Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005267.1 Hibiscus syriacus cultivar Beakdansim tig00011912_pilon, whole genome shotgun sequence
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: 86259
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:709 original size:113 final size:111
Alignment explanation
Indices: 429--831 Score: 492
Period size: 112 Copynumber: 3.6 Consensus size: 111
419 CAAAGATTTC
* * * *
429 AAATCCATCATTTGATGGATCAGCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 AAATTCATCATTTGATGGATCAACATTTCCAGTCG--AGTTCATAATGAGAAGAACTCATCTGAA
* * * *
493 GAAGGCAGAAAAAGTTCATAATGAGAAGAACTGTTCAACTTTTTGCTT
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTGTTCAACCTTTTGCTT
* *
541 AAATTCATCATTCGGTGGATCAACATTTCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATTCATCATTTGATGGATCAACATTTCCA-GTCGAGTTCATAATGAGAAGAACTCATCTGAAG
*
606 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAA-TTGTTCAACCTTTTGCTT
* * * * * **
654 GAATTCATCGTTTGATGGATCAACATTGCCATGTAGGGTTCATAATGAGAAGAACTCATCAT-CT
1 AAATTCATCATTTGATGGATCAACATTTCCA-GTCGAGTTCATAATGAGAAGAACTCATC-TGAA
* *
718 GAA-GAAGAAGAAATTCATAATGAGAAGAATTGATTCAACCTTTTGCTC
64 GAAGGAAGAAGAAGTTCATAATGAGAAGAATTG-TTCAACCTTTTGCTT
* * *
766 AAATCCATCACTTGATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAA-AACTCATCTG-AG
1 AAATTCATCATTTGATGGATCAACATTTCCAG-TCGAGTTCATAATGAGAAGAACTCATCTGAAG
829 AAG
65 AAG
832 AAAAGTTCAC
Statistics
Matches: 250, Mismatches: 33, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
110 4 0.02
111 12 0.05
112 161 0.64
113 71 0.28
114 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (111 bp):
AAATTCATCATTTGATGGATCAACATTTCCAGTCGAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTGTTCAACCTTTTGCTT
Found at i:971 original size:120 final size:118
Alignment explanation
Indices: 802--1065 Score: 333
Period size: 120 Copynumber: 2.2 Consensus size: 118
792 TTCCAGTTCG
*
802 AGTTCATAATGAGAA-AACTCATCTG-A-GAAGAAAAGTTCACAATGAGAAGAGCTTATTCAA-C
1 AGTTCATAATGAGAAGAACTCATCTGAAGGAAAAAAAGTTCACAATGAGAAGAGCTTATTCAATC
* * * * *
863 CTTTGCATAATTCTATCACAGAAGCAGATAGATTAGCATCA-CCTTTCCAG-AGAA
66 CTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCATCC---CCAGTAGAA
*
917 AGTTCATAATGAGAAGAACTCATCTGAAGGAGAAAAGAAGTTCATAATGAGAAGAGCTTATTCAA
1 AGTTCATAATGAGAAGAACTCATCTGAAGGA-AAAA-AAGTTCACAATGAGAAGAGCTTATTCAA
* * * * *
982 TCTTTTGAATGACTCTATCACAGAAGGAAATAGGTCAACATCATCCCCAGTGGAA
64 TCCTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCATCCCCAGTAGAA
1037 AGTTCATAATGAGAAGAACTCATCTGAAG
1 AGTTCATAATGAGAAGAACTCATCTGAAG
1066 AAAGAGAAGG
Statistics
Matches: 129, Mismatches: 12, Indels: 11
0.85 0.08 0.07
Matches are distributed among these distances:
115 15 0.12
116 10 0.08
117 1 0.01
118 2 0.02
119 7 0.05
120 59 0.46
121 33 0.26
122 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (118 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGGAAAAAAAGTTCACAATGAGAAGAGCTTATTCAATC
CTTTGAATAACTCTATCACAGAAGCAAATAGATCAACATCATCCCCAGTAGAA
Found at i:1228 original size:3 final size:3
Alignment explanation
Indices: 1216--1271 Score: 69
Period size: 3 Copynumber: 18.0 Consensus size: 3
1206 CCATTTTTAT
*
1216 TTA TTA -TA TTA TTA TTA TAA TTAA TTA TTA TTA TATA TTA TATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA T-TA TTA
1263 TTA TTA TTA
1 TTA TTA TTA
1272 AAAAAATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 2 0.04
3 36 0.77
4 9 0.19
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:1255 original size:13 final size:13
Alignment explanation
Indices: 1220--1269 Score: 63
Period size: 13 Copynumber: 4.1 Consensus size: 13
1210 TTTTATTTAT
1220 TATATTATTATTA
1 TATATTATTATTA
1233 TA-ATTA--ATTA
1 TATATTATTATTA
1243 T-TATTATATATTA
1 TATATTAT-TATTA
1256 TATATTATTATTA
1 TATATTATTATTA
1269 T
1 T
1270 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 9 0.28
12 4 0.12
13 13 0.41
14 6 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TATATTATTATTA
Found at i:6873 original size:12 final size:12
Alignment explanation
Indices: 6836--6881 Score: 51
Period size: 11 Copynumber: 3.9 Consensus size: 12
6826 ATTATGTGAT
*
6836 TAAA-ATATTAA
1 TAAATATATTTA
6847 TAAATATATTT-
1 TAAATATATTTA
*
6858 TAAATATTTTTA
1 TAAATATATTTA
6870 TAAATAATATTT
1 TAAAT-ATATTT
6882 TGATCAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 14 0.48
12 10 0.34
13 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TAAATATATTTA
Found at i:7177 original size:18 final size:18
Alignment explanation
Indices: 7154--7190 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7144 ACAAAAATTA
7154 ACTTTTTTAATTGTATGT
1 ACTTTTTTAATTGTATGT
7172 ACTTTTTTAATTGTATGT
1 ACTTTTTTAATTGTATGT
7190 A
1 A
7191 TTAAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.11, T:0.59
Consensus pattern (18 bp):
ACTTTTTTAATTGTATGT
Found at i:8118 original size:23 final size:24
Alignment explanation
Indices: 8065--8121 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
8055 TAAATTTTCC
* *
8065 ATTATTTTTTGTCAAAAAATACCT
1 ATTATTTTTAGTCAAAAAATACAT
8089 ATTATTTTTAGTCAAAAAATA-AT
1 ATTATTTTTAGTCAAAAAATACAT
8112 -TTCATTTTTA
1 ATT-ATTTTTA
8122 AAATTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
22 2 0.07
23 8 0.27
24 20 0.67
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (24 bp):
ATTATTTTTAGTCAAAAAATACAT
Found at i:8777 original size:29 final size:30
Alignment explanation
Indices: 8727--8787 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
8717 AAATTTTTAG
* *
8727 TAGTGACCAAAATGTAAGTTTT-AAAAGTT
1 TAGTGACCAAAATATAAATTTTGAAAAGTT
* *
8756 TAGTGGCCAAAGTATAAATTTTGAAAAGTT
1 TAGTGACCAAAATATAAATTTTGAAAAGTT
8786 TA
1 TA
8788 AGGATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (30 bp):
TAGTGACCAAAATATAAATTTTGAAAAGTT
Found at i:14985 original size:30 final size:30
Alignment explanation
Indices: 14951--15009 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
14941 CCCGAAGGAC
14951 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
14981 CTATCCAGAGGTCATAAAGATCCTCGGTA
1 CTATCCAGAGGTCATAAAGATCCTCGGTA
15010 GCTGTACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:15023 original size:30 final size:30
Alignment explanation
Indices: 14951--15023 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
14941 CCCGAAGGAC
*
14951 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATACAGAGGTCATAAAGATCCTCGGTAA
* *
14981 CTATCCAGAGGTCATAAAGATCCTCGGTAG
1 CTATACAGAGGTCATAAAGATCCTCGGTAA
* *
15011 CTGTACATAGGTC
1 CTATACAGAGGTC
15024 CCGAAGAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (30 bp):
CTATACAGAGGTCATAAAGATCCTCGGTAA
Found at i:20457 original size:30 final size:30
Alignment explanation
Indices: 20423--20495 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
20413 CCCGAAAGAC
20423 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
20453 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
20483 CTGTCCATAGGTC
1 CTATCCAGAGGTC
20496 CCGAAGAACC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:20519 original size:31 final size:31
Alignment explanation
Indices: 20481--20545 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
20471 GATCCTCGGT
*
20481 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
* * **
20512 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATAGGTCCCGAAGAACATAGGTA
20543 AAC
1 AAC
20546 GCTCGACTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (31 bp):
AACTGTCCATAGGTCCCGAAGAACATAGGTA
Found at i:25948 original size:20 final size:21
Alignment explanation
Indices: 25899--25948 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
25889 TAAAAATTAT
*
25899 ATAATTTTGGCTTGTAAATGA
1 ATAATTTTGTCTTGTAAATGA
25920 ATAA-TTTGTCTTG-AAAT-A
1 ATAATTTTGTCTTGTAAATGA
25938 ATAACTTTTGT
1 ATAA-TTTTGT
25949 GGTAATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 5 0.19
19 4 0.15
20 13 0.50
21 4 0.15
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (21 bp):
ATAATTTTGTCTTGTAAATGA
Found at i:26185 original size:16 final size:16
Alignment explanation
Indices: 26164--26219 Score: 112
Period size: 16 Copynumber: 3.5 Consensus size: 16
26154 TTAAGTGACT
26164 AAATTTCAATTTTTGA
1 AAATTTCAATTTTTGA
26180 AAATTTCAATTTTTGA
1 AAATTTCAATTTTTGA
26196 AAATTTCAATTTTTGA
1 AAATTTCAATTTTTGA
26212 AAATTTCA
1 AAATTTCA
26220 TGGCTAAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 40 1.00
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.48
Consensus pattern (16 bp):
AAATTTCAATTTTTGA
Found at i:28581 original size:16 final size:16
Alignment explanation
Indices: 28560--28591 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28550 AAATAAAGGT
28560 TAAAAATAAAATAAAA
1 TAAAAATAAAATAAAA
*
28576 TAAAAATAAATTAAAA
1 TAAAAATAAAATAAAA
28592 GACTAAATTG
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAAATAAAATAAAA
Found at i:30764 original size:75 final size:75
Alignment explanation
Indices: 30582--31468 Score: 1156
Period size: 75 Copynumber: 11.8 Consensus size: 75
30572 ATTTCAAGGG
* * * * *
30582 AAACTTTCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCGAGTGAAATAAAATTTCTT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTT-AT
* *
30647 GTTTTGAGTAA
65 GTTTCGAGTGA
* ** *
30658 AAACTTTCTCAAGCGAGACAAAGTTTTTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
30723 TTTCGAGTGA
66 TTTCGAGTGA
* * *
30733 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATTTCAAGTGAGATAAACTTTCTT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTT-AT
*
30798 GTTTCAAGTGA
65 GTTTCGAGTGA
* *
30809 AAACTGTCTCAAGCGAGAGGAAGTTTGTTTTAAGAAAAACAATCTCAAGTAAGATAAAATTTATG
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
30874 TTTCGAGTGA
66 TTTCGAGTGA
** * *
30884 AAACTGTCTCAAGAAAGATGAAGTTTGTTTTAAGCAAAACAATCACAAGTGAGATAAAATTTATG
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
*
30949 TTTTGAGTGA
66 TTTCGAGTGA
* * * *
30959 AAACTATCTCAAGCGAGATGGAA-TTTGTTTTAAGAAAAATAATATCAAGTGAGATAAACTTT-T
1 AAACTGTCTCAAGCGAGAT-GAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTAT
* *
31022 GTTTCAAGTAA
65 GTTTCGAGTGA
* *
31033 AAACTGTCTCAAGCGAGAAT-AAGTTTGTTTTAAGAAAAACTATCTCGAGTGAGATAAAATTTAT
1 AAACTGTCTCAAGCGAG-ATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTAT
31097 GTTTCGAGTGA
65 GTTTCGAGTGA
* ** *
31108 AAACTGCCTCAAGCGAGATGAAGTTTGTTTTAAGAAAATTAATCTCAAGTGAGATAAAATTTTTG
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
*
31173 TTTCGAGTGG
66 TTTCGAGTGA
* * * *
31183 AAACTGTCTCATGCGAGA-CAGAGTTTGTTTTAAGAAAAACAATCTTAAGTGAGATAAAATTTCT
1 AAACTGTCTCAAGCGAGATGA-AGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTAT
* *
31247 ATTTTGAGTGA
65 GTTTCGAGTGA
* * * * * *
31258 AAATTGTCTCAAGCGAGACGAAGTTTTTTTTAAGAAAAACAATCTCAAGTGAGACAAAATTTCTT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
31323 TTTCGAGTGA
66 TTTCGAGTGA
* * * * * *
31333 AAACTGTCTCAAGGGATACGAAGTTTGATTTAAGAAAAAGAATCCCAAGTGAGATAAAATTTATG
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
31398 TTTCGAGTG-
66 TTTCGAGTGA
* * ** *
31407 AAACTGTCTTAAGTGAGACAAAGTTTGTTTTAAGAAAAACTATCT-AGAGTGAGATAAAATTT
1 AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCA-AGTGAGATAAAATTT
31469 CTGATATTTT
Statistics
Matches: 710, Mismatches: 92, Indels: 20
0.86 0.11 0.02
Matches are distributed among these distances:
73 3 0.00
74 114 0.16
75 464 0.65
76 129 0.18
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (75 bp):
AAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTATG
TTTCGAGTGA
Found at i:31140 original size:224 final size:224
Alignment explanation
Indices: 30573--31464 Score: 1166
Period size: 224 Copynumber: 4.0 Consensus size: 224
30563 AAATTTTATA
* * * * * *
30573 TTTCAAG-GGAAACTTTCTCAAGCGAGATGAAATTTGTTTTAAGAAAAACAATCTCGAGTGAAAT
1 TTTCAAGTGAAAACTGTCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* * * * * *
30637 AAAATTTCTTGTTTTGAGTAAAAACTTTCTCAAGCGAGACAAAGTTTTTTTTAAGAAAAACAATC
66 AAAATTT-ATGTTTCGAGTGAAAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATC
30702 TCAAGTGAGATAAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAG
130 TCAAGTGAGATAAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAG
*
30767 AAAAACAATTTCAAGTGAGATAAACTTTCTTG
195 AAAAACAATATCAAGTGAGATAAAC-TT-TTG
* *
30799 TTTCAAGTGAAAACTGTCTCAAGCGAGAGGAAGTTTGTTTTAAGAAAAACAATCTCAAGTAAGAT
1 TTTCAAGTGAAAACTGTCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
** * * *
30864 AAAATTTATGTTTCGAGTGAAAACTGTCTCAAGAAAGATGAAGTTTGTTTTAAGCAAAACAATCA
66 AAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCT
* *
30929 CAAGTGAGATAAAATTTATGTTTTGAGTGAAAACTATCTCAAGCGAGATGGAA-TTTGTTTTAAG
131 CAAGTGAGATAAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGAT-GAAGTTTGTTTTAAG
*
30993 AAAAATAATATCAAGTGAGATAAACTTTTG
195 AAAAACAATATCAAGTGAGATAAACTTTTG
* * * *
31023 TTTCAAGTAAAAACTGTCTCAAGCGAGAATAAGTTTGTTTTAAGAAAAACTATCTCGAGTGAGAT
1 TTTCAAGTGAAAACTGTCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* * **
31088 AAAATTTATGTTTCGAGTGAAAACTGCCTCAAGCGAGATGAAGTTTGTTTTAAGAAAATTAATCT
66 AAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCT
* * * *
31153 CAAGTGAGATAAAATTTTTGTTTCGAGTGGAAACTGTCTCATGCGAGA-CAGAGTTTGTTTTAAG
131 CAAGTGAGATAAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGATGA-AGTTTGTTTTAAG
* * * *
31217 AAAAACAATCTTAAGTGAGATAAAATTTCTA
195 AAAAACAATATCAAGTGAGATAAACTTT-TG
** * * * *
31248 TTTTGAGTGAAAATTGTCTCAAGCGAGACGAAGTTTTTTTTAAGAAAAACAATCTCAAGTGAGAC
1 TTTCAAGTGAAAACTGTCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
* * * * * * *
31313 AAAATTTCTTTTTCGAGTGAAAACTGTCTCAAGGGATACGAAGTTTGATTTAAGAAAAAGAATCC
66 AAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCT
* * **
31378 CAAGTGAGATAAAATTTATGTTTCGAGTG-AAACTGTCTTAAGTGAGACAAAGTTTGTTTTAAGA
131 CAAGTGAGATAAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGA
31442 AAAAC--TATCTAGAGTGAGATAAA
196 AAAACAATATC-A-AGTGAGATAAA
31465 ATTTCTGATA
Statistics
Matches: 585, Mismatches: 73, Indels: 18
0.87 0.11 0.03
Matches are distributed among these distances:
222 3 0.01
223 2 0.00
224 243 0.42
225 142 0.24
226 135 0.23
227 60 0.10
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.32
Consensus pattern (224 bp):
TTTCAAGTGAAAACTGTCTCAAGCGAGAAGAAGTTTGTTTTAAGAAAAACAATCTCAAGTGAGAT
AAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGACGAAGTTTGTTTTAAGAAAAACAATCT
CAAGTGAGATAAAATTTATGTTTCGAGTGAAAACTGTCTCAAGCGAGATGAAGTTTGTTTTAAGA
AAAACAATATCAAGTGAGATAAACTTTTG
Found at i:36759 original size:5 final size:5
Alignment explanation
Indices: 36749--36773 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
36739 AAATGAAGGG
36749 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
36774 ATTAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:38325 original size:24 final size:24
Alignment explanation
Indices: 38291--38337 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38281 TTAATAATTA
38291 TAGATTATGTTAGTACGATACTAC
1 TAGATTATGTTAGTACGATACTAC
*
38315 TAGATTGTGTTAGTACGATACTA
1 TAGATTATGTTAGTACGATACTA
38338 ACTTATAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (24 bp):
TAGATTATGTTAGTACGATACTAC
Found at i:39633 original size:5 final size:5
Alignment explanation
Indices: 39617--39657 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
39607 AAATGAAGGG
*
39617 TAAAA TTAAAA TAAAA TAAAA TAAAA TAAAAA TAAAT TAAA
1 TAAAA -TAAAA TAAAA TAAAA TAAAA T-AAAA TAAAA TAAA
39658 GGACTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:41197 original size:24 final size:24
Alignment explanation
Indices: 41163--41209 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
41153 TTAATAATTA
41163 TAGATTATGTTAGTACGATACTAC
1 TAGATTATGTTAGTACGATACTAC
*
41187 TAGATTGTGTTAGTACGATACTA
1 TAGATTATGTTAGTACGATACTA
41210 ACTTATAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (24 bp):
TAGATTATGTTAGTACGATACTAC
Found at i:44782 original size:24 final size:24
Alignment explanation
Indices: 44750--44796 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
44740 TTAATAATTA
*
44750 TAGATTATGTTAGTACGATACTAC
1 TAGATTATGTTAGCACGATACTAC
44774 TAGATTATGTTAGCACGATACTA
1 TAGATTATGTTAGCACGATACTA
44797 ACTTATAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (24 bp):
TAGATTATGTTAGCACGATACTAC
Found at i:45353 original size:750 final size:750
Alignment explanation
Indices: 43914--46159 Score: 4262
Period size: 750 Copynumber: 3.0 Consensus size: 750
43904 AGGCTTGAGC
*
43914 CCCAGTTGGGTTTAGATTTAGGCATTGGGGTCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
1 CCCAGTTGGGTTTAGATTTAGGCATTGGGGCCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
* * *
43979 AGACTTTTATATTAATAATTATAGATTATGCTAGTACGATACTACTAGATTATGTTAGTACGAAA
66 AGACTTTTATATTAATAATTATAGATTATGTTAGTACGATACTACTAGATTATGTTAGCACGATA
* * * * **
44044 TTAACTTATATTTTTAATATTTCATGTTGTTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
131 CTAACTTATAGTTTGAATATTTTATGTTACTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
44109 GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTAAGAAGATTATCATAGAGAATGTTTGA
196 GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTAAGAAGATTATCATAGAGAATGTTTGA
*
44174 TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCAATTGTGCAAACACTGGCTTGCG
261 TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCTATTGTGCAAACACTGGCTTGCG
*
44239 ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGAATTTGTGATTTA
326 ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGACTTTGTGATTTA
44304 TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTGAAAATGCAAATTTGTGAA
391 TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTGAAAATGCAAATTTGTGAA
*
44369 ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAAAAATGA
456 ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAGAAATGA
* *
44434 TTAGGGGACGAATCTTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
521 TTAGGAGACGAATCGTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
44499 ACTGATTCTGATAATTATAAAAAAAGAATAAAAAATATTGAGTTTGAACTTTATTTAAATTAAAA
586 ACTGATTCTGATAATTATAAAAAAAGAATAAAAAATATTGAGTTTGAACTTTATTTAAATTAAAA
44564 ATAATTACGGATGCAAAGTTGAAAAGGGCATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
651 ATAATTACGGATGCAAAGTTGAAAAGGGCATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
44629 ATAAATGCGGGAGATCAACTATTGTGCCTAATAGG
716 ATAAATGCGGGAGATCAACTATTGTGCCTAATAGG
44664 CCCAGTTGGGTTTAGATTTAGGCATTGGGGCCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
1 CCCAGTTGGGTTTAGATTTAGGCATTGGGGCCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
44729 AGACTTTTATATTAATAATTATAGATTATGTTAGTACGATACTACTAGATTATGTTAGCACGATA
66 AGACTTTTATATTAATAATTATAGATTATGTTAGTACGATACTACTAGATTATGTTAGCACGATA
44794 CTAACTTATAGTTTGAATATTTTATGTTACTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
131 CTAACTTATAGTTTGAATATTTTATGTTACTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
*
44859 GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTGAGAAGATTATCATAGAGAATGTTTGA
196 GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTAAGAAGATTATCATAGAGAATGTTTGA
44924 TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCTATTGTGCAAACACTGGCTTGCG
261 TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCTATTGTGCAAACACTGGCTTGCG
44989 ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGACTTTGTGATTTA
326 ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGACTTTGTGATTTA
* *
45054 TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTAAAAATGCAAATTGGTGAA
391 TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTGAAAATGCAAATTTGTGAA
45119 ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAGAAATGA
456 ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAGAAATGA
45184 TTAGGAGACGAATCGTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
521 TTAGGAGACGAATCGTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
45249 ACTGATTCTGATAATTATAAAAAAAGAATAAAAAATATTGAGTTTGAACTTTATTTAAATTAAAA
586 ACTGATTCTGATAATTATAAAAAAAGAATAAAAAATATTGAGTTTGAACTTTATTTAAATTAAAA
45314 ATAATTACGGATGCAAAGTTGAAAAGGGCATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
651 ATAATTACGGATGCAAAGTTGAAAAGGGCATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
45379 ATAAATGCGGGAGATCAACTATTGTGCCTAATAGG
716 ATAAATGCGGGAGATCAACTATTGTGCCTAATAGG
45414 CCCAGTTGGGTTTAGATTTAGGCATTGGGGCCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
1 CCCAGTTGGGTTTAGATTTAGGCATTGGGGCCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
45479 AGACTTTTATATTAATAATTATAGATTATGTTAGTACGATACTACTAGATTATGTTAGCACGATA
66 AGACTTTTATATTAATAATTATAGATTATGTTAGTACGATACTACTAGATTATGTTAGCACGATA
45544 CTAACTTATAGTTTGAATATTTTATGTTACTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
131 CTAACTTATAGTTTGAATATTTTATGTTACTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
45609 GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTAAGAAGATTATCATAGAGAATGTTTGA
196 GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTAAGAAGATTATCATAGAGAATGTTTGA
45674 TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCTATTGTGCAAACACTGGCTTGCG
261 TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCTATTGTGCAAACACTGGCTTGCG
45739 ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGACTTTGTGATTTA
326 ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGACTTTGTGATTTA
45804 TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTGAAAATGCAAATTTGTGAA
391 TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTGAAAATGCAAATTTGTGAA
45869 ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAGAAATGA
456 ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAGAAATGA
45934 TTAGGAGACGAATCGTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
521 TTAGGAGACGAATCGTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
* * *
45999 ATTGATTCTGATAATTAT-AAAAAA-AATCAAAAATATTGAGTTCGAACTTTATTTAAATTAAAA
586 ACTGATTCTGATAATTATAAAAAAAGAATAAAAAATATTGAGTTTGAACTTTATTTAAATTAAAA
* *
46062 ATCATTACGGATGCAAAGTTGAAAAGGGTATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
651 ATAATTACGGATGCAAAGTTGAAAAGGGCATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
*
46127 ATAAATGCGAGAGATCAACTATTGTGCCTAATA
716 ATAAATGCGGGAGATCAACTATTGTGCCTAATA
46160 ACCAGACATT
Statistics
Matches: 1469, Mismatches: 27, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
748 132 0.09
749 6 0.00
750 1331 0.91
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (750 bp):
CCCAGTTGGGTTTAGATTTAGGCATTGGGGCCTGTTTGTAAATGGGTAATAAAAATGACGATTAC
AGACTTTTATATTAATAATTATAGATTATGTTAGTACGATACTACTAGATTATGTTAGCACGATA
CTAACTTATAGTTTGAATATTTTATGTTACTATATGACTTCGTCAGGCCACGATAAATCTAGTGA
GCCAAGTAACTCGAAAGGGAAGTAAAAAGTGCGGGATTAAGAAGATTATCATAGAGAATGTTTGA
TAATGAGGCAAAGATGAGTGCATATTTATTTCGTAATTATGCTATTGTGCAAACACTGGCTTGCG
ATGAGCCAGTGACGGAGTTGCTATGATAAGAAGCAACTCCTAATGTGTTGTGACTTTGTGATTTA
TGCATGTAAGTGCATTTGGGGAACTAATAAAATTAGTGAATAAGCTGAAAATGCAAATTTGTGAA
ATCTGCCTAGAATTTATTTTCTGAACAATAAGTTTAGAAAATCAGCAGAAATTATACAGAAATGA
TTAGGAGACGAATCGTATACCCTTGGATTTATGTATCAGTCTAGTTTTGTTTAAAACAAACGTAC
ACTGATTCTGATAATTATAAAAAAAGAATAAAAAATATTGAGTTTGAACTTTATTTAAATTAAAA
ATAATTACGGATGCAAAGTTGAAAAGGGCATTCGTTTATTAAGGCCGAGAACATTAGCCCCTAGC
ATAAATGCGGGAGATCAACTATTGTGCCTAATAGG
Found at i:45532 original size:24 final size:24
Alignment explanation
Indices: 45500--45546 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
45490 TTAATAATTA
*
45500 TAGATTATGTTAGTACGATACTAC
1 TAGATTATGTTAGCACGATACTAC
45524 TAGATTATGTTAGCACGATACTA
1 TAGATTATGTTAGCACGATACTA
45547 ACTTATAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (24 bp):
TAGATTATGTTAGCACGATACTAC
Found at i:67349 original size:45 final size:45
Alignment explanation
Indices: 67261--67390 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
67251 TGCATTTTAA
* * * *
67261 TTATGGCATCCCTTCATGCGCTTTTGTACGCTATTATACATTTCAT
1 TTATGGCATCCTTTCATGC-CTTTTATACACTATTATATATTTCAT
* *
67307 TTATGACATCCTTTCATGCCTTTTATACAATATTATATATTTCAT
1 TTATGGCATCCTTTCATGCCTTTTATACACTATTATATATTTCAT
67352 TTATGGCATCCTTTCATGCCTTTTATACACTATTATATA
1 TTATGGCATCCTTTCATGCCTTTTATACACTATTATATA
67391 GTGTTATACA
Statistics
Matches: 76, Mismatches: 8, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
45 59 0.78
46 17 0.22
ACGTcount: A:0.25, C:0.21, G:0.08, T:0.46
Consensus pattern (45 bp):
TTATGGCATCCTTTCATGCCTTTTATACACTATTATATATTTCAT
Found at i:67497 original size:80 final size:80
Alignment explanation
Indices: 67406--67653 Score: 352
Period size: 80 Copynumber: 3.1 Consensus size: 80
67396 ATACATCTAG
* * * *
67406 TCTTTTACTCAAAGGCATATAACCTTTCATCTAACTGGCATGATTGGCACATTTCTGTCAAAAGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAAGC
67471 ACAACTAGCTATTAA
66 ACAACTAGCTATTAA
* * *
67486 TCTTTTACTCAAAGGTATTTAACTTTTCATCTAACTGGCATAATTAACACCTTTCTGTCAAAAGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAAGC
**
67551 ACGGCTAGCTATTAA
66 ACAACTAGCTATTAA
* * * *
67566 TCTTTTACTGAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACATATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAAGC
*
67631 ACAACTAGGTCATTAA
66 ACAACTAGCT-ATTAA
*
67647 TATTTTA
1 TCTTTTA
67654 TTTTGGAATT
Statistics
Matches: 147, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
80 136 0.93
81 11 0.07
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.36
Consensus pattern (80 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAAAGC
ACAACTAGCTATTAA
Found at i:68000 original size:55 final size:55
Alignment explanation
Indices: 67793--68315 Score: 683
Period size: 55 Copynumber: 9.5 Consensus size: 55
67783 ATTATTAAAA
* * * * *
67793 TGCACACATAGTGCCTATAC-GATAGTTCTTCAACTCATGATGAATTCTGT-GAGT
1 TGCACACATAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATT
* * * * * * *
67847 TGCATACATCGTACCTTTACGATTATTCATCAACTAATGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
67902 TGCACACATAGTG-CTGTACGGGTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * * *
67956 TACACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCATGGTTT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
*
68011 TGCACACATAGTGTCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * ** * *
68066 TTCACATATAGTGTTTGTACGATTATTCATCAACTCATGACGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
68121 TGCATACATAGTGCCTGTACGGGTATTCATCAACTCATGATGAATTTCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * **
68176 TGCACACATAGTGCCTGTATGGGTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
68231 TACACACATAGTGCTTGTACAGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
* * *
68286 TTCACATATAGTGCCTGTACGGATATTCAT
1 TGCACACATAGTGCCTGTACGGTTATTCAT
68316 TAAGGTGGTG
Statistics
Matches: 407, Mismatches: 59, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
54 85 0.21
55 322 0.79
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
Found at i:68583 original size:15 final size:15
Alignment explanation
Indices: 68563--68652 Score: 153
Period size: 15 Copynumber: 6.0 Consensus size: 15
68553 TAATAAGGTT
68563 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
68578 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
68593 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
68608 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
68623 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
* *
68638 AATTATTATAAAATA
1 ATTTATTTTAAAATA
68653 TGGATTGATT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 71 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:68665 original size:22 final size:21
Alignment explanation
Indices: 68640--68787 Score: 100
Period size: 22 Copynumber: 6.6 Consensus size: 21
68630 TTAAAATAAA
68640 TTATTATAAAATATGGATTGAT
1 TTATT-TAAAATATGGATTGAT
*** * *
68662 TTATTTTAAAATATTTTTTCAAA
1 TTA-TTTAAAATATGGATT-GAT
* * *
68685 TAATTTATTAGTATGGATTGAT
1 TTATTTA-AAATATGGATTGAT
68707 TTATTTTAAAATATGGATTGAT
1 TTA-TTTAAAATATGGATTGAT
*
68729 TTATTTAAATAATTTATTAGTATTGAT
1 TTATTT-AA-AA--TA-T-GGATTGAT
68756 TT-TTTAAAATATGGATTGAT
1 TTATTTAAAATATGGATTGAT
*
68776 TTATTTTAAATA
1 TTATTTAAAATA
68788 ATTTATTAGT
Statistics
Matches: 96, Mismatches: 19, Indels: 23
0.70 0.14 0.17
Matches are distributed among these distances:
20 9 0.09
21 12 0.12
22 39 0.41
23 17 0.18
24 2 0.02
25 4 0.04
26 4 0.04
27 9 0.09
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.52
Consensus pattern (21 bp):
TTATTTAAAATATGGATTGAT
Found at i:68671 original size:67 final size:69
Alignment explanation
Indices: 68593--68747 Score: 189
Period size: 67 Copynumber: 2.3 Consensus size: 69
68583 TTTTAAAATA
68593 ATTTATTTTAAAATAATTTATTATAAAATAATTTATT-T-TAAAATAAATTATTATAAAATATGG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATATAAAATAAATTATTATAAAATATGG
68656 ATTG
66 ATTG
* ** * * * *
68660 ATTTATTTTAAAAT-ATTT-TT-TCAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATG
1 ATTTATTTTAAAATAATTTATTATAAAATAATTTATTA-TATAAAATAAATTATTATAAAATATG
68722 GATTG
65 GATTG
68727 ATTTA-TTT-AAATAATTTATTA
1 ATTTATTTTAAAATAATTTATTA
68748 GTATTGATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
64 13 0.17
65 6 0.08
66 12 0.16
67 44 0.59
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.51
Consensus pattern (69 bp):
ATTTATTTTAAAATAATTTATTATAAAATAATTTATTATATAAAATAAATTATTATAAAATATGG
ATTG
Found at i:68765 original size:47 final size:49
Alignment explanation
Indices: 68674--69215 Score: 259
Period size: 54 Copynumber: 10.1 Consensus size: 49
68664 ATTTTAAAAT
68674 ATTT-TTTCAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTT-AAATAATTTATTAG--T--ATTGATTTATTTTAAAATATGGATTG
68727 ATTTATTTAAATAATTTATTAGTATTGA-TT-TTTTAAAATATGGATTG
1 ATTTATTTAAATAATTTATTAGTATTGATTTATTTTAAAATATGGATTG
**
68774 ATTTATTTTAAATAATTTATTAGTA-TG-TTTATTTT-AAATAATTTATTG
1 ATTTA-TTTAAATAATTTATTAGTATTGATTTATTTTAAAAT-ATGGATTG
** * ** * * * * **
68822 TATGGATTGATTTATTTTAAATATGGATTGATTTATTATTGTAGTTATGGATTG
1 -ATTTATTTAAATAATTT-ATTA-GTATTGATTTATT-TT-AAAATATGGATTG
*
68876 ----ATTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTG
1 ATTTATTTAAATAATTTATTAG--T--ATTGATTTATTTTAAAATATGGATTG
68925 ATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTTGTATGGATTG
1 ATTTA-TTTAAATAATTTA-T--TA-GTATTGATTTATTTT--A-AA---A----TATGGATTG
* * ***
68989 ATTTATTTTAA-AA--TA-T-GGATTGATTTATTATTGTAGTTGTATGGATTG
1 ATTTATTTAAATAATTTATTAGTATTGATTTA-T-TT-TA-AAATATGGATTG
69037 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTA-TTTAAATAATTTATTAG--T--ATTGATTTATTTTAAAATATGGATTG
69091 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTA-TTTAAATAATTTATTAG--T--ATTGATTTA-TTT---TAA---A--A-TATGGATTG
*
69155 ATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTA-TTTAAATAATTTA--T-TA-GTATTGATTTATTTTAAAATATGGATTG
69209 ATTTATT
1 ATTTATT
69216 ATTGTAGTTG
Statistics
Matches: 388, Mismatches: 38, Indels: 126
0.70 0.07 0.23
Matches are distributed among these distances:
47 31 0.08
48 56 0.14
49 34 0.09
50 6 0.02
51 14 0.04
52 8 0.02
53 24 0.06
54 105 0.27
55 11 0.03
56 7 0.02
57 7 0.02
58 13 0.03
60 6 0.02
61 1 0.00
62 2 0.01
63 9 0.02
64 50 0.13
66 1 0.00
67 2 0.01
68 1 0.00
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (49 bp):
ATTTATTTAAATAATTTATTAGTATTGATTTATTTTAAAATATGGATTG
Found at i:68805 original size:26 final size:25
Alignment explanation
Indices: 68775--68825 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 25
68765 TATGGATTGA
68775 TTTATTTTAAATAATTTATTAGTATG
1 TTTATTTTAAATAATTTATT-GTATG
68801 TTTATTTTAAATAATTTATTGTATG
1 TTTATTTTAAATAATTTATTGTATG
68826 GATTGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (25 bp):
TTTATTTTAAATAATTTATTGTATG
Found at i:68870 original size:24 final size:21
Alignment explanation
Indices: 68822--68938 Score: 108
Period size: 21 Copynumber: 5.1 Consensus size: 21
68812 TAATTTATTG
68822 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
**
68843 TATGGATTGATTTATTATTGTAGT
1 TATGGATTGATTTA-T-TT-TAAA
*
68867 TATGGATTGATTTAAATAATTTATTAG
1 TATGGATTGATTT--AT--TTTA--AA
68894 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTT-AAA
*
68916 TATTGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
68937 TA
1 TA
68939 ATTTATTAGT
Statistics
Matches: 81, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
21 19 0.23
22 19 0.23
23 5 0.06
24 16 0.20
25 5 0.06
26 4 0.05
27 13 0.16
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (21 bp):
TATGGATTGATTTATTTTAAA
Found at i:68939 original size:54 final size:54
Alignment explanation
Indices: 68877--69215 Score: 353
Period size: 54 Copynumber: 6.0 Consensus size: 54
68867 TATGGATTGA
*
68877 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATTGATTGATTTAT
1 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
* * *
68931 TTTAAATAATTTATTAGTATGTATTGATTTATTTT-AAATA---ATTTATTTGT
1 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
* ** * * * ***
68981 ATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTAT
1 TTTAAATAATTTA--TT--AGTATGGATTGATTTA-T-TT-TA-AAATATGGATTGATTTAT
*
69043 TTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTAT
1 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
69097 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTAT
1 TTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTGATTTAT
*
69161 TTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
1 TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
69215 T
1 T
69216 ATTGTAGTTG
Statistics
Matches: 236, Mismatches: 27, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
50 16 0.07
52 2 0.01
53 5 0.02
54 109 0.46
55 7 0.03
56 4 0.02
57 3 0.01
58 17 0.07
59 2 0.01
60 5 0.02
61 1 0.00
62 16 0.07
63 4 0.02
64 45 0.19
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.54
Consensus pattern (54 bp):
TTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTAT
Found at i:68945 original size:36 final size:34
Alignment explanation
Indices: 68903--69000 Score: 107
Period size: 32 Copynumber: 2.9 Consensus size: 34
68893 GTATGGATTG
68903 ATTTATTTTAAAATAT-TGATTGATTTATTTTAAATA
1 ATTTATTTT--AATATGT-ATTGATTTATTTTAAATA
*
68939 ATTTA--TTAGTATGTATTGATTTATTTTAAATA
1 ATTTATTTTAATATGTATTGATTTATTTTAAATA
* *
68971 ATTTA-TTT-GTATGGATTGATTTATTTTAAA
1 ATTTATTTTAATATGTATTGATTTATTTTAAA
69001 ATATGGATTG
Statistics
Matches: 58, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
32 48 0.83
33 3 0.05
34 2 0.03
36 5 0.09
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (34 bp):
ATTTATTTTAATATGTATTGATTTATTTTAAATA
Found at i:68962 original size:32 final size:32
Alignment explanation
Indices: 68920--69198 Score: 232
Period size: 32 Copynumber: 8.5 Consensus size: 32
68910 TTAAAATATT
68920 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
* *
68952 TATTGATTTATTTTAAATAATTTATTTGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
** *
68984 GATTGATTTATTTTAAA-ATATGGATT-G-ATT
1 GATTGATTTATTTTAAATA-ATTTATTAGTATG
* * * *
69014 TATT-ATTGTAGTTGTATGGATTGATTTATT--T-T-
1 GATTGATT-TA-TT-T-T-AAATAATTTATTAGTATG
* * * * * *
69046 AAATAATTTATTAGTATGAATTGATTTATTTTAAAATATG
1 GATTGATTTATT--T-T-AAATAATTTA--TT--AGTATG
69086 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
69118 GATTGATTTATTTTAAATAATTTATTAGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
*
69150 GATTGATTTATTTTAAATAATTTATTTGTATG
1 GATTGATTTATTTTAAATAATTTATTAGTATG
69182 GATTGATTTATTTTAAA
1 GATTGATTTATTTTAAA
69199 ATATGGATTG
Statistics
Matches: 207, Mismatches: 22, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
29 3 0.01
30 7 0.03
31 6 0.03
32 155 0.75
33 5 0.02
34 10 0.05
36 8 0.04
37 1 0.00
38 2 0.01
39 1 0.00
40 9 0.04
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (32 bp):
GATTGATTTATTTTAAATAATTTATTAGTATG
Found at i:68996 original size:22 final size:22
Alignment explanation
Indices: 68971--69044 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
68961 ATTTTAAATA
68971 ATTTATTTGTATGGATTGATTT
1 ATTTATTTGTATGGATTGATTT
***
68993 ATTT-TAAAATATGGATTGATTTATT
1 ATTTAT-TTGTATGGATTGA--T-TT
*
69018 ATTGTAGTTGTATGGATTGATTT
1 ATT-TATTTGTATGGATTGATTT
69041 ATTT
1 ATTT
69045 TAAATAATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
21 1 0.03
22 15 0.38
23 5 0.13
24 2 0.05
25 5 0.13
26 11 0.28
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (22 bp):
ATTTATTTGTATGGATTGATTT
Found at i:69071 original size:166 final size:162
Alignment explanation
Indices: 68696--69166 Score: 710
Period size: 166 Copynumber: 3.0 Consensus size: 162
68686 AATTTATTAG
* **
68696 TATGGATTGATTTATT-TT-AAAATATGGATTGATTTATTTAAATAATTTATTAG--T-ATTGA-
1 TATGGATTGATTTATTATTGTAGTTATGGATTGATTTATTTAAATAATTTATTAGTATGATTGAT
68755 TT-TTTTAAAATATGGATTGATTTATTTTAAATAATTTA-T--TA-GTA-TG-TTTATTTTAAAT
66 TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAT
68813 AATTTA-TTGTATGGATTGATTTATTTT-AAA
131 AATTTATTTGTATGGATTGATTTATTTTAAAA
68843 TATGGATTGATTTATTATTGTAGTTATGGATTG----ATTTAAATAATTTATTAGTATGGATTGA
1 TATGGATTGATTTATTATTGTAGTTATGGATTGATTTATTTAAATAATTTATTAGTAT-GATTGA
*
68904 TTTATTTTAAAATATTGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAA
65 TTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAA
68969 TAATTTATTTGTATGGATTGATTTATTTTAAAA
130 TAATTTATTTGTATGGATTGATTTATTTTAAAA
69002 TATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAAT
1 TATGGATTGATTTATTATTGTAG-T-TATGGATTGATTTA-TTTAAATAATTTATTAGTATG-AT
*
69067 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
62 TGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTT
*
69132 AAATAATTTATTAGTATGGATTGATTTATTTTAAA
127 AAATAATTTATTTGTATGGATTGATTTATTTTAAA
69167 TAATTTATTT
Statistics
Matches: 293, Mismatches: 7, Indels: 29
0.89 0.02 0.09
Matches are distributed among these distances:
145 18 0.06
147 17 0.06
148 2 0.01
149 15 0.05
150 2 0.01
151 35 0.12
152 1 0.00
154 2 0.01
155 3 0.01
156 2 0.01
157 18 0.06
158 21 0.07
159 26 0.09
160 1 0.00
161 9 0.03
165 2 0.01
166 119 0.41
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (162 bp):
TATGGATTGATTTATTATTGTAGTTATGGATTGATTTATTTAAATAATTTATTAGTATGATTGAT
TTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAT
AATTTATTTGTATGGATTGATTTATTTTAAAA
Found at i:69085 original size:22 final size:22
Alignment explanation
Indices: 69060--69102 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
69050 AATTTATTAG
69060 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
69082 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
69103 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:69157 original size:144 final size:141
Alignment explanation
Indices: 69002--69288 Score: 368
Period size: 144 Copynumber: 2.0 Consensus size: 141
68992 TATTTTAAAA
*
69002 TATGGATTGATTTA-TT-AT-TGTAGTTGTATGGATTGATTTATTTTAAATAATTTAT-TAGTAT
1 TATGGATTGATTTATTTAATATGTAGTTGTATGGATTGATTTATTTT-AA-AA--TATGGA-T-T
*
69063 GAATTGATTTATTTTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT
60 G-ATTGA-TTATTGTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTT
69127 ATTTTAAATAATTTATTAG
123 ATTTTAAATAATTTATTAG
* *
69146 TATGGATTGATTTATTTTAAATAATTTATTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTA-TTT-AAT-ATGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGAT
* ***
69211 TTATTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
63 TGATTATTGTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT
69276 AAATAATTTATTA
128 AAATAATTTATTA
69289 TTGTAGTTGT
Statistics
Matches: 127, Mismatches: 8, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
143 7 0.06
144 81 0.64
145 2 0.02
146 6 0.05
147 1 0.01
148 4 0.03
149 2 0.02
150 24 0.19
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (141 bp):
TATGGATTGATTTATTTAATATGTAGTTGTATGGATTGATTTATTTTAAAATATGGATTGATTGA
TTATTGTAGAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAA
TAATTTATTAG
Found at i:69157 original size:198 final size:198
Alignment explanation
Indices: 68920--69278 Score: 700
Period size: 198 Copynumber: 1.8 Consensus size: 198
68910 TTAAAATATT
*
68920 GATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAATAATTTATTTGTATGG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGG
68985 ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAT
66 ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAT
69050 AATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
131 AATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
69115 ATG
196 ATG
69118 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGG
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGG
69183 ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAT
66 ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAT
*
69248 AATTTATTAGTATGGATTGATTTATTTTAAA
131 AATTTATTAGTATGAATTGATTTATTTTAAA
69279 TAATTTATTA
Statistics
Matches: 159, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
198 159 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (198 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGTATGG
ATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTTGTATGGATTGATTTATTTTAAAT
AATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGT
ATG
Found at i:69204 original size:86 final size:86
Alignment explanation
Indices: 69028--69278 Score: 281
Period size: 86 Copynumber: 3.0 Consensus size: 86
69018 ATTGTAGTTG
* *
69028 TATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTGAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTT-AAATA---ATTTAT
* * ** * * *
69093 TTATTTTAAATAATTTA--TT--AG
62 TTGTATGGATTGATTTATTTTAAAA
69114 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
69179 ATGGATTGATTTATTTTAAAA
66 ATGGATTGATTTATTTTAAAA
* *
69200 TATGGATTGATTTA--TT--AT--TGTAGTT-GTATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTA-TTAGTATGGATTGATTTATTTTAAATAATTTATTTG
69258 TATGGATTGATTTATTTTAAA
65 TATGGATTGATTTATTTTAAA
69279 TAATTTATTA
Statistics
Matches: 149, Mismatches: 11, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
80 56 0.38
81 2 0.01
82 18 0.12
84 4 0.03
85 5 0.03
86 64 0.43
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (86 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTTGT
ATGGATTGATTTATTTTAAAA
Found at i:69237 original size:166 final size:159
Alignment explanation
Indices: 68695--69246 Score: 612
Period size: 166 Copynumber: 3.4 Consensus size: 159
68685 TAATTTATTA
* * * *
68695 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTTAAATAATTTATTA-GTATTGA-TT-
1 GTATGGATTGATTTATTTTAAAATATGGATTGATTTA-TT-ATTTA-TTAGTATGGATTGATTTA
68757 TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAG--T--A-TG-TTTATTTTAAATAAT
63 TTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAAT
68816 TTATT-GTATGGATTGATTTATTTT-AAATAT
128 TTATTAGTATGGATTGATTTATTTTAAAATAT
* * * * ** *
68846 GGATTGATTTA-TTATTGT-AGTTATGGATTGATTTAAATAATTTATTAGTATGGATTGATTTAT
1 GTATGGATTGATTTATTTTAAAATATGGATTGATTT--ATTATTTATTAGTATGGATTGATTTAT
* *
68909 TTTAAAATATTGATTGATTTATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAATAATT
64 TTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATT
*
68974 TATTTGTATGGATTGATTTATTTTAAAATAT
129 TATTAGTATGGATTGATTTATTTTAAAATAT
* * * * *** *
69005 GGATTGATTTA-TTATTGTAGTTGTATGGATTGATTTATTTTAAATAATTTATTAGTATGAATTG
1 GTATGGATTGATTTATTTTA-AAATATGGATTGATTTA---T---T-ATTTATTAGTATGGATTG
69069 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
58 ATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAA
69134 ATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTATTT
123 ATAATTTATTAGTATGGATTGATTTATTTT-AA-AA--TA--T
69177 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTGTAGTT-GTATGGATTGATTTAT
1 GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATT-TA-TTAGTATGGATTGATTTAT
69241 TTTAAA
64 TTTAAA
69247 TAATTTATTA
Statistics
Matches: 342, Mismatches: 28, Indels: 47
0.82 0.07 0.11
Matches are distributed among these distances:
148 5 0.01
149 23 0.07
150 9 0.03
151 48 0.14
153 1 0.00
155 1 0.00
156 2 0.01
157 20 0.06
158 19 0.06
159 25 0.07
161 13 0.04
162 1 0.00
165 3 0.01
166 133 0.39
167 4 0.01
168 2 0.01
169 1 0.00
170 2 0.01
172 23 0.07
173 7 0.02
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (159 bp):
GTATGGATTGATTTATTTTAAAATATGGATTGATTTATTATTTATTAGTATGGATTGATTTATTT
TAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAATAATTTA
TTAGTATGGATTGATTTATTTTAAAATAT
Found at i:69266 original size:32 final size:32
Alignment explanation
Indices: 69225--69288 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
69215 TATTGTAGTT
69225 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
69257 GTATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
69289 TTGTAGTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:69553 original size:54 final size:54
Alignment explanation
Indices: 69483--69603 Score: 197
Period size: 54 Copynumber: 2.2 Consensus size: 54
69473 CGTGGATTTA
* *
69483 CACACATAGTGTCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATG
*
69537 CACACTTAGTGCCGAAATGGTTATTCATCCACATAGGATGAATTCCGTGAAATG
1 CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATG
* *
69591 CACATTTAATGCC
1 CACACTTAGTGCC
69604 TATTTGGTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.27
Consensus pattern (54 bp):
CACACTTAGTGCCGAAACGGTTATTCATCCACATAGGATGAATTCCGTGAAATG
Found at i:70049 original size:94 final size:95
Alignment explanation
Indices: 69878--70066 Score: 254
Period size: 94 Copynumber: 2.0 Consensus size: 95
69868 CGATACTTAA
* * * * **
69878 ATACAATGGTACCGATACTCCCTTCCGGTATCAATACCAATTTTAGGTTTGATGTTGCCTGGTAT
1 ATACAATGGTACCGATACCCCCTTCCAGTATCAATACCAATTTTAGATTCGACATTGCCTGGTAT
*
69943 CAATACCCTTACCATGGTATCGATACTACC
66 CAATACACTTACCATGGTATCGATACTACC
* * * *
69973 ATACTATGGTACCGATACCCCCTT-CAGTATCCATACCGATTTTAGATTCGACATTGCTTGGTAT
1 ATACAATGGTACCGATACCCCCTTCCAGTATCAATACCAATTTTAGATTCGACATTGCCTGGTAT
* *
70037 CGATACATTTACCATGGTATCGATACTACC
66 CAATACACTTACCATGGTATCGATACTACC
70067 TCATCGGTAT
Statistics
Matches: 81, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 59 0.73
95 22 0.27
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (95 bp):
ATACAATGGTACCGATACCCCCTTCCAGTATCAATACCAATTTTAGATTCGACATTGCCTGGTAT
CAATACACTTACCATGGTATCGATACTACC
Found at i:73624 original size:15 final size:13
Alignment explanation
Indices: 73603--73637 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 13
73593 AAGTTCATTA
73603 AAAATAAAACTTTT
1 AAAATAAAA-TTTT
73617 ACAAATAAAATTTT
1 A-AAATAAAATTTT
73631 AAAATAA
1 AAAATAA
73638 TATAAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 6 0.30
15 8 0.40
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAAAATTTT
Found at i:78679 original size:18 final size:18
Alignment explanation
Indices: 78640--78680 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
78630 GAGAGAATAT
**
78640 AAAAAGAAAAAATTAAGA
1 AAAAAGAAAAAAAGAAGA
*
78658 AAAAAGAAAAAAAGAAGG
1 AAAAAGAAAAAAAGAAGA
78676 AAAAA
1 AAAAA
78681 CGGAGGGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAAGAAAAAAAGAAGA
Found at i:80671 original size:2 final size:2
Alignment explanation
Indices: 80664--80766 Score: 167
Period size: 2 Copynumber: 53.0 Consensus size: 2
80654 TGAATCTTTC
*
80664 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
80705 A- AT AT AT AT AT A- AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
80745 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
80767 TAATGTGACT
Statistics
Matches: 94, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
1 3 0.03
2 91 0.97
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81704 original size:13 final size:14
Alignment explanation
Indices: 81664--81706 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
81654 GTTTGGTTGT
81664 TGTTGTGTTTGTT-G
1 TGTTGT-TTTGTTCG
81678 TGTTGTTGTTGTTCG
1 TGTTGTT-TTGTTCG
81693 TGTT-TTTTGTTCG
1 TGTTGTTTTGTTCG
81706 T
1 T
81707 TTGCAGGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 13 0.48
15 5 0.19
ACGTcount: A:0.00, C:0.05, G:0.30, T:0.65
Consensus pattern (14 bp):
TGTTGTTTTGTTCG
Found at i:81733 original size:20 final size:20
Alignment explanation
Indices: 81708--81748 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
81698 TTTGTTCGTT
81708 TGCAGGTGTGATGGTTTTTA
1 TGCAGGTGTGATGGTTTTTA
81728 TGCAGGTGTGATGGTTTTTA
1 TGCAGGTGTGATGGTTTTTA
81748 T
1 T
81749 AGGCCACCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.05, G:0.34, T:0.46
Consensus pattern (20 bp):
TGCAGGTGTGATGGTTTTTA
Found at i:82263 original size:3 final size:3
Alignment explanation
Indices: 82257--82347 Score: 120
Period size: 3 Copynumber: 32.0 Consensus size: 3
82247 TATTATTATT
82257 TAA TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA -AA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
82303 TAT TAT TAA -AT TAA TAA T-A TAA TAA TAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
82348 CAAATGGATA
Statistics
Matches: 79, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
2 9 0.11
3 70 0.89
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:82277 original size:17 final size:17
Alignment explanation
Indices: 82258--82347 Score: 110
Period size: 17 Copynumber: 5.0 Consensus size: 17
82248 ATTATTATTT
82258 AATAATAATAA-AATAA
1 AATAATAATAATAATAA
82274 TAATAATAATAATAATAA
1 -AATAATAATAATAATAA
82292 AATAATAATAATATTATTAA
1 AATAATAATAATA--A-TAA
*
82312 ATTAATAATATAATAATAA
1 AATAAT-A-ATAATAATAA
82331 AATAATAATAATAATAA
1 AATAATAATAATAATAA
82348 CAAATGGATA
Statistics
Matches: 65, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
17 34 0.52
18 6 0.09
19 9 0.14
20 9 0.14
21 1 0.02
22 6 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATAATAATAATAATAA
Found at i:82280 original size:20 final size:20
Alignment explanation
Indices: 82257--82347 Score: 132
Period size: 20 Copynumber: 4.6 Consensus size: 20
82247 TATTATTATT
82257 TAATAATAATAA-AATAATAA
1 TAATAATAATAATAA-AATAA
82277 TAATAATAATAATAAAATAA
1 TAATAATAATAATAAAATAA
* * *
82297 TAATAATATTATTAAATTAA
1 TAATAATAATAATAAAATAA
82317 TAAT-ATAATAATAAAATAA
1 TAATAATAATAATAAAATAA
82336 TAATAATAATAA
1 TAATAATAATAA
82348 CAAATGGATA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
19 16 0.25
20 45 0.71
21 2 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAATAATAATAATAAAATAA
Found at i:82963 original size:123 final size:123
Alignment explanation
Indices: 82469--83172 Score: 990
Period size: 123 Copynumber: 5.7 Consensus size: 123
82459 GATTTAGACG
* ** * *
82469 AAAATGTTGAATAAGTTCTTCTCATTATGAACTTCTTCTTCCT-TCTCAGATGAGTTATTCTCAT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCT-TCAGATGAGTTCTTCTTAT
* * * * * *** * *
82533 TATGAACTCATTTTGTTTAAAATGTTGAGGTTGCTCTATCTCCTTCTATAATAGAGTTGAGC
65 TACGAACTCCTTTTG---GAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCGAAC
* *
82595 AAAAGGTTAAATAAGTTCTTCAGATTATGAACTT-TTTTTCCTCTTCAGATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
*
82659 ACGAACTCCTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAAAGTC-AAGC
66 ACGAACTCCTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCGAA-C
82717 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAG---TTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
* * * * ** *
82779 ATGAACTCCTTTTGGAAATATTGATGTTGCTCAATCTCCTTCTTTGATAGAGTCGAGC
66 ACGAACTCCTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCGAAC
*
82837 AAAAGGTTGAACAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
* *
82902 ACGAACTCCTTCTGGAAATGTTGATGCTACTCTATCTCCTTCTGCGATAGAGTCGAAC
66 ACGAACTCCTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCGAAC
* * *
82960 AAAAGGTTGAACAAGTTCTTCAGATTATGAACTTCTCCTTCCTCTTCAGGTGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
*
83025 ACGAACTCTTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTC-AAGC
66 ACGAACTCCTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCGAA-C
*
83083 AAAAGGTTGAATAAGTTCTTCAAATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
1 AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
* *
83148 ACGAACTTCTTCTGGAAATGTTGAT
66 ACGAACTCCTTTTGGAAATGTTGAT
83173 CCCTCGAGTG
Statistics
Matches: 520, Mismatches: 50, Indels: 19
0.88 0.08 0.03
Matches are distributed among these distances:
120 109 0.21
121 2 0.00
122 68 0.13
123 273 0.52
125 37 0.07
126 31 0.06
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (123 bp):
AAAAGGTTGAATAAGTTCTTCAGATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTTATT
ACGAACTCCTTTTGGAAATGTTGATGCTGCTCTATCTCCTTCTGCGATAGAGTCGAAC
Found at i:84447 original size:2 final size:2
Alignment explanation
Indices: 84440--84471 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
84430 CCATAAATGA
84440 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84472 ACAATGCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Done.