Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 355 of 410
Found at i:109620762 original size:76 final size:76
Alignment explanation
Indices: 109620620--109621552 Score: 959
Period size: 76 Copynumber: 12.1 Consensus size: 76
109620610 TCATCTATCA
* ** *
109620620 GAAAAAGTAAAAATTGAAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGTAATATG
1 GAAAAA-T-AAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
109620685 AGTTGA-TTTTTT
64 AGTTGATTTTTTT
* * *
109620697 GAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGA
1 GAAAAATA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
*
109620762 GTTGGTTTTTTTT
65 GTT-GATTTTTTT
** ** * *** *
109620775 GAAACGT-AAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTTTCGCAATATGAG
1 GAAAAATAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
109620839 TTGATTTTCTTT
66 TTGATTTT-TTT
** ** * *** * *
109620851 GAAACGT-AAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATAAG
1 GAAAAATAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
109620915 TTGATTTTTTTTT
66 TTGA--TTTTTTT
***
109620928 GAAAAATAGAAACAAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 GAAAAATA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
109620993 GTTGATTTTTTTT
65 GTTGA-TTTTTTT
* ** * *** * * *
109621006 GAAACAT-AAATTGAAAATACCTCAATGGGTGATTTGAAGCTCAACTCACCTTTCGTAATATGAG
1 GAAAAATAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
109621070 TTGATTTTTTTTT
66 TTGA--TTTTTTT
* * * *
109621083 GAAAAATAGAAACTAAAAATACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCCCAATATGA
1 GAAAAATA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
109621148 GTTGATTTTTTTT
65 GTTGA-TTTTTTT
* ** *** * * *
109621161 GAAACAT-AAATTGAAAATACCTCAATAG-GTGATTTGAAGCTCAACTCACCTTTCGTAATATGA
1 GAAAAATAAAATTGAAAATACCTC-AGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
109621224 GTTGATTTTTTTTT
65 GTTGA--TTTTTTT
* * *
109621238 GAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTTTCGCAATATGA
1 GAAAAATA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
109621303 GTTGATTTTTTT
65 GTTGATTTTTTT
* * * * *** *
109621315 GAAACAT-AAATTGAAAATACCTTAGTGCG-GATTTGAGGCTCAACTCACCTTTCGCAATATGAG
1 GAAAAATAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
109621378 TTGATTTTTTT
66 TTGATTTTTTT
* * *
109621389 GAAAAAACATAAATTGAAAATACCTCAGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 G-AAAAATA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATG
109621454 AGTTGA--TTTTT
64 AGTTGATTTTTTT
* * * * * *
109621465 GAAAAACAGAAATTGAAAATACCTCGGAGTGTGACCCAAGGCTCAACCCACCTCTCGCAAGATGA
1 GAAAAATA-AAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
109621530 GTTGATTTTTTT
65 GTTGATTTTTTT
109621542 GAAAAATAAAA
1 GAAAAATAAAA
109621553 ATATCAGGAT
Statistics
Matches: 723, Mismatches: 111, Indels: 45
0.82 0.13 0.05
Matches are distributed among these distances:
74 43 0.06
75 88 0.12
76 277 0.38
77 88 0.12
78 78 0.11
79 149 0.21
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.31
Consensus pattern (76 bp):
GAAAAATAAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTT
Found at i:109620998 original size:155 final size:154
Alignment explanation
Indices: 109620636--109621549 Score: 1148
Period size: 155 Copynumber: 6.0 Consensus size: 154
109620626 GTAAAAATTG
* ** *
109620636 AAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTTGAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* * * ** * ***
109620700 AAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTT
66 ACAT--AAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTT
* ** * *
109620765 G-GTTTTTTTTGAAACGT--AAATTG
129 GATTTTTTTTTGAAAAATAGAAACTA
** * *** *
109620788 AAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTCTTTGA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTTGA
* *
109620853 AACGTAAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATAAGTTG
65 AACATAAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
*
109620918 ATTTTTTTTTGAAAAATAGAAACAA
130 ATTTTTTTTTGAAAAATAGAAACTA
109620943 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGA
* * *
109621008 AACATAAATTGAAAATACCTCAATGGGTGATTTGAAGCTCAACTCACCTTTCGTAATATGAGTTG
65 AACATAAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
109621073 ATTTTTTTTTGAAAAATAGAAACTA
130 ATTTTTTTTTGAAAAATAGAAACTA
* *
109621098 AAAATACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCCCAATATGAGTTGATTTTTTTTGA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGA
* *
109621163 AACATAAATTGAAAATACCTCAATAG-GTGATTTGAAGCTCAACTCACCTTTCGTAATATGAGTT
65 AACATAAATTGAAAATACCTCAAT-GCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTT
109621227 GATTTTTTTTTGAAAAATAGAAACTA
129 GATTTTTTTTTGAAAAATAGAAACTA
*
109621253 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* * * *
109621318 ACATAAATTGAAAATACCTTAGTGCG-GATTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGA
66 ACATAAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
* * * *
109621382 --TTTTTTTGAAAAAACATAAATTG
131 TTTTTTTTTG-AAAAATAGAAACTA
* * ***
109621405 AAAATACCTCAGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAA
1 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
* * * **** * * *
109621470 ACAGAAATTGAAAATACCTCGGA-GTGTGACCCAAGGCTCAACCCACCTCTCGCAAGATGAGTTG
66 ACATAAATTGAAAATACCTC-AATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTTG
109621534 A--TTTTTTTGAAAAATA
130 ATTTTTTTTTGAAAAATA
109621550 AAAATATCAG
Statistics
Matches: 684, Mismatches: 67, Indels: 22
0.88 0.09 0.03
Matches are distributed among these distances:
151 8 0.01
152 196 0.29
153 92 0.13
154 40 0.06
155 343 0.50
156 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (154 bp):
AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
ACATAAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
TTTTTTTTTGAAAAATAGAAACTA
Found at i:109621030 original size:231 final size:228
Alignment explanation
Indices: 109620630--109621551 Score: 1084
Period size: 231 Copynumber: 4.0 Consensus size: 228
109620620 GAAAAAGTAA
* * *
109620630 AAATTGAAAATACCTCAGTGTGTGACTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTT
1 AAATTGAAAATACCTCAATGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
109620694 TTTGAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGTAATA
66 TTTGAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * ***
109620759 TGAGTTGGTTTTTTTTGAAACGTAAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCAC
131 TGAGTTGATTTTTTTTGAAACATAAATTGAAAATACCTCAATGTGTGACCCGAGGCTCAACTCAC
*
109620824 CTTTCGCAATATGAGTTGATTTTCTTTGAAACGT
196 CTTTCGCAATATGAGTTGATTTT-TTTGAAACAT
* * *
109620858 AAATTGAAAATACCTCAATGCGTGATTTGAGGCTCAACTCACCTCTCGTAATATAAGTTGATTTT
1 AAATTGAAAATACCTCAATGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
*
109620923 TTTTTGAAAAATAGAAACAAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
64 TTTTTGAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAA
* *** *
109620988 TATGAGTTGATTTTTTTTGAAACATAAATTGAAAATACCTCAATGGGTGATTTGAAGCTCAACTC
129 TATGAGTTGATTTTTTTTGAAACATAAATTGAAAATACCTCAATGTGTGACCCGAGGCTCAACTC
* *
109621053 ACCTTTCGTAATATGAGTTGATTTTTTTTTGAAAAAT
194 ACCTTTCGCAATATGAGTTGA--TTTTTTTGAAACAT
* * * * ** *
109621090 AGAAACTAAAAATACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCCCAATATGAGTTGATT
1 --AAATTGAAAATACCTCAATGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T
* * * ** *** * * *
109621155 TTTTTTGAAACAT--AAATTGAAAATACCTCAATAG-GTGATTTGAAGCTCAACTCACCTTTCGT
63 TTTTTTGAAAAATAGAAACTAAAAATACCTC-AGCGTGTGACCCGAGGCTCAACTCACCTCTCGC
* * * **
109621217 AATATGAGTTGATTTTTTTTTGAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTC
127 AATATGAGTTGA-TTTTTTTTGAAACAT--AAATTGAAAATACCTCAATGTGTGACCCGAGGCTC
109621282 AACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACAT
189 AACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAACAT
* * * *
109621322 AAATTGAAAATACCTTAGTGCG-GATTTGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTT
1 AAATTGAAAATACCTCAATGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * * * *
109621386 TTTGAAAAAACATAAATTGAAAATACCTCAGCATGTGTCCCGAGGCTCAACTCACCTCTCGCAAT
66 TTTG-AAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
*** * * * *
109621451 ATGAGTTGA-TTTTTGAAAAACAGAAATTGAAAATACCTCGGA-GTGTGACCCAAGGCTCAACCC
130 ATGAGTTGATTTTTTTTGAAACATAAATTGAAAATACCTC-AATGTGTGACCCGAGGCTCAACTC
* * *
109621514 ACCTCTCGCAAGATGAGTTGATTTTTTTGAAAAAT
194 ACCTTTCGCAATATGAGTTGATTTTTTTGAAACAT
109621549 AAA
1 AAA
109621552 AATATCAGGA
Statistics
Matches: 594, Mismatches: 84, Indels: 33
0.84 0.12 0.05
Matches are distributed among these distances:
227 68 0.11
228 65 0.11
229 46 0.08
230 17 0.03
231 241 0.41
232 37 0.06
233 18 0.03
234 102 0.17
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (228 bp):
AAATTGAAAATACCTCAATGCGTGACTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAAATAGAAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTGAAACATAAATTGAAAATACCTCAATGTGTGACCCGAGGCTCAACTCAC
CTTTCGCAATATGAGTTGATTTTTTTGAAACAT
Found at i:109633746 original size:19 final size:18
Alignment explanation
Indices: 109633713--109633760 Score: 59
Period size: 17 Copynumber: 2.8 Consensus size: 18
109633703 TATAATATCT
109633713 AAAATA-AAATA-ATAATG
1 AAAATATAAATAGATAA-G
109633730 AAAATATAAATAGATAAG
1 AAAATATAAATAGATAAG
109633748 -AAATAT-AATAGAT
1 AAAATATAAATAGAT
109633761 GAGCGATGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 7 0.24
17 12 0.41
18 6 0.21
19 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (18 bp):
AAAATATAAATAGATAAG
Found at i:109633800 original size:17 final size:17
Alignment explanation
Indices: 109633714--109633800 Score: 54
Period size: 17 Copynumber: 4.8 Consensus size: 17
109633704 ATAATATCTA
*
109633714 AAATAAAATAATA-ATG
1 AAATATAATAATAGATG
109633730 AAA-AT-ATAAATAGATAAG
1 AAATATAAT-AATAGAT--G
109633748 AAATATAATAGATGAGCGATG
1 AAATATAATA-AT-A--GATG
* *
109633769 AGAAAATAATTATAGATG
1 A-AATATAATAATAGATG
109633787 AAATATAATAATAG
1 AAATATAATAATAG
109633801 TCATAATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 21
0.68 0.06 0.26
Matches are distributed among these distances:
14 2 0.04
15 5 0.09
16 5 0.09
17 11 0.20
18 9 0.16
19 3 0.05
20 5 0.09
21 5 0.09
22 7 0.13
23 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.14, T:0.25
Consensus pattern (17 bp):
AAATATAATAATAGATG
Found at i:109633827 original size:3 final size:3
Alignment explanation
Indices: 109633821--109634228 Score: 128
Period size: 3 Copynumber: 136.7 Consensus size: 3
109633811 ATAGTAGTAG
* *
109633821 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAT TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
*** * * * * *
109633867 CGG TGAA AAA TAA TAGA -AA TAA TAA TGA TAA TGA TAA TGA TAA CAA
1 TAA T-AA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * **
109633913 TAC TAA CAA TAA TAA TGA -AA TACA -AA -AA GCA -AA T-A TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * *
109633954 TAA TAT TAA -AA TAA -AG TAAA TAA AAA TAA TAC T-A TATA TAA AAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA
** * * *
109633998 T-A TGT TCA T-A TACA TATA CAA TAA AAA T-A TACA CTAA TATA TAA
1 TAA TAA TAA TAA TA-A TA-A TAA TAA TAA TAA TA-A -TAA TA-A TAA
109634042 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TACA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
** * *
109634087 -AA GCA TATA TAA T-A TAA T-A TAA TAA -AA GTAT TAA -AA TAA -AG
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * *
109634128 TAA TAA AAA TAA TAC T-A TATA TAA -ATA TCTA TACA T-A TACA TATA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TA-A T-AA TA-A TAA TA-A TA-A
*
109634173 TAA TAA -AA -AA T-A TACA CTAA TATA TGA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A -TAA TA-A TAA TAA TAA TAA TAA TAA TAA
*
109634218 TAG TAA TAA TA
1 TAA TAA TAA TA
109634229 TTGAAATACC
Statistics
Matches: 301, Mismatches: 61, Indels: 86
0.67 0.14 0.19
Matches are distributed among these distances:
2 40 0.13
3 215 0.71
4 42 0.14
5 4 0.01
ACGTcount: A:0.61, C:0.05, G:0.04, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:109634045 original size:147 final size:146
Alignment explanation
Indices: 109633886--109634369 Score: 652
Period size: 147 Copynumber: 3.2 Consensus size: 146
109633876 ATAATAGAAA
* * * * *
109633886 TAATA-ATGATAATGATAATGATAACAATACTAACAATAATAATGAAATACAAAAAGCAAATATA
1 TAATATATAATAATAATAATAATAATAATAATAA-AATAATAATGAAATACAAAAAGCAAATATA
* * * *
109633950 ATAATAATATTAAAATAAAGTAAATAAAAATAATACTATATATAAAAATATGTTCATATACATAT
65 ATAATAATATTAAAATAAAGT-AATAAAAATAATACTATATATAAATATCTATACATATACATAT
109634015 ACAAT-AAAAATATACAC
129 ACAATAAAAAATATACAC
*
109634032 TAATATATAATAATAATAATAATAATAATAATAATAATAATAATAATAATACAAAAAGCATATAT
1 TAATATATAATAATAATAATAATAATAATAATAA-AATAATAATGA-AATACAAAAAGC----A-
109634097 AATATAATATAATAAAAGTATTAAAATAAAGTAATAAAAATAATACTATATATAAATATCTATAC
59 AATAT-A-ATAAT--AA-TATTAAAATAAAGTAATAAAAATAATACTATATATAAATATCTATAC
*
109634162 ATATACATATATAATAAAAAATATACAC
119 ATATACATATACAATAAAAAATATACAC
* * *
109634190 TAATATATGATAATAATAATAATAATAATAGT--AATAATATTGAAATACCAAAAAAGCAAATAT
1 TAATATATAATAATAATAATAATAATAATAATAAAATAATAATGAAATA-C-AAAAAGCAAATAT
*
109634253 AATAAAAATATTAAAATAAAGTAATAAAAAATAATACTATATATAAATATCTATACATATACATA
64 AATAATAATATTAAAATAAAGTAAT-AAAAATAATACTATATATAAATATCTATACATATACATA
109634318 TACAATAAAAAATATACAC
128 TACAATAAAAAATATACAC
109634337 TAATATATAATAATAATAATAATAATAATAATA
1 TAATATATAATAATAATAATAATAATAATAATA
109634370 GTGATAATAT
Statistics
Matches: 301, Mismatches: 20, Indels: 32
0.85 0.06 0.09
Matches are distributed among these distances:
146 22 0.07
147 122 0.41
148 12 0.04
149 4 0.01
150 1 0.00
151 5 0.02
152 2 0.01
153 5 0.02
154 5 0.02
155 15 0.05
156 7 0.02
157 45 0.15
158 56 0.19
ACGTcount: A:0.61, C:0.06, G:0.03, T:0.30
Consensus pattern (146 bp):
TAATATATAATAATAATAATAATAATAATAATAAAATAATAATGAAATACAAAAAGCAAATATAA
TAATAATATTAAAATAAAGTAATAAAAATAATACTATATATAAATATCTATACATATACATATAC
AATAAAAAATATACAC
Found at i:109634351 original size:3 final size:3
Alignment explanation
Indices: 109634337--109634405 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
109634327 AAATATACAC
* * *
109634337 TAA TATA TAA TAA TAA TAA TAA TAA TAA TAA TAG TGA TAA TAT TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
109634383 TAA TAT TAGA -AA TAA TAA CAA TA
1 TAA TAA TA-A TAA TAA TAA TAA TA
109634406 TTTAATAAAG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 1 0.02
3 49 0.92
4 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:109637186 original size:10 final size:10
Alignment explanation
Indices: 109637171--109637219 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
109637161 CTAAATTCTA
109637171 AAAGATAAAT
1 AAAGATAAAT
109637181 AAAGATAAAT
1 AAAGATAAAT
109637191 AAAGA-AAAGT
1 AAAGATAAA-T
*
109637201 AGAGATAAAT
1 AAAGATAAAT
*
109637211 AGAGATAAA
1 AAAGATAAA
109637220 GCTAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
9 3 0.08
10 30 0.83
11 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:109640138 original size:44 final size:43
Alignment explanation
Indices: 109640070--109640195 Score: 130
Period size: 44 Copynumber: 2.9 Consensus size: 43
109640060 CATAGGATTC
* *
109640070 CGATATGTGATTT-CGTGTAAGACCACGTTTGGGACGTTGCCAT
1 CGATATGTGATTTATGT-TAAGACCACGTCTGGGACGTTGCCAT
* * * * *
109640113 CGATTTGTGATTTATGTATAAGACCACATCTGGGACATCGGCAT
1 CGATATGTGATTTATGT-TAAGACCACGTCTGGGACGTTGCCAT
* *
109640157 CGATATGTGATTACATG-TAAGACCACGTCTAGGACGTTG
1 CGATATGTGATT-TATGTTAAGACCACGTCTGGGACGTTG
109640196 GAATTGTACA
Statistics
Matches: 67, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
43 30 0.45
44 34 0.51
45 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATGTGATTTATGTTAAGACCACGTCTGGGACGTTGCCAT
Found at i:109641971 original size:36 final size:36
Alignment explanation
Indices: 109641931--109642004 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
109641921 GCCATTTTTA
* *
109641931 CAGCAACTCGAGCAGGTCTTTTGTTCGAATCTTGAG
1 CAGCAACTAGAGCAGGTCTTTTCTTCGAATCTTGAG
* *
109641967 CAGCAACTAGAGCAGGTTTTTTCTTTGAATCTTGAG
1 CAGCAACTAGAGCAGGTCTTTTCTTCGAATCTTGAG
109642003 CA
1 CA
109642005 ATAATACAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (36 bp):
CAGCAACTAGAGCAGGTCTTTTCTTCGAATCTTGAG
Found at i:109644898 original size:25 final size:25
Alignment explanation
Indices: 109644868--109644918 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
109644858 GAATGAGCCT
*
109644868 TTAAATCAATTTGAATAAAATCAAA
1 TTAAATCAATTGGAATAAAATCAAA
**
109644893 TTAAATTGATTGGAATAAAATCAAA
1 TTAAATCAATTGGAATAAAATCAAA
109644918 T
1 T
109644919 CAAGATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (25 bp):
TTAAATCAATTGGAATAAAATCAAA
Found at i:109645362 original size:26 final size:26
Alignment explanation
Indices: 109645325--109645408 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
109645315 TGATACAAAT
* *
109645325 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
109645351 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
109645377 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
109645403 TGATAA
1 TGATAA
109645409 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:109649990 original size:29 final size:25
Alignment explanation
Indices: 109649965--109650015 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
109649955 ACCTTTATAT
109649965 ATATATTATATAATTTATTTATTTTAA
1 ATATATTATAT-A-TTATTTATTTTAA
* *
109649992 ATATTTTGTATATTATTTATTTTA
1 ATATATTATATATTATTTATTTTA
109650016 CTTTAAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 1 0.05
27 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (25 bp):
ATATATTATATATTATTTATTTTAA
Found at i:109650034 original size:30 final size:28
Alignment explanation
Indices: 109649970--109650034 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
109649960 TATATATATA
* *
109649970 TTATATAATTTATTTATTTTAAATATTT
1 TTATATAATTTATTTACTTTAAACATTT
* *
109649998 TGTATATTATTTATTTTACTTTAAACCTTAT
1 T-TATATAATTTA-TTTACTTTAAACATT-T
109650029 TTATAT
1 TTATAT
109650035 GTAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 10 0.33
30 17 0.57
31 2 0.07
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
TTATATAATTTATTTACTTTAAACATTT
Found at i:109650065 original size:18 final size:18
Alignment explanation
Indices: 109650043--109650113 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
109650033 ATGTAAAAAA
109650043 ATATTTATTTTATT-TGT
1 ATATTTATTTTATTATGT
* *
109650060 ATTATTTATTATATTATTT
1 A-TATTTATTTTATTATGT
109650079 ATATTTATTTTA-TA--T
1 ATATTTATTTTATTATGT
*
109650094 -TATTTATTATATTATGT
1 ATATTTATTTTATTATGT
109650111 ATA
1 ATA
109650114 ATTTTAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
14 10 0.23
15 3 0.07
17 4 0.09
18 24 0.55
19 3 0.07
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (18 bp):
ATATTTATTTTATTATGT
Found at i:109650076 original size:12 final size:12
Alignment explanation
Indices: 109650059--109650108 Score: 72
Period size: 12 Copynumber: 4.5 Consensus size: 12
109650049 ATTTTATTTG
109650059 TATTATTTATTA
1 TATTATTTATTA
109650071 TATTATTTA-TA
1 TATTATTTATTA
109650082 T-TTA-TT-TTA
1 TATTATTTATTA
109650091 TATTATTTATTA
1 TATTATTTATTA
109650103 TATTAT
1 TATTAT
109650109 GTATAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 5 0.15
10 6 0.18
11 5 0.15
12 18 0.53
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:109650095 original size:32 final size:31
Alignment explanation
Indices: 109650044--109650113 Score: 106
Period size: 32 Copynumber: 2.3 Consensus size: 31
109650034 TGTAAAAAAA
*
109650044 TATTTAT-TTTATTTGTATTATTTATTATAT
1 TATTTATATTTATTTATATTATTTATTATAT
109650074 TATTTATATTTATTTTATATTATTTATTATAT
1 TATTTATATTTA-TTTATATTATTTATTATAT
*
109650106 TATGTATA
1 TATTTATA
109650114 ATTTTAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 7 0.19
31 4 0.11
32 25 0.69
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (31 bp):
TATTTATATTTATTTATATTATTTATTATAT
Found at i:109650113 original size:9 final size:8
Alignment explanation
Indices: 109650059--109650113 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 8
109650049 ATTTTATTTG
109650059 TATTAT-T
1 TATTATAT
109650066 TATTATAT
1 TATTATAT
109650074 TATTTATATT
1 TA-TTATA-T
*
109650084 TATTTTA-
1 TATTATAT
109650091 TATTAT-T
1 TATTATAT
109650098 TATTATAT
1 TATTATAT
109650106 TATGTATA
1 TAT-TATA
109650114 ATTTTAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
7 17 0.43
8 7 0.17
9 13 0.32
10 3 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTATAT
Found at i:109650172 original size:15 final size:15
Alignment explanation
Indices: 109650133--109650173 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
109650123 TTTTAAAATT
109650133 ATTATTAAATATTAC
1 ATTATTAAATATTAC
* *
109650148 ATTTTTATATA-T-C
1 ATTATTAAATATTAC
109650161 ATTATTAAATATT
1 ATTATTAAATATT
109650174 TAGTATGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATTAAATATTAC
Found at i:109650681 original size:30 final size:28
Alignment explanation
Indices: 109650617--109650681 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
109650607 TTTATATATA
*
109650617 TTATATAATTTATTTAATTTAAATATTT
1 TTATATAATTTATTTAATTTAAACATTT
* * *
109650645 TGTATATTATTTATTTTACTTTAAACCTTAT
1 T-TATATAATTTA-TTTAATTTAAACATT-T
109650676 TTATAT
1 TTATAT
109650682 GTAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 10 0.33
30 17 0.57
31 2 0.07
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (28 bp):
TTATATAATTTATTTAATTTAAACATTT
Found at i:109650724 original size:12 final size:12
Alignment explanation
Indices: 109650707--109650757 Score: 63
Period size: 12 Copynumber: 4.5 Consensus size: 12
109650697 ATTTTATTTG
109650707 TATTATTTATTA
1 TATTATTTATTA
109650719 TATTATTTA-TA
1 TATTATTTATTA
* *
109650730 TTTTA-TT-GTA
1 TATTATTTATTA
109650740 TATTATTTATTA
1 TATTATTTATTA
109650752 TATTAT
1 TATTAT
109650758 GTATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 8 0.24
11 8 0.24
12 17 0.52
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TATTATTTATTA
Found at i:109650724 original size:21 final size:20
Alignment explanation
Indices: 109650692--109650749 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
109650682 GTAAAAAAAA
* *
109650692 TATTTATTTTATTTGTATTAT
1 TATTTATATTATTTATATT-T
109650713 T-TATTATATTATTTATATTT
1 TAT-TTATATTATTTATATTT
109650733 TATTGTATATTATTTAT
1 TATT-TATATTATTTAT
109650750 TATATTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 4 0.12
21 28 0.88
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (20 bp):
TATTTATATTATTTATATTT
Found at i:109650748 original size:14 final size:13
Alignment explanation
Indices: 109650692--109650757 Score: 52
Period size: 12 Copynumber: 5.2 Consensus size: 13
109650682 GTAAAAAAAA
109650692 TATTTATTT-TAT
1 TATTTATTTATAT
* *
109650704 T-TGTATTATTTAT
1 TATTTATT-TATAT
109650717 TATATTATTTATA-
1 TAT-TTATTTATAT
109650730 T-TTTATTGTATAT
1 TATTTATT-TATAT
109650743 TATTTA-TTATAT
1 TATTTATTTATAT
109650755 TAT
1 TAT
109650758 GTATAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
11 10 0.23
12 15 0.34
13 7 0.16
14 8 0.18
15 4 0.09
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TATTTATTTATAT
Found at i:109650749 original size:33 final size:32
Alignment explanation
Indices: 109650696--109650768 Score: 110
Period size: 33 Copynumber: 2.2 Consensus size: 32
109650686 AAAAAATATT
* *
109650696 TATTTTATTTGTATTATTTATTATATTATTTA
1 TATTTTATTTATATTATTTATTATATTATGTA
109650728 TATTTTATTGTATATTATTTATTATATTATGTA
1 TATTTTATT-TATATTATTTATTATATTATGTA
109650761 TAATTTTA
1 T-ATTTTA
109650769 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 9 0.24
33 22 0.59
34 6 0.16
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (32 bp):
TATTTTATTTATATTATTTATTATATTATGTA
Found at i:109651214 original size:26 final size:26
Alignment explanation
Indices: 109651178--109651286 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
109651168 TGATACAAAT
109651178 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109651204 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
109651230 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109651255 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109651281 TGATAA
1 TGATAA
109651287 GAATTTCATG
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
25 24 0.30
26 57 0.70
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:109651243 original size:51 final size:52
Alignment explanation
Indices: 109651178--109651286 Score: 184
Period size: 51 Copynumber: 2.1 Consensus size: 52
109651168 TGATACAAAT
109651178 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
* * *
109651230 TGATAAT-GGTTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
109651281 TGATAA
1 TGATAA
109651287 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
51 47 0.87
52 7 0.13
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.37
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:109657004 original size:26 final size:26
Alignment explanation
Indices: 109656975--109657084 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
109656965 TGGTACAAAT
109656975 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109657001 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109657027 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
109657053 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
109657079 TGATAA
1 TGATAA
109657085 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:109658594 original size:25 final size:26
Alignment explanation
Indices: 109658566--109658617 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
109658556 TTTACAGTTT
109658566 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
109658591 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
109658617 T
1 T
109658618 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:109661150 original size:15 final size:15
Alignment explanation
Indices: 109661130--109661160 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
109661120 AACAATTGCT
109661130 ACTTAAATATTGAAA
1 ACTTAAATATTGAAA
109661145 ACTTAAATATTGAAA
1 ACTTAAATATTGAAA
109661160 A
1 A
109661161 TGACATATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (15 bp):
ACTTAAATATTGAAA
Found at i:109661495 original size:25 final size:25
Alignment explanation
Indices: 109661438--109661487 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
109661428 TTCCAGGAGA
*
109661438 AAAATATTGATTTGTAACGGTTATT
1 AAAATTTTGATTTGTAACGGTTATT
109661463 AAAATTTTGATTTGTAACGGTTATT
1 AAAATTTTGATTTGTAACGGTTATT
109661488 CTCGTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (25 bp):
AAAATTTTGATTTGTAACGGTTATT
Found at i:109663544 original size:36 final size:36
Alignment explanation
Indices: 109663492--109663564 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
109663482 CGCCAGTTTT
109663492 AACAGCAACTCAAGCAGGTCTTTAATTCGAATCTTG
1 AACAGCAACTCAAGCAGGTCTTTAATTCGAATCTTG
** * * *
109663528 AACAGCAACTGGAGCAGGTTTTTTATTTGAATCTTG
1 AACAGCAACTCAAGCAGGTCTTTAATTCGAATCTTG
109663564 A
1 A
109663565 GCAACAATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (36 bp):
AACAGCAACTCAAGCAGGTCTTTAATTCGAATCTTG
Found at i:109667052 original size:3 final size:3
Alignment explanation
Indices: 109667040--109667085 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
109667030 TGAAAATTTA
109667040 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
109667086 AGTTTTGGGG
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:109667898 original size:23 final size:24
Alignment explanation
Indices: 109667872--109667921 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
109667862 ATACAAATTG
*
109667872 ATAATGGGTTAGGTAAATGTTTCATA
1 ATAATGGGTTAGGTAAATGTTGC--A
109667898 ATAATGGGTTAGGTAAATGTTGCA
1 ATAATGGGTTAGGTAAATGTTGCA
109667922 TGATGGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 1 0.04
26 22 0.96
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (24 bp):
ATAATGGGTTAGGTAAATGTTGCA
Found at i:109669114 original size:8 final size:8
Alignment explanation
Indices: 109669101--109669136 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
109669091 CTAGATCGGC
109669101 AAAAGCCG
1 AAAAGCCG
109669109 AAAAGCCG
1 AAAAGCCG
109669117 AAAAGCCG
1 AAAAGCCG
*
109669125 AAATGCCG
1 AAAAGCCG
109669133 AAAA
1 AAAA
109669137 CCGGTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.53, C:0.22, G:0.22, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:109672927 original size:16 final size:16
Alignment explanation
Indices: 109672906--109672936 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109672896 TTAAATGATA
109672906 TTAGTACATATATATT
1 TTAGTACATATATATT
*
109672922 TTAGTACCTATATAT
1 TTAGTACATATATAT
109672937 GTATACTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (16 bp):
TTAGTACATATATATT
Found at i:109673274 original size:19 final size:20
Alignment explanation
Indices: 109673250--109673309 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
109673240 AATACTACAT
* *
109673250 TATATATATTT-TTATGTTG
1 TATATATATTTCTAATATTG
109673269 TATATATATTTCTAATATTG
1 TATATATATTTCTAATATTG
109673289 TATATTAAGTATTTCTAATAT
1 TATA-T-A-TATTTCTAATAT
109673310 CCTTATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.31
20 10 0.29
21 1 0.03
22 1 0.03
23 12 0.34
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (20 bp):
TATATATATTTCTAATATTG
Found at i:109673639 original size:17 final size:17
Alignment explanation
Indices: 109673619--109673733 Score: 158
Period size: 17 Copynumber: 6.5 Consensus size: 17
109673609 AATGATATGT
109673619 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
* *
109673636 AATCTTAAATATGATTGC
1 AATCTTAGATATGA-TAC
109673654 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
109673671 GATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
109673688 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
109673706 AATCTTAGATATGATATAC
1 AATCTTAGATATG--ATAC
109673725 AATCTTAGA
1 AATCTTAGA
109673734 AGATATAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 44 0.51
18 30 0.35
19 11 0.13
20 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:109673658 original size:35 final size:36
Alignment explanation
Indices: 109673610--109673733 Score: 164
Period size: 35 Copynumber: 3.5 Consensus size: 36
109673600 ATAATTTTCA
** *
109673610 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGATATACAATCTTAGATATGATACAATCTTAGAT
* *
109673646 ATGAT-TGCAATCTTAGATATGATACGATCTTAGAT
1 ATGATATACAATCTTAGATATGATACAATCTTAGAT
*
109673681 ATG--ATACAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATACAATCTTAGATATGA-TACAATCTTAGAT
109673716 ATGATATACAATCTTAGA
1 ATGATATACAATCTTAGA
109673734 AGATATAATT
Statistics
Matches: 78, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
34 16 0.21
35 44 0.56
36 5 0.06
37 13 0.17
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (36 bp):
ATGATATACAATCTTAGATATGATACAATCTTAGAT
Found at i:109673677 original size:52 final size:52
Alignment explanation
Indices: 109673620--109673721 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
109673610 ATGATATGTA
109673620 ATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGATACG
1 ATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGATACG
*
109673672 ATCTTAGATATGATACAATCTTAGATATGATTGCAATCTTAGATATGATA
1 ATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGATA
109673722 TACAATCTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (52 bp):
ATCTTAGATATGATACAATCTTAAATATGATTGCAATCTTAGATATGATACG
Found at i:109674249 original size:37 final size:37
Alignment explanation
Indices: 109674174--109674264 Score: 98
Period size: 37 Copynumber: 2.5 Consensus size: 37
109674164 ATTCTTTTAC
* * *
109674174 ATATTTGATATTTTATA-CATTATTTTTCTAAACCAAT
1 ATATTTTATATTTTATATAATTATTATTCTAAA-CAAT
*
109674211 ATATTTTATATTTTATATAATTATTATTCTTATA-AAT
1 ATATTTTATATTTTATATAATTATTATTC-TAAACAAT
*
109674248 ATATTTT-TATTATATAT
1 ATATTTTATATTTTATAT
109674265 TATATTTTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
36 9 0.19
37 26 0.55
38 9 0.19
39 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.57
Consensus pattern (37 bp):
ATATTTTATATTTTATATAATTATTATTCTAAACAAT
Found at i:109674252 original size:17 final size:16
Alignment explanation
Indices: 109674219--109674273 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
109674209 ATATATTTTA
109674219 TATTTTATATAATTAT
1 TATTTTATATAATTAT
109674235 TATTCTTATA-AATATAT
1 TATT-TTATATAAT-TAT
*
109674252 TTTTATTATAT-ATTA-
1 TATT-TTATATAATTAT
109674267 TATTTTA
1 TATTTTA
109674274 AATTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 3 0.09
15 3 0.09
16 9 0.27
17 18 0.55
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTTTATATAATTAT
Found at i:109675702 original size:20 final size:19
Alignment explanation
Indices: 109675651--109675702 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
109675641 TTTATTATTA
*
109675651 ATATTAGTATATATATTTT
1 ATATTAGTATACATATTTT
*
109675670 ATTATTCTTGTATACATATTTT
1 A-TA-T-TAGTATACATATTTT
109675692 ATATATAGTAT
1 ATAT-TAGTAT
109675703 TATTTTCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 3 0.12
22 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (19 bp):
ATATTAGTATACATATTTT
Found at i:109675893 original size:21 final size:22
Alignment explanation
Indices: 109675869--109675944 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 22
109675859 ATTCTTATTA
109675869 TTATTAATATTA-GTATATGTT
1 TTATTAATATTAGGTATATGTT
* *
109675890 TTATT-AT-TTATGTATATATCT
1 TTATTAATATTAGGTATATGT-T
*
109675911 TTAATACATA-TAGGTATATG-T
1 TTATTA-ATATTAGGTATATGTT
109675932 TTATGTAATATTA
1 TTAT-TAATATTA
109675945 TTAATAAGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
19 3 0.07
20 9 0.21
21 17 0.40
22 4 0.09
23 10 0.23
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (22 bp):
TTATTAATATTAGGTATATGTT
Found at i:109675987 original size:40 final size:41
Alignment explanation
Indices: 109675934--109676012 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 41
109675924 GTATATGTTT
* *
109675934 ATGTAATATTATTA-ATAAGTGTTTTCGACATTATTATTATGC
1 ATGTAATATTATTATATAAATGTTTT-AACATTA-TATTATGC
*
109675976 ATGT-ATA-TATTATGTAAATGTTTTAACATTATATTAT
1 ATGTAATATTATTATATAAATGTTTTAACATTATATTAT
109676013 ATATGTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
39 6 0.18
40 11 0.33
41 12 0.36
42 4 0.12
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.49
Consensus pattern (41 bp):
ATGTAATATTATTATATAAATGTTTTAACATTATATTATGC
Found at i:109688305 original size:14 final size:14
Alignment explanation
Indices: 109688286--109688320 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
109688276 CGCTGAGGTA
*
109688286 TTTTCAATTTCTGT
1 TTTTCAATTTATGT
109688300 TTTTCAATTTATGT
1 TTTTCAATTTATGT
109688314 TTTTCAA
1 TTTTCAA
109688321 AAATCAATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.06, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:109688392 original size:87 final size:86
Alignment explanation
Indices: 109688210--109688393 Score: 226
Period size: 87 Copynumber: 2.1 Consensus size: 86
109688200 TGGTACTCTG
* * *
109688210 ATGTTTGAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 ATGTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGAC
* *
109688275 ACGCTGAGGTATTTTCAATTT
66 ACGCCGAGGTATTTTCAATTA
* * * * *
109688296 CTGTTTTTCAATTTATGTTTTTC-AAAAATCAATTCATATTGCTAGAGGTAAGTTGAGCGTCGGG
1 ATG--TTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGG
*
109688360 TCACATGCCGAGGTATTTTCAATTA
64 --ACACGCCGAGGTATTTTCAATTA
109688385 ATGTTTCAA
1 ATGTTTCAA
109688394 AAATCAACTC
Statistics
Matches: 82, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
86 2 0.02
87 42 0.51
88 16 0.20
89 22 0.27
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (86 bp):
ATGTTTCAATTTATGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTAAGTTGAGCCTCAGGAC
ACGCCGAGGTATTTTCAATTA
Found at i:109688663 original size:76 final size:75
Alignment explanation
Indices: 109688300--109688788 Score: 454
Period size: 75 Copynumber: 6.3 Consensus size: 75
109688290 CAATTTCTGT
* * * * * * *
109688300 TTTTCAATTTATGTTTTTC--AAAAATCAATTCATATTGCTAGAGGTAAGTTGAGCGTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--A
*
109688363 CATGCCGAGGTA
64 CACGCCGAGGTA
** *
109688375 TTTTCAATTAATG--TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
109688436 CACACTGAGGTA
66 CGC-C-GAGGTA
* * *
109688448 TTTTCAATTCCT-ATTTTCTAAAAAAAAAAGTCAACTCGTATTGCGAGAGGCT-AGTTGAGCCTC
1 TTTTCAATTTCTGCTTTTC----AAAAAAA-TCAACTCATATTGCGAGAGG-TGAGTTGAGCCTC
** *
109688511 AGGGTACACCGAGGTA
60 AGGACACGCCGAGGTA
*
109688527 TTTTCAATTTCTGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
109688592 CGCCGAGGTA
66 CGCCGAGGTA
109688602 TTTTCAATTTCTGCTTTTCAAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGCTTTTCAAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
109688667 ACGCTGAGGTA
65 ACGCCGAGGTA
**
109688678 TTTTCAATTTCTATTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTG
1 TTTTCAATTTCTGCTTTTC-----A-A------AAAAATCAACTCATATTGCGAGAGGTGAGTTG
* * *
109688743 AGCCTCGGGTCACATGTCGAGGTA
54 AGCCTCAGG--ACACGCCGAGGTA
**
109688767 TTTTCAAAATCTGCTTTTCAAA
1 TTTTCAATTTCTGCTTTTCAAA
109688789 TTAAGTTTAA
Statistics
Matches: 351, Mismatches: 34, Indels: 56
0.80 0.08 0.13
Matches are distributed among these distances:
71 4 0.01
72 1 0.00
73 55 0.16
74 5 0.01
75 79 0.23
76 72 0.21
77 1 0.00
79 17 0.05
80 11 0.03
81 37 0.11
82 2 0.01
83 1 0.00
84 1 0.00
87 36 0.10
88 4 0.01
89 25 0.07
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCCGAGGTA
Found at i:109688676 original size:151 final size:148
Alignment explanation
Indices: 109688300--109688788 Score: 454
Period size: 151 Copynumber: 3.1 Consensus size: 148
109688290 CAATTTCTGT
* * * * * *
109688300 TTTTCAATTTATGTTTTTC--AAAAATCAATTCATATTGCTAGAGGTAAGTTGAGCGTCGGGTCA
1 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGT-AGTTGAGCCTCAGGT-A
* **
109688363 CATGCCGAGGTATTTTCAATTAATG-TTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
64 CACG-CGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
109688425 GCCTCAAGACACACACTGAGGTA
128 GCCTCAGGACACGC-C-GAGGTA
* * *
109688448 TTTTCAATTCCT-ATTTTCTAAAAAAAAAAGTCAACTCGTATTGCGAGAGGCTAGTTGAGCCTCA
1 TTTTCAATTTCTGCTTTTC----AAAAAAA-TCAACTCATATTGCGAGAGG-TAGTTGAGCCTCA
*
109688512 GGGTACAC-CGAGGTATTTTCAATTTCTGCTTTTCAAAAAAATCAATTCATATTGCGAGAGGTGA
60 -GGTACACGCGAGGTATTTTCAATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGA
109688576 GTTGAGCCTCAGGACACGCCGAGGTA
123 GTTGAGCCTCAGGACACGCCGAGGTA
109688602 TTTTCAATTTCTGCTTTTCAAAAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-A
1 TTTTCAATTTCTGCTTTTCAAAAAA-ATCAACTCATATTGCGAGAGGT-AGTTGAGCCTCAGGTA
*
109688666 CACGCTGAGGTATTTTCAATTTCTATTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCG
64 CACGC-GAGGTATTTTCAATTTCT-GTTTTC-----A-A------AAAAATCAACTCATATTGCG
* * *
109688731 AGAGGTGAGTTGAGCCTCGGGTCACATGTCGAGGTA
115 AGAGGTGAGTTGAGCCTCAGG--ACACGCCGAGGTA
**
109688767 TTTTCAAAATCTGCTTTTCAAA
1 TTTTCAATTTCTGCTTTTCAAA
109688789 TTAAGTTTAA
Statistics
Matches: 284, Mismatches: 24, Indels: 49
0.80 0.07 0.14
Matches are distributed among these distances:
147 5 0.02
148 10 0.04
149 4 0.01
150 4 0.01
151 60 0.21
152 19 0.07
153 5 0.02
154 51 0.18
155 10 0.04
156 45 0.16
157 1 0.00
163 39 0.14
165 31 0.11
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (148 bp):
TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTAGTTGAGCCTCAGGTACA
CGCGAGGTATTTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAGGACACGCCGAGGTA
Found at i:109688697 original size:14 final size:14
Alignment explanation
Indices: 109688678--109688712 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
109688668 CGCTGAGGTA
*
109688678 TTTTCAATTTCTAT
1 TTTTCAATTTATAT
109688692 TTTTCAATTTATAT
1 TTTTCAATTTATAT
109688706 TTTTCAA
1 TTTTCAA
109688713 AAATCAACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATAT
Found at i:109688748 original size:87 final size:87
Alignment explanation
Indices: 109688623--109688927 Score: 271
Period size: 90 Copynumber: 3.5 Consensus size: 87
109688613 TGCTTTTCAA
109688623 AAAACATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTCAATT
1 AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATT
*
109688687 TCTATTTTTCAATTTATATTTTT
65 TCTGTTTTTCAATTTATATTTTT
* *
109688710 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATG-TCGAGGTATTTTCAA
1 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT-ACACGCT-GAGGTATTTTCAA
** * * **
109688774 AATCTGCTTTTCAAATTA-AGTTTAAAA
63 TTTCTGTTTTTCAATTTATA-TTT--TT
* * * * * *
109688801 AAAAAACAAGTCATATTGTGAGAGGTGAGTTGAGCCT-TGGTTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACAC--GCTGAGGTATTTTCAAT
* * *
109688865 TTCTGTTTTT-AATGTCTGTTTTT
64 TTCTGTTTTTCAATTTATATTTTT
* * * **
109688888 AAAGAGTAAATTCATATTGCGAGAAATGAGTTGAG-CTCAG
1 AAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
109688928 AATCACATAC
Statistics
Matches: 172, Mismatches: 33, Indels: 24
0.75 0.14 0.10
Matches are distributed among these distances:
87 41 0.24
88 33 0.19
89 42 0.24
90 55 0.32
91 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTACACGCTGAGGTATTTTCAATTT
CTGTTTTTCAATTTATATTTTT
Found at i:109690947 original size:16 final size:16
Alignment explanation
Indices: 109690926--109690956 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
109690916 TTAAATGATA
109690926 TTAGTACATATATATT
1 TTAGTACATATATATT
*
109690942 TTAGTACCTATATAT
1 TTAGTACATATATAT
109690957 GTATACTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.48
Consensus pattern (16 bp):
TTAGTACATATATATT
Found at i:109691291 original size:19 final size:20
Alignment explanation
Indices: 109691267--109691326 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 20
109691257 TACTACATTA
* *
109691267 TATATATATTT-TTATGTTG
1 TATATATATTTCTAATATTG
109691286 TATATATATTTCTAATATTG
1 TATATATATTTCTAATATTG
109691306 TATATTAAGTATTTCTAATAT
1 TATA-T-A-TATTTCTAATAT
109691327 CCTTATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 11 0.31
20 10 0.29
21 1 0.03
22 1 0.03
23 12 0.34
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (20 bp):
TATATATATTTCTAATATTG
Found at i:109691668 original size:20 final size:19
Alignment explanation
Indices: 109691617--109691668 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
109691607 TTTATTATTA
*
109691617 ATATTAGTATATATATTTT
1 ATATTAGTATACATATTTT
*
109691636 ATTATTCTTGTATACATATTTT
1 A-TA-T-TAGTATACATATTTT
109691658 ATATATAGTAT
1 ATAT-TAGTAT
109691669 TATTTTCGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.31
21 3 0.12
22 14 0.54
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (19 bp):
ATATTAGTATACATATTTT
Found at i:109691860 original size:21 final size:22
Alignment explanation
Indices: 109691836--109691911 Score: 63
Period size: 21 Copynumber: 3.5 Consensus size: 22
109691826 ATTCTTATTA
109691836 TTATTAATATTA-GTATATGTT
1 TTATTAATATTAGGTATATGTT
* *
109691857 TTATT-AT-TTATGTATATATCT
1 TTATTAATATTAGGTATATGT-T
*
109691878 TTAATACATA-TAGGTATATG-T
1 TTATTA-ATATTAGGTATATGTT
109691899 TTATGTAATATTA
1 TTAT-TAATATTA
109691912 TTAATAAGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 13
0.70 0.08 0.21
Matches are distributed among these distances:
19 3 0.07
20 9 0.21
21 17 0.40
22 4 0.09
23 10 0.23
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (22 bp):
TTATTAATATTAGGTATATGTT
Found at i:109691954 original size:40 final size:41
Alignment explanation
Indices: 109691901--109691979 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 41
109691891 GTATATGTTT
* *
109691901 ATGTAATATTATTA-ATAAGTGTTTTTGACATTATTATTATGC
1 ATGTAATATTATTATATAAATG-TTTTAACATTA-TATTATGC
*
109691943 ATGT-ATA-TATTATGTAAATGTTTTAACATTATATTAT
1 ATGTAATATTATTATATAAATGTTTTAACATTATATTAT
109691980 ATATGTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
39 6 0.18
40 15 0.45
41 8 0.24
42 4 0.12
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (41 bp):
ATGTAATATTATTATATAAATGTTTTAACATTATATTATGC
Found at i:109693028 original size:15 final size:15
Alignment explanation
Indices: 109693008--109693038 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
109692998 GACAGTTGCT
109693008 ACTTAAATATCGAAA
1 ACTTAAATATCGAAA
*
109693023 ACTTAAATATTGAAA
1 ACTTAAATATCGAAA
109693038 A
1 A
109693039 TGACATATTC
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:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (15 bp):
ACTTAAATATCGAAA
Found at i:109694430 original size:87 final size:86
Alignment explanation
Indices: 109694279--109694448 Score: 313
Period size: 87 Copynumber: 2.0 Consensus size: 86
109694269 ATTACAGTGA
*
109694279 TTTAGGTGTGTTCCAAGGGCGGACGTAAAGCCTTCGGGCTTGGCACTCAATGCTGAGATATGTTT
1 TTTAGGTGTGTTCCAAGGGCGGACGTAAAGCCTTCGGACTTGGCACTCAATGCTGAGATATGTTT
109694344 CAGGGGGATGTTAGCCTACAGG
66 CA-GGGGATGTTAGCCTACAGG
*
109694366 TTTAGGTGTGTTCCAAGGGCGGACGTAAAGCCTTCGGACTTGGCACTCAATGCTGAGATGTGTTT
1 TTTAGGTGTGTTCCAAGGGCGGACGTAAAGCCTTCGGACTTGGCACTCAATGCTGAGATATGTTT
109694431 CAGGGGATGTTAGCCTAC
66 CAGGGGATGTTAGCCTAC
109694449 GGGCTTGGCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
86 16 0.20
87 65 0.80
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (86 bp):
TTTAGGTGTGTTCCAAGGGCGGACGTAAAGCCTTCGGACTTGGCACTCAATGCTGAGATATGTTT
CAGGGGATGTTAGCCTACAGG
Found at i:109696043 original size:22 final size:21
Alignment explanation
Indices: 109696018--109696153 Score: 66
Period size: 21 Copynumber: 6.3 Consensus size: 21
109696008 AAAAATTACT
109696018 AAAATT-TAGAAAAAAAAGTATA
1 AAAATTGTA-AAAAAAAA-TATA
*
109696040 AAAATTGTAAAAGAAAATATA
1 AAAATTGTAAAAAAAAATATA
**
109696061 AAAATCATCAAAACTATAAAATATA
1 AAAATTGT-AAAA--A-AAAATATA
* * *
109696086 TAGAAA-TAT-AAATAAAATTTA
1 -A-AAATTGTAAAAAAAAATATA
* * *
109696107 TAAATTCT--AAGAAAATGATA
1 AAAATTGTAAAAAAAAAT-ATA
*
109696127 AAAAATGTAAAAAAAAATATA
1 AAAATTGTAAAAAAAAATATA
109696148 AAAATT
1 AAAATT
109696154 ATCATATCCC
Statistics
Matches: 87, Mismatches: 16, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
19 10 0.11
20 9 0.10
21 25 0.29
22 24 0.28
23 2 0.02
24 3 0.03
25 8 0.09
26 3 0.03
27 3 0.03
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (21 bp):
AAAATTGTAAAAAAAAATATA
Found at i:109696064 original size:21 final size:22
Alignment explanation
Indices: 109696018--109696065 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
109696008 AAAAATTACT
109696018 AAAATTTAGAAAAAAAAGTATA
1 AAAATTTAGAAAAAAAAGTATA
*
109696040 AAAATTGTA-AAAGAAAA-TATA
1 AAAATT-TAGAAAAAAAAGTATA
109696061 AAAAT
1 AAAAT
109696066 CATCAAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 13 0.54
23 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (22 bp):
AAAATTTAGAAAAAAAAGTATA
Found at i:109696548 original size:19 final size:19
Alignment explanation
Indices: 109696524--109696570 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
109696514 TTAAAGGGTC
*
109696524 TTTTTTATGT-ATTTTATAA
1 TTTTTTATCTAATTTT-TAA
*
109696543 TTTTTTTTCTAATTTTTAA
1 TTTTTTATCTAATTTTTAA
109696562 TATTTTTAT
1 T-TTTTTAT
109696571 ATGTTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTATCTAATTTTTAA
Found at i:109696549 original size:20 final size:20
Alignment explanation
Indices: 109696524--109696585 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
109696514 TTAAAGGGTC
109696524 TTTTTTATGTATTTTATAAT
1 TTTTTTATGTATTTTATAAT
*
109696544 TTTTTT-TCTAATTTT-TAAT
1 TTTTTTATGT-ATTTTATAAT
*
109696563 ATTTTTATATGTTTTTTA-AAT
1 -TTTTT-TATGTATTTTATAAT
109696584 TT
1 TT
109696586 AATAAATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
19 6 0.18
20 18 0.53
21 8 0.24
22 2 0.06
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTTATGTATTTTATAAT
Found at i:109696603 original size:26 final size:26
Alignment explanation
Indices: 109696557--109696606 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
109696547 TTTTCTAATT
* *
109696557 TTTAATATTTTTATATGTTTTTTAAA
1 TTTAATAATTTTATATATTTTTTAAA
109696583 TTTAATAAATTTTAT-TATTTTTTA
1 TTTAAT-AATTTTATATATTTTTTA
109696607 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTAATAATTTTATATATTTTTTAAA
Found at i:109696863 original size:41 final size:40
Alignment explanation
Indices: 109696795--109696962 Score: 174
Period size: 41 Copynumber: 4.1 Consensus size: 40
109696785 GCAAAAATTA
*
109696795 TAAAACACAAAGCAATAGCGGCGTTTTTGCTAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTTGCTAAAACGCCGC
** * *
109696836 TAAAAATTGAGCAATAGCGGTGTTTTTTGTTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCG-TTTTTGCTAAAACGCCGC
* * * *
109696877 TAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAATGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTTGCTAAAACGCCGC
* * * * * *
109696917 TAAAGACCATAGCATTAGCGGCGCTTTTGGTAAAACGCCAC
1 TAAA-AACAGAGCAATAGCGGCGTTTTTGCTAAAACGCCGC
109696958 TAAAA
1 TAAAA
109696963 GTCATGTAAC
Statistics
Matches: 109, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 33 0.30
41 76 0.70
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTTGCTAAAACGCCGC
Found at i:109696945 original size:81 final size:82
Alignment explanation
Indices: 109696795--109696962 Score: 191
Period size: 81 Copynumber: 2.1 Consensus size: 82
109696785 GCAAAAATTA
* * *
109696795 TAAAACACAAAGCAATAGCGGCGTTTTTGCTAAAACGCCGCTAAAAATTGAGCAATAGCGGTGTT
1 TAAAACACAAAGCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAAAATTGAGCAATAGCGGCGTC
* *
109696860 TTTTGTTAAAACGCCGC
66 TTTTGGTAAAACGCCAC
* * * * *
109696877 TAAAA-ACAGAGCATTAGCGGCGCTTTTGGTAAAATGCCGCTAAAGACCA-T-AGCATTAGCGGC
1 TAAAACACAAAGCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAA-A--ATTGAGCAATAGCGGC
109696939 G-CTTTTGGTAAAACGCCAC
63 GTCTTTTGGTAAAACGCCAC
109696958 TAAAA
1 TAAAA
109696963 GTCATGTAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
81 54 0.74
82 17 0.23
83 1 0.01
84 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (82 bp):
TAAAACACAAAGCAATAGCGGCGCTTTTGCTAAAACGCCGCTAAAAATTGAGCAATAGCGGCGTC
TTTTGGTAAAACGCCAC
Found at i:109697739 original size:14 final size:14
Alignment explanation
Indices: 109697690--109697742 Score: 70
Period size: 14 Copynumber: 3.7 Consensus size: 14
109697680 TCAAATCATA
*
109697690 AACCCTTAAAACTCC
1 AACCCTT-AAACCCC
*
109697705 AACCCCTAAACCCC
1 AACCCTTAAACCCC
109697719 AACCCTTAAACCCC
1 AACCCTTAAACCCC
*
109697733 AAGCCTTAAA
1 AACCCTTAAA
109697743 ACTAACCTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 28 0.82
15 6 0.18
ACGTcount: A:0.40, C:0.43, G:0.02, T:0.15
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:109697791 original size:14 final size:14
Alignment explanation
Indices: 109697752--109697834 Score: 69
Period size: 14 Copynumber: 5.8 Consensus size: 14
109697742 AACTAACCTC
109697752 TAAACCCATAAACTA
1 TAAACCC-TAAACTA
* * * *
109697767 TAGATCGTAAATTA
1 TAAACCCTAAACTA
109697781 TAAACCCTAAACTA
1 TAAACCCTAAACTA
*
109697795 TAAACCATAAA-TCA
1 TAAACCCTAAACT-A
* *
109697809 TAAACTCTTAAACTG
1 TAAAC-CCTAAACTA
109697824 TAAACCCTAAA
1 TAAACCCTAAA
109697835 ATCTAAAAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
13 1 0.02
14 37 0.70
15 14 0.26
16 1 0.02
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:109697828 original size:29 final size:28
Alignment explanation
Indices: 109697752--109697834 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 28
109697742 AACTAACCTC
* * * *
109697752 TAAACCCATAAACTATAGATCGTAAATTA
1 TAAACCC-TAAACTATAAACCATAAATCA
109697781 TAAACCCTAAACTATAAACCATAAATCA
1 TAAACCCTAAACTATAAACCATAAATCA
* * *
109697809 TAAACTCTTAAACTGTAAACCCTAAA
1 TAAAC-CCTAAACTATAAACCATAAA
109697835 ATCTAAAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
28 22 0.48
29 24 0.52
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (28 bp):
TAAACCCTAAACTATAAACCATAAATCA
Found at i:109698323 original size:9 final size:8
Alignment explanation
Indices: 109698307--109698426 Score: 55
Period size: 7 Copynumber: 15.9 Consensus size: 8
109698297 TTTATATGTT
109698307 AATTTAAA
1 AATTTAAA
109698315 AATTATAAA
1 AATT-TAAA
109698324 AATATTCAAAA
1 AAT-TT--AAA
*
109698335 AAATT-AA
1 AATTTAAA
109698342 AATTTAAA
1 AATTTAAA
109698350 AA--TAAA
1 AATTTAAA
*
109698356 AA-ATAAA
1 AATTTAAA
*
109698363 AA-ATAAA
1 AATTTAAA
*
109698370 AA-ATAAA
1 AATTTAAA
*
109698377 AA-ATAAA
1 AATTTAAA
*
109698384 AA-ATAAA
1 AATTTAAA
*
109698391 AA-ATAAA
1 AATTTAAA
109698398 AATTTAAA
1 AATTTAAA
109698406 AA--TAAA
1 AATTTAAA
*
109698412 AACTTAAA
1 AATTTAAA
109698420 AATTTAA
1 AATTTAA
109698427 TATTTAATAT
Statistics
Matches: 99, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
6 12 0.12
7 47 0.47
8 24 0.24
9 8 0.08
10 3 0.03
11 5 0.05
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
AATTTAAA
Found at i:109698348 original size:7 final size:7
Alignment explanation
Indices: 109698333--109698423 Score: 87
Period size: 7 Copynumber: 13.0 Consensus size: 7
109698323 AAATATTCAA
109698333 AAAAATT
1 AAAAATT
*
109698340 AAAATTT
1 AAAAATT
109698347 AAAAA-T
1 AAAAATT
*
109698353 AAAAAAT
1 AAAAATT
*
109698360 AAAAAAT
1 AAAAATT
*
109698367 AAAAAAT
1 AAAAATT
*
109698374 AAAAAAT
1 AAAAATT
*
109698381 AAAAAAT
1 AAAAATT
*
109698388 AAAAAAT
1 AAAAATT
109698395 AAAAATTT
1 AAAAA-TT
109698403 AAAAA-T
1 AAAAATT
109698409 AAAAACTT
1 AAAAA-TT
109698417 AAAAATT
1 AAAAATT
109698424 TAATATTTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
6 12 0.16
7 53 0.69
8 12 0.16
ACGTcount: A:0.77, C:0.01, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAAATT
Found at i:109698352 original size:14 final size:14
Alignment explanation
Indices: 109698333--109698422 Score: 117
Period size: 14 Copynumber: 6.4 Consensus size: 14
109698323 AAATATTCAA
* *
109698333 AAAAATTAAAATTT
1 AAAAATAAAAAATT
*
109698347 AAAAATAAAAAATA
1 AAAAATAAAAAATT
*
109698361 AAAAATAAAAAATA
1 AAAAATAAAAAATT
*
109698375 AAAAATAAAAAATA
1 AAAAATAAAAAATT
*
109698389 AAAAATAAAAATTT
1 AAAAATAAAAAATT
*
109698403 AAAAATAAAAACTT
1 AAAAATAAAAAATT
109698417 AAAAAT
1 AAAAAT
109698423 TTAATATTTA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 70 1.00
ACGTcount: A:0.78, C:0.01, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAAATT
Found at i:109698531 original size:8 final size:8
Alignment explanation
Indices: 109698518--109698553 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
109698508 ATTTTGAAAG
109698518 AAAAAAAT
1 AAAAAAAT
109698526 AAAAAAAT
1 AAAAAAAT
**
109698534 GTAAAAAT
1 AAAAAAAT
109698542 AAAAAAAT
1 AAAAAAAT
109698550 AAAA
1 AAAA
109698554 TTGAATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (8 bp):
AAAAAAAT
Found at i:109700099 original size:16 final size:15
Alignment explanation
Indices: 109700073--109700102 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
109700063 AAAAAAAAAA
109700073 GAAAAAGAAAGAAAG
1 GAAAAAGAAAGAAAG
109700088 GAAAACAGAAAGAAA
1 GAAAA-AGAAAGAAA
109700103 ATCTCATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.03, G:0.23, T:0.00
Consensus pattern (15 bp):
GAAAAAGAAAGAAAG
Found at i:109702772 original size:19 final size:21
Alignment explanation
Indices: 109702744--109702791 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
109702734 TTATTATTTA
109702744 TTTTAGTTTTGATTCTAA-AT
1 TTTTAGTTTTGATTCTAATAT
* *
109702764 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTCTAATAT
109702784 TTTTAGTT
1 TTTTAGTT
109702792 AAAATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTCTAATAT
Found at i:109718800 original size:2 final size:2
Alignment explanation
Indices: 109718795--109718823 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
109718785 ATATGTTAAT
109718795 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
109718824 TACCGTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:109722924 original size:18 final size:17
Alignment explanation
Indices: 109722903--109722936 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
109722893 TGTGAAATTC
109722903 TTGTACCTTGTGTTTTAT
1 TTGTA-CTTGTGTTTTAT
*
109722921 TTGTATTTGTGTTTTA
1 TTGTACTTGTGTTTTA
109722937 GGGAGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.12, C:0.06, G:0.18, T:0.65
Consensus pattern (17 bp):
TTGTACTTGTGTTTTAT
Found at i:109731345 original size:31 final size:31
Alignment explanation
Indices: 109731307--109731369 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
109731297 TAACAAATGC
* *
109731307 AAGTTTAACACACACACACACATATATATAT
1 AAGTTTAACACACACACACACACACATATAT
109731338 AAGTTTAACACACACACACACACACATATAT
1 AAGTTTAACACACACACACACACACATATAT
109731369 A
1 A
109731370 TATATATGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.49, C:0.25, G:0.03, T:0.22
Consensus pattern (31 bp):
AAGTTTAACACACACACACACACACATATAT
Found at i:109733189 original size:36 final size:36
Alignment explanation
Indices: 109733142--109733212 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
109733132 GGCTTACTTT
109733142 ACATTCATTACACCTTAACTTTTACTTTATTAACTA
1 ACATTCATTACACCTTAACTTTTACTTTATTAACTA
* *
109733178 ACATTCATTACACTTTAGCTTTTACTTTATTAACT
1 ACATTCATTACACCTTAACTTTTACTTTATTAACT
109733213 TATACATGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.21, G:0.01, T:0.46
Consensus pattern (36 bp):
ACATTCATTACACCTTAACTTTTACTTTATTAACTA
Found at i:109741542 original size:37 final size:37
Alignment explanation
Indices: 109741440--109741542 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
109741430 CGAATAGTCC
* *
109741440 CCACACGTAGTTATCGGGTCTTACCTGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* *
109741477 CCACACGTAGTCATCGGGTCTTATCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
109741514 CCACACGTAGTGATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
109741543 ATATATTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.25
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:109741741 original size:48 final size:48
Alignment explanation
Indices: 109741683--109741828 Score: 220
Period size: 48 Copynumber: 3.0 Consensus size: 48
109741673 ATATACACAC
* *
109741683 ATCTCCTACATATTTCACATTAGCCATTCGGATTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** * * *
109741731 ATCTCATACATATTTCATGTTAGCCAATCGGCTTTACTACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
109741779 ATCTTATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
109741827 AT
1 AT
109741829 ATTTATCTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:109745541 original size:17 final size:17
Alignment explanation
Indices: 109745519--109745552 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
109745509 AAGAAAGTGT
*
109745519 ATTATTTAATATGTTTA
1 ATTATTTAATATATTTA
*
109745536 ATTATTTCATATATTTA
1 ATTATTTAATATATTTA
109745553 TATATATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
ATTATTTAATATATTTA
Found at i:109745718 original size:29 final size:31
Alignment explanation
Indices: 109745665--109745726 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 31
109745655 AACTTTTTCG
* *
109745665 TTATAATTTTTACAAATTATTAAATATT-TT
1 TTATAATTTTAACAAATTATGAAATATTATT
*
109745695 TTATAATTTTAATAAATT-TGAAATATTATT
1 TTATAATTTTAACAAATTATGAAATATTATT
109745725 TT
1 TT
109745727 TTATAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 8 0.29
30 20 0.71
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (31 bp):
TTATAATTTTAACAAATTATGAAATATTATT
Found at i:109746589 original size:30 final size:30
Alignment explanation
Indices: 109746553--109746612 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
109746543 TCCTTATAAA
109746553 ATGAAAATTTTTGAATTAGACTAGGAATAT
1 ATGAAAATTTTTGAATTAGACTAGGAATAT
109746583 ATGAAAATTTTTGAATTAGACTAGGAATAT
1 ATGAAAATTTTTGAATTAGACTAGGAATAT
109746613 CTATCAGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.03, G:0.17, T:0.37
Consensus pattern (30 bp):
ATGAAAATTTTTGAATTAGACTAGGAATAT
Found at i:109750411 original size:43 final size:43
Alignment explanation
Indices: 109750342--109750489 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
109750332 TCTCATATAT
* * * * *
109750342 GGTCTTACATGATATCACATATCGATGTCACTGTCCTAGACAG
1 GGTCTTACACGAAATCACATAACGATGCCAATGTCCTAGACAG
*
109750385 GGTCTTACACGAAATCA-ATTAACGATGCCAATGTCCTAGACAT
1 GGTCTTACACGAAATCACA-TAACGATGCCAATGTCCTAGACAG
* * * * *
109750428 GGTCTTACACGTAATCTCA-ATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCACATA-ACGATGCCAATGTCCTAGACAG
* * *
109750471 GATCTTACATGTAATCACA
1 GGTCTTACACGAAATCACA
109750490 ATTCGATAAC
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.02
43 86 0.97
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGAAATCACATAACGATGCCAATGTCCTAGACAG
Found at i:109752786 original size:21 final size:21
Alignment explanation
Indices: 109752757--109752798 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
109752747 ACAAAATCCA
109752757 TAGTCACTCTATCCCATTTCC
1 TAGTCACTCTATCCCATTTCC
*
109752778 TAGTTACTCTATCCCATTTCC
1 TAGTCACTCTATCCCATTTCC
109752799 ATTCAAGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.36, G:0.05, T:0.40
Consensus pattern (21 bp):
TAGTCACTCTATCCCATTTCC
Found at i:109757309 original size:25 final size:25
Alignment explanation
Indices: 109757281--109757348 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
109757271 TATCATTTAG
109757281 ATTTGCTGTTTTTGGTTGGATTTGT
1 ATTTGCTGTTTTTGGTTGGATTTGT
** *
109757306 ATTTTTTGTTTTTTGTTGGATTTGT
1 ATTTGCTGTTTTTGGTTGGATTTGT
109757331 ATTTGCTGTTTTTGGTTG
1 ATTTGCTGTTTTTGGTTG
109757349 TTACAGGAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.07, C:0.03, G:0.25, T:0.65
Consensus pattern (25 bp):
ATTTGCTGTTTTTGGTTGGATTTGT
Found at i:109757807 original size:43 final size:43
Alignment explanation
Indices: 109757574--109757805 Score: 252
Period size: 43 Copynumber: 5.4 Consensus size: 43
109757564 TGGAGGTCAC
** * * * * *
109757574 GTTCTATAGCTCCATTTGTGGGGAAAGTGCCACAAAAGATCAC
1 GTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCAT
* *
109757617 ATTCTATAGCGGCATTTATGGGAAAAGCGCCGCTAAAGAT--T
1 GTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCAT
* * * *
109757658 GCATTCTATAGTGGCGTTTGTGGGAAAAGCGTCGCTAAAGATCGT
1 G--TTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCAT
* * * * *
109757703 GTTCTATAGCGGCATTTGCGGGAAAAGCACCTCTAAAGGTCAC
1 GTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCAT
* *
109757746 GTTCTATAGCGGCATTTTTGGGAAAAGCGCCGCTAAATATCAT
1 GTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCAT
109757789 GTTCTATAGCGGCATTT
1 GTTCTATAGCGGCATTT
109757806 TTTTCAAATA
Statistics
Matches: 155, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
43 153 0.99
45 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
GTTCTATAGCGGCATTTGTGGGAAAAGCGCCGCTAAAGATCAT
Found at i:109761492 original size:27 final size:27
Alignment explanation
Indices: 109761460--109761544 Score: 109
Period size: 27 Copynumber: 3.1 Consensus size: 27
109761450 GGTAAGTGGC
*
109761460 GCCTATTTGACAGGCGCGAGTGGTTGCT
1 GCCTATTTGACAGGCGCGACTGGTTG-T
109761488 -CCTATTTGACAGGCGCGACTGGTTGT
1 GCCTATTTGACAGGCGCGACTGGTTGT
* * * *
109761514 GCCTATCTGACAGGTGCGATTGGTTGA
1 GCCTATTTGACAGGCGCGACTGGTTGT
109761541 GCCT
1 GCCT
109761545 GTCAAATAGG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.02
27 50 0.98
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.29
Consensus pattern (27 bp):
GCCTATTTGACAGGCGCGACTGGTTGT
Found at i:109766251 original size:33 final size:33
Alignment explanation
Indices: 109766209--109766327 Score: 148
Period size: 33 Copynumber: 3.6 Consensus size: 33
109766199 TACCTAAAAG
*
109766209 GTACTACTGGAAAAGGAAACGTACACCTCGAGT
1 GTACTACTGGAAAAGGAAATGTACACCTCGAGT
*
109766242 GTACTACTGGAAAAGGAAATGTACACCTTGAGT
1 GTACTACTGGAAAAGGAAATGTACACCTCGAGT
* * * * * *
109766275 GTACCACTGGAAAAGGGAATATGCACCGCAAGT
1 GTACTACTGGAAAAGGAAATGTACACCTCGAGT
* *
109766308 GTACAATTGGAAAAGGAAAT
1 GTACTACTGGAAAAGGAAAT
109766328 ATCCATCAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 74 1.00
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (33 bp):
GTACTACTGGAAAAGGAAATGTACACCTCGAGT
Found at i:109770429 original size:46 final size:46
Alignment explanation
Indices: 109770369--109770551 Score: 312
Period size: 46 Copynumber: 4.0 Consensus size: 46
109770359 TTTCTGTTAT
* *
109770369 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
109770415 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
**
109770461 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAC
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
**
109770507 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCA
109770552 GAGAGCACAC
Statistics
Matches: 133, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.40
Consensus pattern (46 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCAC
Found at i:109772651 original size:17 final size:17
Alignment explanation
Indices: 109772629--109772661 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
109772619 AATTTTTCCC
*
109772629 TTTTTCCTTCTTTCTTT
1 TTTTTCCTTCCTTCTTT
109772646 TTTTTCCTTCCTTCTT
1 TTTTTCCTTCCTTCTT
109772662 CTTTCCCCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTCCTTCCTTCTTT
Found at i:109772721 original size:2 final size:2
Alignment explanation
Indices: 109772714--109772754 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
109772704 TCTATTCTTT
109772714 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
109772755 ATAACTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109775846 original size:42 final size:42
Alignment explanation
Indices: 109775784--109775869 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
109775774 GAATTATAAC
* *
109775784 AGGATTACTCATCCGAGCTAAATCCTGTT-TGCAACATATGCT
1 AGGATTACCCATCCGAGCTAAATCCT-TTATACAACATATGCT
* * *
109775826 AGGATTACCCGTCCGGGCTAAATCCTTTATACAGCATATGCT
1 AGGATTACCCATCCGAGCTAAATCCTTTATACAACATATGCT
109775868 AG
1 AG
109775870 AGAAAGATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 2 0.05
42 36 0.95
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (42 bp):
AGGATTACCCATCCGAGCTAAATCCTTTATACAACATATGCT
Found at i:109775923 original size:57 final size:58
Alignment explanation
Indices: 109775828--109775981 Score: 179
Period size: 57 Copynumber: 2.7 Consensus size: 58
109775818 CATATGCTAG
* * *
109775828 GATTACCCGTCCGGGCTAAATCCTTTATACAGCATATGCTAGAGAAAGATTA-ATC-A
1 GATTACCCGTCCGGGCTAAATCCTTTATGCAACATATGCTAGAGAAAGATCATATCAA
* * * * ** *
109775884 GAATTACCCGTTCAGGCTAAATCCTTTATGCAACGTATGCTCGAGAGGGCTCATATCAA
1 G-ATTACCCGTCCGGGCTAAATCCTTTATGCAACATATGCTAGAGAAAGATCATATCAA
109775943 GATTACCCGTCCGGGCTAAATCCTATT-TGCAACATATGC
1 GATTACCCGTCCGGGCTAAATCCT-TTATGCAACATATGC
109775982 AGAATCATAT
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
56 1 0.01
57 41 0.51
58 35 0.43
59 4 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (58 bp):
GATTACCCGTCCGGGCTAAATCCTTTATGCAACATATGCTAGAGAAAGATCATATCAA
Found at i:109779140 original size:24 final size:25
Alignment explanation
Indices: 109779113--109779161 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
109779103 AGTTGAATAT
109779113 TTAAATTGCA-AAATAAAAA-ACAAA
1 TTAAATTG-ATAAATAAAAATACAAA
*
109779137 TTAAATTGATAAGTAAAAATACAAA
1 TTAAATTGATAAATAAAAATACAAA
109779162 AAAATTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 16 0.73
25 5 0.23
ACGTcount: A:0.63, C:0.06, G:0.06, T:0.24
Consensus pattern (25 bp):
TTAAATTGATAAATAAAAATACAAA
Found at i:109779424 original size:33 final size:33
Alignment explanation
Indices: 109779381--109779504 Score: 124
Period size: 33 Copynumber: 3.8 Consensus size: 33
109779371 AGCCGAGAAG
* * *
109779381 AGTGG-GTATGGCGGTGGATACAGGCCAGGAGG
1 AGTGGAGTACGGCGGTGGATACAGGCCGGGAGA
* * * *
109779413 AGTGGAGTATGGCAGTGGATACTGGCCGGGAAA
1 AGTGGAGTACGGCGGTGGATACAGGCCGGGAGA
* *
109779446 AGTGGAGTACAGCGGTAGATACAGGCCGGGAGA
1 AGTGGAGTACGGCGGTGGATACAGGCCGGGAGA
* * * *
109779479 AATTGAGTGCGGTGGTGGATACAGGC
1 AGTGGAGTACGGCGGTGGATACAGGC
109779505 TGGAAGGAGC
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
32 5 0.07
33 69 0.93
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.17
Consensus pattern (33 bp):
AGTGGAGTACGGCGGTGGATACAGGCCGGGAGA
Found at i:109779700 original size:12 final size:12
Alignment explanation
Indices: 109779668--109779702 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
109779658 AGAGTGTAGT
109779668 TCCGGCTTTGGC
1 TCCGGCTTTGGC
**
109779680 TCCAACTTTGGC
1 TCCGGCTTTGGC
109779692 TCCGGCTTTGG
1 TCCGGCTTTGG
109779703 TGCATGATGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.31, G:0.29, T:0.34
Consensus pattern (12 bp):
TCCGGCTTTGGC
Found at i:109781437 original size:16 final size:16
Alignment explanation
Indices: 109781416--109781447 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
109781406 TATCTAAACA
*
109781416 TAAAAAAAATACGAAT
1 TAAAAAAAATAAGAAT
109781432 TAAAAAAAATAAGAAT
1 TAAAAAAAATAAGAAT
109781448 AGAAATAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.72, C:0.03, G:0.06, T:0.19
Consensus pattern (16 bp):
TAAAAAAAATAAGAAT
Found at i:109782153 original size:14 final size:14
Alignment explanation
Indices: 109782134--109782160 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
109782124 TATCATGGTG
109782134 CAAAATAATTTTAA
1 CAAAATAATTTTAA
109782148 CAAAATAATTTTA
1 CAAAATAATTTTA
109782161 CATTTAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (14 bp):
CAAAATAATTTTAA
Found at i:109782342 original size:60 final size:60
Alignment explanation
Indices: 109782265--109782379 Score: 194
Period size: 60 Copynumber: 1.9 Consensus size: 60
109782255 TAAACTAAAC
* * *
109782265 ACAATAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACGAAG
1 ACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTTTAAAATAATTACGAAG
*
109782325 ACAAAAATTTATAACATAATCCCAAATTATTAACAAATTAATTTTAAAATAATTA
1 ACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTTTAAAATAATTA
109782380 TAAAAAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.35
Consensus pattern (60 bp):
ACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTTTAAAATAATTACGAAG
Found at i:109782554 original size:3 final size:3
Alignment explanation
Indices: 109782548--109782601 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
109782538 TTTTCTTTCT
109782548 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
109782596 -TC TTC T
1 TTC TTC T
109782602 CCTTTCTCTC
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:109782990 original size:19 final size:18
Alignment explanation
Indices: 109782948--109782991 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
109782938 TTTAATAAAA
* *
109782948 ATAAAATAATAAAATTTT
1 ATAAAATAAAAAAATTAT
109782966 ATTAAAATAAAAAAATTAAT
1 A-TAAAATAAAAAAATT-AT
109782986 ATAAAA
1 ATAAAA
109782992 GAAAGGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 1 0.05
19 19 0.86
20 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATAAAAAAATTAT
Found at i:109784681 original size:13 final size:13
Alignment explanation
Indices: 109784663--109784687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
109784653 TAAATCTTTC
109784663 TTATTTATTATTG
1 TTATTTATTATTG
109784676 TTATTTATTATT
1 TTATTTATTATT
109784688 TGAGCAACTT
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:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TTATTTATTATTG
Found at i:109785148 original size:38 final size:35
Alignment explanation
Indices: 109785092--109785161 Score: 86
Period size: 38 Copynumber: 1.9 Consensus size: 35
109785082 TATTTTGAAA
109785092 TTAAAAAAAATATATTAAATGTAAAAAATGTGAATTT
1 TTAAAAAAAATATATTAAA-G-AAAAAATGTGAATTT
* * *
109785129 TTAATAAAAATTATTTTAAAGACAAAATGTGAA
1 TTAA-AAAAAATATATTAAAGAAAAAATGTGAA
109785162 ACTGATATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 11 0.38
37 5 0.17
38 13 0.45
ACGTcount: A:0.56, C:0.01, G:0.09, T:0.34
Consensus pattern (35 bp):
TTAAAAAAAATATATTAAAGAAAAAATGTGAATTT
Found at i:109789686 original size:3 final size:3
Alignment explanation
Indices: 109789680--109789713 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
109789670 TTTTTTTTCT
109789680 TTC TTC TTC TTC -TC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
109789714 TTTTCTCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:109789724 original size:20 final size:19
Alignment explanation
Indices: 109789672--109789724 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
109789662 TTCTTTTTTT
109789672 TTTTTTCTTTCTTCTTCTTC
1 TTTTTTC-TTCTTCTTCTTC
*
109789692 TCTTCTTCTTCTTCTTCTTC
1 T-TTTTTCTTCTTCTTCTTC
109789712 TTTTTTCTCTCTT
1 TTTTTTCT-TCTT
109789725 TTAGTGGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 6 0.21
20 18 0.62
21 5 0.17
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTTTCTTCTTCTTCTTC
Found at i:109790028 original size:26 final size:25
Alignment explanation
Indices: 109789999--109790053 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
109789989 TATATATTTA
109789999 AATATTTTTAATAAAA-ATAAAATAAT
1 AATATTTTTAATAAAAGA-AAAA-AAT
*
109790025 AATA-TTTTATTAAAAGAAAAAAAT
1 AATATTTTTAATAAAAGAAAAAAAT
109790049 AATAT
1 AATAT
109790054 AAAAAAAGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 7 0.27
25 14 0.54
26 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (25 bp):
AATATTTTTAATAAAAGAAAAAAAT
Found at i:109790538 original size:24 final size:25
Alignment explanation
Indices: 109790485--109790538 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
109790475 AGTGTAATAG
* *
109790485 TAAAATATATTATATTTTTATAAAG
1 TAAAATAAATTATATTTTTATAAAA
109790510 T-AAATAAATT-TAATTTTTA-AAAA
1 TAAAATAAATTAT-ATTTTTATAAAA
109790533 TAAAAT
1 TAAAAT
109790539 TACTTAAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 5 0.20
24 19 0.76
25 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (25 bp):
TAAAATAAATTATATTTTTATAAAA
Found at i:109791210 original size:43 final size:44
Alignment explanation
Indices: 109791149--109791241 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
109791139 TCCTAATTGG
109791149 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
109791192 GAAAATAGTTCCCTTATTCTAGTAAACTATTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
109791236 -AAAATA
1 GAAAATA
109791242 TTTCTAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:109791283 original size:19 final size:18
Alignment explanation
Indices: 109791259--109791302 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
109791249 AATATGAATA
109791259 AAATTTATCTACCCAAAT
1 AAATTTATCTACCCAAAT
*
109791277 AAGATTTATCTACCTAAAT
1 AA-ATTTATCTACCCAAAT
109791296 AAATTTA
1 AAATTTA
109791303 AAATATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATTTATCTACCCAAAT
Found at i:109798107 original size:26 final size:26
Alignment explanation
Indices: 109798071--109798154 Score: 134
Period size: 26 Copynumber: 3.2 Consensus size: 26
109798061 CATGAAATTC
*
109798071 TTATCATGAAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
109798097 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
109798123 TTATCAT-AGAACATTTACCTAACCTA
1 TTATCATGA-AACATTTACCTAACCCA
109798149 TTATCA
1 TTATCA
109798155 ATTTGTATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 1 0.02
26 54 0.98
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:109803898 original size:26 final size:26
Alignment explanation
Indices: 109803862--109803945 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
109803852 CATGAAATTC
109803862 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
109803888 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
109803914 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
109803940 TTATCA
1 TTATCA
109803946 ATTTGTATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:109804846 original size:43 final size:44
Alignment explanation
Indices: 109804785--109804877 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 44
109804775 TCCTAATTGG
*
109804785 GAAAATAGTTATCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTACCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
109804828 GAAAATAGTTCCCTTATTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTACCTTATTCTAATAAACTACTAAAACATAAAATA
109804872 -AAAATA
1 GAAAATA
109804878 TTTCTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 44 0.98
44 1 0.02
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (44 bp):
GAAAATAGTTACCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:109804921 original size:19 final size:18
Alignment explanation
Indices: 109804899--109804938 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
109804889 TGAATAAAAC
109804899 TTATCTACCCAAATAAGAT
1 TTATCTACCCAAATAA-AT
*
109804918 TTATCTACCTAAATAAAT
1 TTATCTACCCAAATAAAT
109804936 TTA
1 TTA
109804939 AAATATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.42, C:0.17, G:0.03, T:0.38
Consensus pattern (18 bp):
TTATCTACCCAAATAAAT
Found at i:109806197 original size:28 final size:24
Alignment explanation
Indices: 109806145--109806192 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
109806135 CAAGAAAAAG
109806145 TTAGCATCTTTTTTACACTTAACT
1 TTAGCATCTTTTTTACACTTAACT
109806169 TTAGCATCTTTTTTACACTTAACT
1 TTAGCATCTTTTTTACACTTAACT
109806193 AACTTCATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.21, G:0.04, T:0.50
Consensus pattern (24 bp):
TTAGCATCTTTTTTACACTTAACT
Found at i:109812015 original size:26 final size:26
Alignment explanation
Indices: 109811986--109812037 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
109811976 TTCATTAAAA
109811986 AATTCATAATTTTTAATAGTTTTGAT
1 AATTCATAATTTTTAATAGTTTTGAT
109812012 AATTCATAATTTTTAATAGTTTTGAT
1 AATTCATAATTTTTAATAGTTTTGAT
109812038 TAAGTAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (26 bp):
AATTCATAATTTTTAATAGTTTTGAT
Found at i:109821425 original size:60 final size:60
Alignment explanation
Indices: 109821352--109821471 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
109821342 CAAAAAAGTT
* * *
109821352 CATATCAATTATAAAACATCATGTGTCAAGTGGAAATTATTACATACTAAAATGATGACA
1 CATATCAATTATAAAACATCATGTGTCAACTCGAAATTATTACAGACTAAAATGATGACA
*
109821412 CATATCAATTATAAAACGTCATGTGTCAACTCGAAATTATTACAGACTAAAATGATGACA
1 CATATCAATTATAAAACATCATGTGTCAACTCGAAATTATTACAGACTAAAATGATGACA
109821472 TTATAAATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (60 bp):
CATATCAATTATAAAACATCATGTGTCAACTCGAAATTATTACAGACTAAAATGATGACA
Found at i:109822545 original size:3 final size:3
Alignment explanation
Indices: 109822537--109822562 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
109822527 CCATATGCTT
109822537 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
109822563 TTGAGAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:109836346 original size:2 final size:2
Alignment explanation
Indices: 109836339--109836366 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
109836329 TAATTCTAGC
109836339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109836367 TACATTTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109837261 original size:28 final size:28
Alignment explanation
Indices: 109837221--109837279 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
109837211 AATTAGAATA
109837221 CAAATTATTAACAATTGTGTGTTGGATG
1 CAAATTATTAACAATTGTGTGTTGGATG
*
109837249 CAAATTATTAACAATTGTGTTTTGGATG
1 CAAATTATTAACAATTGTGTGTTGGATG
109837277 CAA
1 CAA
109837280 TGGTAATGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (28 bp):
CAAATTATTAACAATTGTGTGTTGGATG
Done.