final size:83
Alignment explanation
Indices: 741390--741628 Score: 207
Period size: 84 Copynumber: 2.8 Consensus size: 83
741380 ATTGGTAGAT
* * * ** * *
741390 GGTGGATGAAGAAGTCTCCCGAGTCTAAGCTGACGGGCAAACGAAAGATGAAATAA-TCTCC-CG
1 GGTGGATGAAGAAGTCTCTCGAGTCTAAGC-GATGGGCAGACGATGGAT-AAAAAAGTCTCCAAG
*
741453 AGTCTAAGCTGAC-GGACAAAC
64 -GTCAAAGCTGACAGG-CAAAC
*
741474 GGTGGATGAAGAAGTCTCTCGAATCTAAGTCGATGGGCAGACGATGGATAAAAAAGTCTCCAAGG
1 GGTGGATGAAGAAGTCTCTCGAGTCTAAG-CGATGGGCAGACGATGGATAAAAAAGTCTCCAAGG
*
741539 TCAAAGCTGACAGGCAGAC
65 TCAAAGCTGACAGGCAAAC
* * * * * * * * *
741558 -TTAAGAGGGAAGAAGTCTCTCGGGTCTAAGCCGATAGGCAGATGGTGGATGAAGAAGTCTCCAA
1 GGT-GGA-TGAAGAAGTCTCTCGAGTCTAAG-CGATGGGCAGACGATGGATAAAAAAGTCTCCAA
741622 GGTCAAA
63 GGTCAAA
741629 ACGGATAGGC
Statistics
Matches: 128, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
83 6 0.05
84 63 0.49
85 59 0.46
ACGTcount: A:0.34, C:0.18, G:0.30, T:0.18
Consensus pattern (83 bp):
GGTGGATGAAGAAGTCTCTCGAGTCTAAGCGATGGGCAGACGATGGATAAAAAAGTCTCCAAGGT
CAAAGCTGACAGGCAAAC
Done.