Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 108 of 240
Found at i:33346746 original size:62 final size:62
Alignment explanation
Indices: 33346620--33346738 Score: 152
Period size: 62 Copynumber: 1.9 Consensus size: 62
33346610 CATTTTACCT
** * *
33346620 TATGGAGGTATTTTGGTCATTTTACCCTATAGGGGTACTTTAGTCATTTTACCCTATAAAGG
1 TATGGAGGTATTTCAGTCATTCTACCCTATAGGGGTACTTTAGTCATTCTACCCTATAAAGG
* *
33346682 TATGGAGGTATTTCAGTCATTCTACCTTAT-GGAGGTA-TTTCGGTCATTCTACCCTAT
1 TATGGAGGTATTTCAGTCATTCTACCCTATAGG-GGTACTTT-AGTCATTCTACCCTAT
33346739 GAGGGTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 5 0.10
62 44 0.90
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (62 bp):
TATGGAGGTATTTCAGTCATTCTACCCTATAGGGGTACTTTAGTCATTCTACCCTATAAAGG
Found at i:33347107 original size:133 final size:133
Alignment explanation
Indices: 33346527--33347105 Score: 666
Period size: 133 Copynumber: 4.3 Consensus size: 133
33346517 TGGTATAACA
*
33346527 GTCATTTTACCCTATGAGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGATCATTCTACC
1 GTCATTTTACCCTATGGGGGTATTTCAGTCA-TTTACCCTATG-GGGTATTTCGATCATTCTACC
* * * * *
33346592 CTATGGGTGTATTTCAGTCATTTTACCTTATGGAGGTATTTTGGTCATTTTACCCTATAGGGGTA
64 CTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGTA
*
33346657 CTTT-A
129 -TTTCG
* *
33346662 GTCATTTTACCCTATAAAGGTATGGAGGTATTTCAGTCATTCTACCTTATGGAGGTATTTCGGTC
1 GTCATTTTACCCTAT----G---GG-GGTATTTCAGTCATT-TACCCTATGG-GGTATTTCGATC
* * * * *
33346727 ATTCTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT-AGGGTATTTCGGTCAATTTAACCTA
56 ATTCTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTA
*
33346791 T-AGGGTATTTCG
121 TGGGGGTATTTCG
* * *
33346803 ATCATTTTACCCTATGGGGGGTATTTC-GATCATTTTACCCTATGAGATATTTCGATCATTCTAC
1 GTCATTTTACCCTAT-GGGGGTATTTCAG-TCA-TTTACCCTATGGGGTATTTCGATCATTCTAC
** * *
33346867 CCTATGGGGGTATTTCAGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACTCTATGGGGGT
63 CCTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGT
33346932 ATTTCG
128 ATTTCG
* * *
33346938 GTC-TTTCTACCCTATAGGGGTATTTCAGTCATTTATCCTATGGGGTATTTCGGTCAATT-TACC
1 GTCATTT-TACCCTATGGGGGTATTTCAGTCATTTACCCTATGGGGTATTTCGATC-ATTCTACC
* * * *
33347001 CTATGGGGGTATTTCGGTCATTCTACCCTATGAAGGTACTTCGGTCATTCTACCCTATGGGGGTA
64 CTATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGTA
*
33347066 TTTTG
129 TTTCG
* *
33347071 GTTAATTTACCCTATGGGGGTATTTCAGTCATTTA
1 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTA
33347106 TCGACCTCTC
Statistics
Matches: 380, Mismatches: 45, Indels: 40
0.82 0.10 0.09
Matches are distributed among these distances:
133 162 0.43
134 61 0.16
135 40 0.11
138 2 0.01
139 1 0.00
140 3 0.01
141 19 0.05
142 25 0.07
143 67 0.18
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.40
Consensus pattern (133 bp):
GTCATTTTACCCTATGGGGGTATTTCAGTCATTTACCCTATGGGGTATTTCGATCATTCTACCCT
ATGGGGGTATTTCAGTCATTTTACCCTATGAAGGTATTTCGGTCATTTTACCCTATGGGGGTATT
TCG
Found at i:33351527 original size:4 final size:4
Alignment explanation
Indices: 33351518--33351569 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
33351508 AAGGCCGTGG
* *
33351518 CTTT CTTT C-TT CTTT CTCT GTTT CTTT CTTTT CTTT CTTT C--T CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT
33351564 CTTT CT
1 CTTT CT
33351570 ATTTCGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 31 0.77
5 4 0.10
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (4 bp):
CTTT
Found at i:33351548 original size:23 final size:22
Alignment explanation
Indices: 33351518--33351569 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
33351508 AAGGCCGTGG
33351518 CTTTCTTTC-TTCTTTCTCTGTTT
1 CTTTCTTTCTTTCTTTCTC--TTT
33351541 CTTTCTTTTCTTTCTTTCTCTTT
1 CTTTC-TTTCTTTCTTTCTCTTT
33351564 CTTTCT
1 CTTTCT
33351570 ATTTCGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 1 0.04
23 13 0.48
24 4 0.15
25 9 0.33
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (22 bp):
CTTTCTTTCTTTCTTTCTCTTT
Found at i:33351670 original size:26 final size:26
Alignment explanation
Indices: 33351616--33351670 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
33351606 TATTTGTTTT
* **
33351616 ATTATTTCACATTCTATTTTCATTTC
1 ATTATTTCACATTCGATTTTCATACC
33351642 ATTATTTCAC-TTCGATTTCTCATACC
1 ATTATTTCACATTCGATTT-TCATACC
33351668 ATT
1 ATT
33351671 CCATTTCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.53
Consensus pattern (26 bp):
ATTATTTCACATTCGATTTTCATACC
Found at i:33352486 original size:23 final size:20
Alignment explanation
Indices: 33352456--33352512 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
33352446 AAGGCCGTGG
*
33352456 CTTTCTTTCTTCTTTCTCTGTTT
1 CTTTCTTTCTT-TTTCT-T-TCT
33352479 CTTTCTTT-TTTTTCTTTCT
1 CTTTCTTTCTTTTTCTTTCT
*
33352498 CTTTCTTTCTGTTTC
1 CTTTCTTTCTTTTTC
33352513 GTTTTGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 10 0.32
20 6 0.19
21 5 0.16
22 2 0.06
23 8 0.26
ACGTcount: A:0.00, C:0.25, G:0.04, T:0.72
Consensus pattern (20 bp):
CTTTCTTTCTTTTTCTTTCT
Found at i:33352494 original size:13 final size:14
Alignment explanation
Indices: 33352456--33352507 Score: 52
Period size: 13 Copynumber: 3.7 Consensus size: 14
33352446 AAGGCCGTGG
*
33352456 CTTTCTTTCTTCTTT
1 CTTTCTTTCTT-TCT
* *
33352471 CTCTGTTTCTTTCT
1 CTTTCTTTCTTTCT
*
33352485 -TTTTTTTCTTTCT
1 CTTTCTTTCTTTCT
33352498 CTTTCTTTCT
1 CTTTCTTTCT
33352508 GTTTCGTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 11 0.37
14 10 0.33
15 9 0.30
ACGTcount: A:0.00, C:0.25, G:0.02, T:0.73
Consensus pattern (14 bp):
CTTTCTTTCTTTCT
Found at i:33352505 original size:19 final size:19
Alignment explanation
Indices: 33352457--33352505 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
33352447 AGGCCGTGGC
*
33352457 TTTCTTTCTTCTTTCTCTG
1 TTTCTTTCTTTTTTCTCTG
*
33352476 TTTCTTTCTTTTTTTTCT-
1 TTTCTTTCTTTTTTCTCTG
33352494 TTCTCTTTCTTT
1 TT-TCTTTCTTT
33352506 CTGTTTCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTCTTTCTTTTTTCTCTG
Found at i:33352652 original size:938 final size:943
Alignment explanation
Indices: 33350640--33353537 Score: 4735
Period size: 978 Copynumber: 3.0 Consensus size: 943
33350630 ATTTGCAACA
* *
33350640 TATTTTACAATCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
1 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
* *
33350705 CAATCATAAAACTTTATTATTCATTTACCATTATTAACACGACTTGGAGTCGGACGGATACACGG
66 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
33350770 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
131 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
*
33350835 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTCCCACATCGAATTAATCCGA
196 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
* *
33350900 AGTAGTAAATTGACTCCTAGTGTATCATCAACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
261 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
* *
33350965 CCTATGGCATGCCATCTATATCTGACTCGGTCTGATATGGCTAATAGGGTTTAATTTCACAATTC
326 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
33351030 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
391 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
33351095 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATACAACAATTAA
456 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAAT---AC------
*
33351160 TAACTAAGTTCGGATTATAGAAATACAAATAAGAAATTTTGAACTATCCCTCATCGACTTTATCT
512 -AACTAA--TC---------AAAT-C--------AA--CT--A-TATCCCTCATCGACTTTATCT
* * * *
33351225 TTTCCCTTTTTTCACTCAAATTCCTAAATTTTGAATTTGTCACAATTTAGTCCATATTACTCAAA
551 TTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAATTTTTCACAATTTAGTCCATATTACTCAAA
33351290 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
616 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
* *
33351355 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTTTAAATTTTTAACATGGGTCGAGTAGT
681 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGGGTAGT
*
33351420 ATTAACACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACCAACCAATT
746 ATTAACACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACTAACCAATT
33351485 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTT
811 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTT
* *
33351550 CTTTCTTTCTCTTTCTTTCTATTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTTT
876 TTTTCTTTCTCTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTTT
33351615 TAT
941 TAT
*
33351618 TATTTCACATTCTATTTTCATTTCATTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
1 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
33351683 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
66 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
*
33351748 ATCCAACCAAAACACACCAGTTTGGCACCCAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
131 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
* * *
33351813 CACCTAGTATCTCATCGGCTAAACCGAAGTAAATTGGCACCCATTGCCTCATCGAATTAATCCGA
196 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
* *
33351878 AGTAGTAAATTGACACCCAGTGTATCATTGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
261 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
*
33351943 CCTATGGCATGCCATCTATATCTGACTCAGTCCGATATGGTTAATAGGGTTTAATTTCACAATTC
326 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
33352008 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
391 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
33352073 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATACAAC-AATC-
456 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATACAACTAATCA
*
33352136 AATC-ACT-TA-CCCTCATCGACTTTATCTTTCCCCCTTTTTCATTTAAATTCCTAAATTTTGAA
521 AATCAACTATATCCCTCATCGACTTTATCTTTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAA
* *
33352198 TTTTTCATAATTTAGTCCATATTACTCAAAATCTACAATTTATTCTACAATTCAATCCTTTTTCA
586 TTTTTCACAATTTAGTCCATATTACTCAAAATTTACAATTTATTCTACAATTCAATCCTTTTTCA
*
33352263 TTTCTAACTTAAAAATCCCTAAAACTAAAATTATTCAACATAGACAAAACTTAGAAACTCAATAA
651 TTTCTAACTTAAAAATCCCTAAAACTAAAATTATTCAACATAGACAAAACTTAAAAACTCAATAA
33352328 TTTCTAAATTTTTAACATGGGTCGGGTAGTATTAACACCGAGATTCCAAAAACATAAAAATTACA
716 TTTCTAAATTTTTAACATGGGTCGGGTAGTATTAACACCGAGATTCCAAAAACATAAAAATTACA
* * *
33352393 AGAAAAATGGTCTAAATTTACTAACCAATTGAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCT
781 AGAAAAAGGGACTAAATTGACTAACCAATTGAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCT
33352458 TTCTTTCTTCTTTCTCTGTTTCTTTCTTTTTTTTCTTTCTCTTTCTTTCTGTTTCGTTTTGGTTT
846 TTCTTTCTTCTTTCTCTGTTTCTTTCTTTTTTTTCTTTCTCTTTCTTTCTGTTTCGTTTTGGTTT
*
33352523 TCTATTCCTTTTTCGTTTATTTATTTGTTTTAT
911 TCTATTCCTTTTTCTTTTATTTATTTGTTTTAT
*
33352556 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCGTTCCATTTCAATAT
1 TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
33352621 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
66 CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
*
33352686 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTAGATAATTCGAAGTAATAAATTGA
131 ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
33352751 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
196 CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
*
33352816 AGTAGTAAATTGACTCCCAGTGTATTATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
261 AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
33352881 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
326 CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
33352946 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
391 AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
33353011 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATGCAACAATTAA
456 ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAAT---AC------
*
33353076 TAACTAAGTTCGGATTATAGAAATACAAATAAGAAATTTTGAACTATCCCTCATCGACTTTATCT
512 -AACTAA--TC---------AAAT-C--------AA--CT--A-TATCCCTCATCGACTTTATCT
33353141 TTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAATTTTTCACAATTTAGTCCATATTACTCAAA
551 TTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAATTTTTCACAATTTAGTCCATATTACTCAAA
33353206 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
616 ATTTACAATTTATTCTACAATTCAATCCTTTTTCATTTCTAACTTAAAAATCCCTAAAACTAAAA
33353271 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGGGTAGT
681 TTATTCAACATAGACAAAACTTAAAAACTCAATAATTTCTAAATTTTTAACATGGGTCGGGTAGT
* *
33353336 ATTAATACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACTAACCATTT
746 ATTAACACCGAGATTCCAAAAACATAAAAATTACAAGAAAAAGGGACTAAATTGACTAACCAATT
*
33353401 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTACTTCTTTCTCTGTTTCTTTCTTTT
811 GAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCTTTCTTTCTTCTTTCTCTGTTTCTTTCTTTT
* *
33353466 TTTTATTTCTTTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTTT
876 TTTTCTTTCTCTTTCTTTCTGTTTCGTTTTGGTTTTCTATTCCTTTTTCTTTTATTTATTTGTTT
33353531 TAT
941 TAT
33353534 TATT
1 TATT
33353538 ATAATATAAT
Statistics
Matches: 1820, Mismatches: 60, Indels: 80
0.93 0.03 0.04
Matches are distributed among these distances:
938 892 0.49
939 2 0.00
941 2 0.00
943 1 0.00
945 1 0.00
948 3 0.00
949 2 0.00
951 2 0.00
954 1 0.00
955 3 0.00
961 3 0.00
962 1 0.00
965 2 0.00
967 2 0.00
968 3 0.00
971 1 0.00
973 1 0.00
975 2 0.00
977 2 0.00
978 894 0.49
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.36
Consensus pattern (943 bp):
TATTTCACATTCTATTTTCATTTCACTATTTCACTTCGATTTCTCATACCATTCCATTTCAATAT
CAATCATAAAACTTTATTATTCATTTACCCTTATTAACACGACTCGGAGTCGGACGGATACACGG
ATCCAACCAAAACACACCAGTTTGGCACCAAGTGCCTTAGTGGATAATTCGAAGTAATAAATTGA
CACCCAGTATCTCATCGGCTAAACCGAAGTAAATTGGAACCCATTGCCACATCGAATTAATCCGA
AGTAGTAAATTGACTCCCAGTGTATCATCGACTCGAAGTCGAAGAAATCCCTGAACTCTTCCAAT
CCTATGGCATGCCATCTATATCTGACTCAGTCTGATATGGTTAATAGGGTTTAATTTCACAATTC
AAAAGAAATCAATATCCAATATCAATTTTTCATATAATCACATATACATATAAATTCAATTCAAT
ATCATAATGCCAAATACTCACCTCAATCACTTACCATAAACATTGAATCAAAATACAACTAATCA
AATCAACTATATCCCTCATCGACTTTATCTTTCCCCCTTTTTCACTTAAATTCCTAAATTTTGAA
TTTTTCACAATTTAGTCCATATTACTCAAAATTTACAATTTATTCTACAATTCAATCCTTTTTCA
TTTCTAACTTAAAAATCCCTAAAACTAAAATTATTCAACATAGACAAAACTTAAAAACTCAATAA
TTTCTAAATTTTTAACATGGGTCGGGTAGTATTAACACCGAGATTCCAAAAACATAAAAATTACA
AGAAAAAGGGACTAAATTGACTAACCAATTGAACTTGAAAAATTGAAACCCCCAAGGCCGTGGCT
TTCTTTCTTCTTTCTCTGTTTCTTTCTTTTTTTTCTTTCTCTTTCTTTCTGTTTCGTTTTGGTTT
TCTATTCCTTTTTCTTTTATTTATTTGTTTTAT
Found at i:33360041 original size:14 final size:14
Alignment explanation
Indices: 33360022--33360048 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33360012 CATTTCTTGG
33360022 TCGGTTCAGTTCAC
1 TCGGTTCAGTTCAC
33360036 TCGGTTCAGTTCA
1 TCGGTTCAGTTCA
33360049 ACTGGACCAC
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:0.15, C:0.26, G:0.22, T:0.37
Consensus pattern (14 bp):
TCGGTTCAGTTCAC
Found at i:33360377 original size:17 final size:18
Alignment explanation
Indices: 33360339--33360377 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33360329 TGTGCACTTT
*
33360339 AATTATTTTTTAAAATAT
1 AATTATTTTTTAAAATAG
*
33360357 AATTATTTTTTGAAA-AG
1 AATTATTTTTTAAAATAG
33360374 AATT
1 AATT
33360378 TTATCGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTATTTTTTAAAATAG
Found at i:33365426 original size:84 final size:85
Alignment explanation
Indices: 33365282--33365459 Score: 349
Period size: 84 Copynumber: 2.1 Consensus size: 85
33365272 GGCCGGCCAT
33365282 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33365347 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33365367 GAGCATGGGTGGACAAGATGTTATGGCT-AAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33365431 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33365451 GAGCATGGG
1 GAGCATGGG
33365460 CAATAAAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 65 0.70
85 28 0.30
ACGTcount: A:0.38, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:33366715 original size:40 final size:39
Alignment explanation
Indices: 33366625--33366809 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
33366615 TCGAATGATG
* * * *
33366625 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* *
33366665 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
33366705 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
33366744 TCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33366785 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
33366810 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.28
40 78 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33366760 original size:79 final size:80
Alignment explanation
Indices: 33366626--33366842 Score: 246
Period size: 79 Copynumber: 2.7 Consensus size: 80
33366616 CGAATGATGT
* * * ** *
33366626 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGTTCCGAAGGCATTT
*
33366690 GTGCGAGTTACTA-ATT
65 GTGCGAGTTACTATA-A
* * *
33366706 TCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGCATTTG
33366770 TGCGAGTTACTATAA
66 TGCGAGTTACTATAA
* ** *
33366785 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGTTCCGAAGG
33366843 TACGTGATTC
Statistics
Matches: 116, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
79 76 0.66
80 40 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTTCCGAAGGCATTTG
TGCGAGTTACTATAA
Found at i:33372055 original size:85 final size:85
Alignment explanation
Indices: 33371912--33372090 Score: 358
Period size: 85 Copynumber: 2.1 Consensus size: 85
33371902 GGCCGGCCAT
33371912 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33371977 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33371997 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
33372062 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
33372082 GAGCATGGG
1 GAGCATGGG
33372091 AAATAAAATA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 94 1.00
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:33373391 original size:79 final size:81
Alignment explanation
Indices: 33373255--33373437 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
33373245 TCGAATGATG
* *
33373255 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
33373319 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
33373334 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
33373396 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
33373414 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33373438 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:33373453 original size:40 final size:40
Alignment explanation
Indices: 33373256--33373439 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
33373246 CGAATGATGT
* * * *
33373256 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
33373296 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
33373336 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33373374 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
33373415 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
33373440 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:33373461 original size:79 final size:79
Alignment explanation
Indices: 33373308--33373472 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
33373298 GGACTAAGAT
* **
33373308 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
33373373 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
33373387 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
33373450 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33373466 CCGAAGG
1 CCGAAGG
33373473 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33374843 original size:14 final size:14
Alignment explanation
Indices: 33374824--33374853 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
33374814 GGGGTGTTAC
33374824 ACCTTGGCTGCAGT
1 ACCTTGGCTGCAGT
33374838 ACCTTGGCTGCAGT
1 ACCTTGGCTGCAGT
33374852 AC
1 AC
33374854 GTGTACCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.30, G:0.27, T:0.27
Consensus pattern (14 bp):
ACCTTGGCTGCAGT
Found at i:33375445 original size:18 final size:18
Alignment explanation
Indices: 33375422--33375456 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
33375412 AGTTAAACCG
33375422 AATCGAGTTATTCGAATT
1 AATCGAGTTATTCGAATT
33375440 AATCGAGTTATTCGAAT
1 AATCGAGTTATTCGAAT
33375457 CAACTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
AATCGAGTTATTCGAATT
Found at i:33375528 original size:18 final size:18
Alignment explanation
Indices: 33375507--33375543 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
33375497 TGAGTTTTCG
33375507 AATTCAAATAACTCGAAT
1 AATTCAAATAACTCGAAT
*
33375525 AATTCAAATAATTCGAAT
1 AATTCAAATAACTCGAAT
33375543 A
1 A
33375544 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (18 bp):
AATTCAAATAACTCGAAT
Found at i:33375793 original size:30 final size:31
Alignment explanation
Indices: 33375757--33375816 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
33375747 AAACCTTTTA
*
33375757 TTTTCCCCTAAAATTTTTACTCTC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCTCTTCCCAC
* *
33375787 TTTTCCCCTAGAACTTTTATTCTCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCTCTTCCCA
33375817 TTCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.18, C:0.35, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCTCTTCCCAC
Found at i:33380973 original size:19 final size:19
Alignment explanation
Indices: 33380949--33380987 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33380939 AGAATTTTGG
33380949 AATGGAAAAGAAGAG-AGAA
1 AATGG-AAAGAAGAGAAGAA
*
33380968 AATGGAGAGAAGAGAAGAA
1 AATGGAAAGAAGAGAAGAA
33380987 A
1 A
33380988 GATGTAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.33, T:0.05
Consensus pattern (19 bp):
AATGGAAAGAAGAGAAGAA
Found at i:33387284 original size:23 final size:23
Alignment explanation
Indices: 33387249--33387292 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
33387239 AACTCACCAC
33387249 AGCTCGTATGAGCTTACTGTTTT
1 AGCTCGTATGAGCTTACTGTTTT
*
33387272 AGCTCG-ATAGAGCTTATTGTT
1 AGCTCGTAT-GAGCTTACTGTT
33387293 CTTCATCTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACTGTTTT
Found at i:33388919 original size:18 final size:16
Alignment explanation
Indices: 33388878--33388922 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
33388868 TGTTTGATAT
33388878 TGAAATGGTAAAGGAGG
1 TGAAATGG-AAAGGAGG
*
33388895 AGAAATGGAAAGGAGATG
1 TGAAATGGAAAGGAG--G
33388913 TGAAATGGAA
1 TGAAATGGAA
33388923 TATGAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 7 0.29
18 10 0.42
ACGTcount: A:0.47, C:0.00, G:0.38, T:0.16
Consensus pattern (16 bp):
TGAAATGGAAAGGAGG
Found at i:33392009 original size:24 final size:24
Alignment explanation
Indices: 33391956--33392009 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
33391946 TTCGTAGGTC
* *
33391956 AAATAAATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATACT
33391980 AAATATATTATGCTAATAAATACT
1 AAATATATTATGCTAATAAATACT
33392004 AAATAT
1 AAATAT
33392010 TTTAGAAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATACT
Found at i:33393415 original size:43 final size:42
Alignment explanation
Indices: 33393352--33393542 Score: 177
Period size: 43 Copynumber: 4.5 Consensus size: 42
33393342 AAGCGCCGCT
33393352 AAAGACGCTGACCTTTAGCGGCGCTTCTCCCACAAACG-TCGCG
1 AAAGAC-CTGACCTTTAGCGGCGCTTCTCCCACAAACGCT-GCG
* * * *
33393395 ATAGACTCTGACCTTCAGCGGCGCTTTTCCCACAAACGCTGCT
1 AAAGAC-CTGACCTTTAGCGGCGCTTCTCCCACAAACGCTGCG
* * *
33393438 AAAGACCACGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCT
1 AAAGACC-TGACCTTTAGCGGCGCTTCTCCCACAAACGCTGCG
* * * ** * *
33393481 AAAGACCACGACCTTTAGTGGCGCTTTTATCACAAACGCCGCT
1 AAAGACC-TGACCTTTAGCGGCGCTTCTCCCACAAACGCTGCG
* **
33393524 AAAGAACAAACCTTTAGCG
1 AAAGACCTGACCTTTAGCG
33393543 CTAGCAAAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 10 0.08
43 117 0.91
44 1 0.01
ACGTcount: A:0.27, C:0.34, G:0.19, T:0.20
Consensus pattern (42 bp):
AAAGACCTGACCTTTAGCGGCGCTTCTCCCACAAACGCTGCG
Found at i:33393494 original size:86 final size:85
Alignment explanation
Indices: 33393345--33393542 Score: 245
Period size: 86 Copynumber: 2.3 Consensus size: 85
33393335 TTTGGAAAAG
* * * * *
33393345 CGCCGCTAAAGACGCTGACCTTTAGCGGCGCTTCTCCCACAAACGTCGCGATAGACTCTGACCTT
1 CGCCGCTAAAGA-ACAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCGAAAGACTCCGACCTT
*
33393410 CAGCGGCGCTTTTCCCACAAA
65 CAGCGGCGCTTTTACCACAAA
* * *
33393431 CGCTGCTAAAGACCACGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGAC-CACGACCT
1 CGCCGCTAAAGAACA-GACCTTTAGCGGCGCTTCTCCCACAAACGCCGCGAAAGACTC-CGACCT
* * *
33393495 TTAGTGGCGCTTTTATCACAAA
64 TCAGCGGCGCTTTTACCACAAA
*
33393517 CGCCGCTAAAGAACAAACCTTTAGCG
1 CGCCGCTAAAGAACAGACCTTTAGCG
33393543 CTAGCAAAAA
Statistics
Matches: 96, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
85 12 0.12
86 84 0.88
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (85 bp):
CGCCGCTAAAGAACAGACCTTTAGCGGCGCTTCTCCCACAAACGCCGCGAAAGACTCCGACCTTC
AGCGGCGCTTTTACCACAAA
Found at i:33394324 original size:23 final size:23
Alignment explanation
Indices: 33394274--33394325 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
33394264 GTTAGGTGTC
* *
33394274 AGTATAAAGACATGTCAGATATG
1 AGTATGAAGACATGTCAGACATG
* * *
33394297 GGTATGAAGGCATGTCTGACATG
1 AGTATGAAGACATGTCAGACATG
33394320 AGTATG
1 AGTATG
33394326 TTCAATTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.27
Consensus pattern (23 bp):
AGTATGAAGACATGTCAGACATG
Found at i:33396503 original size:31 final size:31
Alignment explanation
Indices: 33396468--33396529 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
33396458 GAATAAAAGC
*
33396468 ACCTGGGTTAAAAACAAACACAGACGAGACT
1 ACCTGGGTTAAAAACAAACACAAACGAGACT
33396499 ACCTGGGTTAAAAACAAACACAAACGAGACT
1 ACCTGGGTTAAAAACAAACACAAACGAGACT
33396530 CTATCACATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.23, G:0.18, T:0.13
Consensus pattern (31 bp):
ACCTGGGTTAAAAACAAACACAAACGAGACT
Found at i:33398881 original size:28 final size:28
Alignment explanation
Indices: 33398850--33398912 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
33398840 TTAAATCACT
*
33398850 AACTCTTAACCCCTAACCCCTAACCCTA
1 AACTCTTAACCCCTAACCACTAACCCTA
** * *
33398878 AACTCCAAACCCTTAACTACTAACCCTA
1 AACTCTTAACCCCTAACCACTAACCCTA
33398906 AAC-CTTA
1 AACTCTTA
33398913 TTTAATATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
27 2 0.07
28 26 0.93
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (28 bp):
AACTCTTAACCCCTAACCACTAACCCTA
Found at i:33399482 original size:41 final size:40
Alignment explanation
Indices: 33399420--33399610 Score: 251
Period size: 41 Copynumber: 4.7 Consensus size: 40
33399410 AAATGTTTTT
* *
33399420 GCGGCGCTTTCCAAAAACGCCGCTAAAGTCCTAAGCATTA
1 GCGGCGCTTTTCAAAAACGCCGCTAAAGTCCTGAGCATTA
** *
33399460 GCGGCGCTTATTGGAAAACGCCGCTAAAGCCCTGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGTCCTGAGCATTA
33399501 GCGGCGCTTTTTCAAAAACGCCGCTAAAAG-CCTGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCT-AAAGTCCTGAGCATTA
* *
33399542 GCGGAGCTTTTCCAAAAACGCCGCTAAAGCTCC-GACCATTA
1 GCGGCGCTTTT-CAAAAACGCCGCTAAAG-TCCTGAGCATTA
33399583 GCGGCGCTTTCTCAAAAACGCCGCTAAA
1 GCGGCGCTTT-TCAAAAACGCCGCTAAA
33399611 AGCCCCGAAA
Statistics
Matches: 134, Mismatches: 10, Indels: 13
0.85 0.06 0.08
Matches are distributed among these distances:
40 17 0.13
41 108 0.81
42 9 0.07
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGTCCTGAGCATTA
Found at i:33400574 original size:24 final size:24
Alignment explanation
Indices: 33400546--33400597 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
33400536 TTTGTAGGTC
*
33400546 AAATAGATTAT-GCTAATAAATGCT
1 AAATAGATTATAG-TAATAAATACT
*
33400570 AAATATATTATAGTAATAAATACT
1 AAATAGATTATAGTAATAAATACT
33400594 AAAT
1 AAAT
33400598 CTTCTTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (24 bp):
AAATAGATTATAGTAATAAATACT
Found at i:33412759 original size:174 final size:174
Alignment explanation
Indices: 33412469--33412816 Score: 696
Period size: 174 Copynumber: 2.0 Consensus size: 174
33412459 CAATATCTAA
33412469 CAATGTCATTTTAGTACTAACTCTGCTTGTTTCAACACGTTAACCTTAATAAGTAGATTTAAACC
1 CAATGTCATTTTAGTACTAACTCTGCTTGTTTCAACACGTTAACCTTAATAAGTAGATTTAAACC
33412534 AAAAATCAATACCAAAATATGGGAACCCTACTTGCGCTTCAACTGGGGGTTCACCAAAAAACTTT
66 AAAAATCAATACCAAAATATGGGAACCCTACTTGCGCTTCAACTGGGGGTTCACCAAAAAACTTT
33412599 AACAGTTTACACTTTGATGTGCTCGCAACTTGAGTTGAGCTCGC
131 AACAGTTTACACTTTGATGTGCTCGCAACTTGAGTTGAGCTCGC
33412643 CAATGTCATTTTAGTACTAACTCTGCTTGTTTCAACACGTTAACCTTAATAAGTAGATTTAAACC
1 CAATGTCATTTTAGTACTAACTCTGCTTGTTTCAACACGTTAACCTTAATAAGTAGATTTAAACC
33412708 AAAAATCAATACCAAAATATGGGAACCCTACTTGCGCTTCAACTGGGGGTTCACCAAAAAACTTT
66 AAAAATCAATACCAAAATATGGGAACCCTACTTGCGCTTCAACTGGGGGTTCACCAAAAAACTTT
33412773 AACAGTTTACACTTTGATGTGCTCGCAACTTGAGTTGAGCTCGC
131 AACAGTTTACACTTTGATGTGCTCGCAACTTGAGTTGAGCTCGC
33412817 AACTTTGATA
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 174 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (174 bp):
CAATGTCATTTTAGTACTAACTCTGCTTGTTTCAACACGTTAACCTTAATAAGTAGATTTAAACC
AAAAATCAATACCAAAATATGGGAACCCTACTTGCGCTTCAACTGGGGGTTCACCAAAAAACTTT
AACAGTTTACACTTTGATGTGCTCGCAACTTGAGTTGAGCTCGC
Found at i:33412831 original size:16 final size:17
Alignment explanation
Indices: 33412783--33412884 Score: 75
Period size: 18 Copynumber: 5.8 Consensus size: 17
33412773 AACAGTTTAC
*
33412783 ACTTTGATGTGCTCGCA
1 ACTTTGATGAGCTCGCA
33412800 AC-TTGAGTTGAGCTCGCA
1 ACTTTGA--TGAGCTCGCA
*
33412818 ACTTTGAT-AGCTCGCG
1 ACTTTGATGAGCTCGCA
*
33412834 TCTTTG-TGCGAGCTCGCA
1 ACTTTGAT--GAGCTCGCA
* * *
33412852 GCTTTCAATGAGCTCACA
1 ACTTT-GATGAGCTCGCA
33412870 ACTTTGATAGAGCTC
1 ACTTTGAT-GAGCTC
33412885 ACAGTTTTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
15 1 0.01
16 16 0.24
17 5 0.07
18 40 0.60
19 4 0.06
20 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.31
Consensus pattern (17 bp):
ACTTTGATGAGCTCGCA
Found at i:33412874 original size:18 final size:18
Alignment explanation
Indices: 33412843--33412905 Score: 56
Period size: 18 Copynumber: 3.5 Consensus size: 18
33412833 GTCTTTGTGC
* *
33412843 GAGCTCGCAGCTTTCAAT-
1 GAGCTCACAACTTT-AATA
*
33412861 GAGCTCACAACTTTGATA
1 GAGCTCACAACTTTAATA
** *
33412879 GAGCTCACAGTTTTAAGA
1 GAGCTCACAACTTTAATA
33412897 GAGCTCACA
1 GAGCTCACA
33412906 TTCACATTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
17 2 0.05
18 35 0.95
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (18 bp):
GAGCTCACAACTTTAATA
Found at i:33419911 original size:21 final size:20
Alignment explanation
Indices: 33419882--33419927 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33419872 CGAAATGCAA
33419882 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
33419903 TCAAGCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
33419923 T-AACC
1 TCAACC
33419928 ATTCAAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.30
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:33420193 original size:18 final size:19
Alignment explanation
Indices: 33420167--33420203 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
33420157 AATTTTGGAA
33420167 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
33420185 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
33420204 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:33424363 original size:30 final size:30
Alignment explanation
Indices: 33424306--33424367 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
33424296 GCTTTTTGAA
* *
33424306 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
33424336 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
33424366 AA
1 AA
33424368 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:33431491 original size:40 final size:40
Alignment explanation
Indices: 33431436--33431662 Score: 418
Period size: 40 Copynumber: 5.7 Consensus size: 40
33431426 AGCATTGGAT
33431436 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33431476 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33431516 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33431556 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33431596 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33431636 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
33431663 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:33439548 original size:40 final size:40
Alignment explanation
Indices: 33439493--33439719 Score: 418
Period size: 40 Copynumber: 5.7 Consensus size: 40
33439483 AGCATTGGAT
33439493 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33439533 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33439573 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33439613 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
33439653 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
33439693 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
33439720 ATGTGTTTGC
Statistics
Matches: 181, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:33442888 original size:21 final size:20
Alignment explanation
Indices: 33442859--33442904 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33442849 CGAAATGCAA
33442859 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
33442880 TCAATCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
33442900 T-AACC
1 TCAACC
33442905 ATTCCAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:33443310 original size:21 final size:20
Alignment explanation
Indices: 33443281--33443326 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
33443271 CGGAATGCAA
33443281 TCAACCTAACA-TGAATTAAAT
1 TCAACCTAA-ATTG-ATTAAAT
*
33443302 TCAATCTAAATTGATTAAAT
1 TCAACCTAAATTGATTAAAT
33443322 T-AACC
1 TCAACC
33443327 ATTCCAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.14
20 9 0.41
21 10 0.45
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAACCTAAATTGATTAAAT
Found at i:33443490 original size:422 final size:422
Alignment explanation
Indices: 33442706--33443549 Score: 1580
Period size: 422 Copynumber: 2.0 Consensus size: 422
33442696 GTCCATTAAT
*
33442706 TACAATTTCAATCTATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
1 TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
*
33442771 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAATATAAACACAATTTTAA
66 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
33442836 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
131 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
* *
33442901 AACCATTCCAGCAACATAAATATTCATATATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
196 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
*
33442966 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCGTTCTTCCTTCTC
261 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTC
33443031 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
326 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
33443096 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
391 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
*
33443128 TACAATTTCAATCCGTTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
1 TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
*
33443193 TTAGTCATGATTTTACTTAATCAAGCATCTTATTGAGGCCTATAACAACATAAACACAATTTTAA
66 TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
*
33443258 TAACTTTAACAAACGGAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
131 TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
33443323 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
196 AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
* *
33443388 TAGGGAACAAGAATCAAATCCGGTGTTATTCCGTGGCTTGACTAGTTGCTTCATTCTTCCTTCTC
261 TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTC
* *
33443453 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGGTGCTCCAAATATCTGATGAATGC
326 TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
33443518 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
391 CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
33443550 CAAGGGAATT
Statistics
Matches: 410, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
422 410 1.00
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.31
Consensus pattern (422 bp):
TACAATTTCAATCCATTTAAATAATTAATTCGTTAGTTACCTAACAATTGTAATGCAAAAATAAC
TTAGTCATGATTTTACTTAATCAAGCATCTTATCGAGGCCTATAACAACATAAACACAATTTTAA
TAACTTTAACAAACGAAATGCAATCAACCTAACATGAATTAAATTCAATCTAAATTGATTAAATT
AACCATTCCAACAACATAAATATTCATAGATATGTTCAGCATAACATCAACAAAAATTAAAGAGA
TAGGGAACAAGAATCAAATCCAGTGTTATTCCGTGGCTTGACTAGTTGCTCCATTCTTCCTTCTC
TATTTTCGTCATCGACCAAGGCTACTATGAACACTTAATTGCTGCTCCAAATATCTAATGAATGC
CCCTTTCCCAAGAGGAGAAATCAACAAAAGAG
Found at i:33447132 original size:13 final size:12
Alignment explanation
Indices: 33447102--33447144 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
33447092 AATTTTTTTA
*
33447102 TTTTTT-AAATT
1 TTTTTTCAAAAT
33447113 TTCTTTTCAAAAGT
1 TT-TTTTCAAAA-T
33447127 TTTTTTCAAAAT
1 TTTTTTCAAAAT
33447139 TTTTTT
1 TTTTTT
33447145 AAATAACATG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
11 2 0.07
12 11 0.39
13 12 0.43
14 3 0.11
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTTTTCAAAAT
Found at i:33451530 original size:27 final size:27
Alignment explanation
Indices: 33451500--33451819 Score: 339
Period size: 27 Copynumber: 11.9 Consensus size: 27
33451490 GGTAGAAAAG
*
33451500 TCATTTTACTCTATAGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
33451527 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
33451554 TCATTTTACCCTATAGGGTTAATTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
*
33451581 TCATTTTACCCTATTGGGGTATTTCGA
1 TCATTTTACCCTATAGGGGTATTTCGA
* * *
33451608 TCATTTTATCCTAT-GAGGGTATATCGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
* *
33451635 TCATTTTACCCTATAGGGGTATTTTGG
1 TCATTTTACCCTATAGGGGTATTTCGA
* *
33451662 TCATTTTACCCTAT-GAGGGTATTTAGG
1 TCATTTTACCCTATAG-GGGTATTTCGA
**
33451689 TCATTTTACCCTAT-GAGGGTATTTTAA
1 TCATTTTACCCTATAG-GGGTATTTCGA
* * *
33451716 TCATTCTACCATAT-GGAGGTATTTCGG
1 TCATTTTACCCTATAGG-GGTATTTCGA
* *
33451743 TCATTTTGCCCT-T-GCAGGTATTTCTG-
1 TCATTTTACCCTATAG-GGGTATTTC-GA
* *
33451769 TCATTCTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATAGGGGTATTTCGA
*
33451796 TCATTTTACCCTATAGAGGTATTT
1 TCATTTTACCCTATAGGGGTATTT
33451820 TGGTCATAAC
Statistics
Matches: 252, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
26 24 0.10
27 226 0.90
28 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATAGGGGTATTTCGA
Found at i:33453469 original size:89 final size:88
Alignment explanation
Indices: 33453298--33453472 Score: 255
Period size: 89 Copynumber: 2.0 Consensus size: 88
33453288 TTATTTATTT
33453298 AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
1 AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
*
33453363 TACTACAATGATCCTAGTTATCG
66 TACTACAACGATCCTAGTTATCG
* ** *
33453386 AGATCAAGATAAACCACAATC-AGACTTAATTCAAGGAAAAGTTAAAGCTTCGGATTAGTTCGAC
1 AGATCAAGATAAACCACAATCGA-ACTTAA-TAAAGGAAAAACTAAAGCTTAGGATTAGTTCGAC
*
33453450 TCTACTACTACGA-CACTAGTTAT
64 TCTACTACAACGATC-CTAGTTAT
33453473 TGAGGTAAGT
Statistics
Matches: 78, Mismatches: 6, Indels: 5
0.88 0.07 0.06
Matches are distributed among these distances:
87 1 0.01
88 28 0.36
89 49 0.63
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (88 bp):
AGATCAAGATAAACCACAATCGAACTTAATAAAGGAAAAACTAAAGCTTAGGATTAGTTCGACTC
TACTACAACGATCCTAGTTATCG
Found at i:33457908 original size:31 final size:31
Alignment explanation
Indices: 33457873--33457936 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
33457863 GACCTCAAAA
* * *
33457873 TAGGTAATATAACTGAAATACCCCCATAGGG
1 TAGGTAAAATAACTAAAATACCCCCATAAGG
*
33457904 TAGGTAAAATGACTAAAATACCCCCATAAGG
1 TAGGTAAAATAACTAAAATACCCCCATAAGG
33457935 TA
1 TA
33457937 AAATGATCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (31 bp):
TAGGTAAAATAACTAAAATACCCCCATAAGG
Found at i:33458010 original size:81 final size:81
Alignment explanation
Indices: 33457906--33458105 Score: 305
Period size: 81 Copynumber: 2.5 Consensus size: 81
33457896 CCATAGGGTA
* *
33457906 GGTAAAATGACTAAAATACCCCCATAAGGTAAAATGATCGAAATA-CCCTCATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCCATAAGGTAAAATGACCGAAATACCCCT-ATAGGGTAAAATGA
33457970 CAGAAATACCCCTATAG
65 CAGAAATACCCCTATAG
33457987 GGTAAAATGACCAAAATACCCCCAT-AGGATAAAATGACCGAAATACCCCTATAGGGTAAAATGA
1 GGTAAAATGACCAAAATACCCCCATAAGG-TAAAATGACCGAAATACCCCTATAGGGTAAAATGA
* *
33458051 CTGAAATACCCTTATAG
65 CAGAAATACCCCTATAG
* * *
33458068 GGTAAAATGATCGAAATACCCCTATAAGGTAAAATGAC
1 GGTAAAATGACCAAAATACCCCCATAAGGTAAAATGAC
33458106 TGTTATACCC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
80 3 0.03
81 99 0.91
82 7 0.06
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.20
Consensus pattern (81 bp):
GGTAAAATGACCAAAATACCCCCATAAGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
AGAAATACCCCTATAG
Found at i:33458113 original size:27 final size:27
Alignment explanation
Indices: 33457905--33458118 Score: 238
Period size: 27 Copynumber: 7.9 Consensus size: 27
33457895 CCCATAGGGT
* *
33457905 AGGTAAAATGACTAAAATACCCCCATA
1 AGGTAAAATGACTGAAATACCCCTATA
33457932 AGGTAAAATGA-TCGAAATA-CCCTCATA
1 AGGTAAAATGACT-GAAATACCCCT-ATA
* *
33457959 GGGTAAAATGACAGAAATACCCCTATA
1 AGGTAAAATGACTGAAATACCCCTATA
* ** *
33457986 GGGTAAAATGACCAAAATACCCCCAT-
1 AGGTAAAATGACTGAAATACCCCTATA
*
33458012 AGGATAAAATGACCGAAATACCCCTATA
1 AGG-TAAAATGACTGAAATACCCCTATA
* *
33458040 GGGTAAAATGACTGAAATACCCTTATA
1 AGGTAAAATGACTGAAATACCCCTATA
*
33458067 GGGTAAAATGA-TCGAAATACCCCTATA
1 AGGTAAAATGACT-GAAATACCCCTATA
**
33458094 AGGTAAAATGACTGTTATACCCCTA
1 AGGTAAAATGACTGAAATACCCCTA
33458119 GGAGATGAAA
Statistics
Matches: 162, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
26 7 0.04
27 148 0.91
28 7 0.04
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACTGAAATACCCCTATA
Found at i:33458115 original size:54 final size:54
Alignment explanation
Indices: 33457874--33458107 Score: 276
Period size: 54 Copynumber: 4.3 Consensus size: 54
33457864 ACCTCAAAAT
* * * *
33457874 AGGTAATATAACTGAAATACCCCCATAGGGTAGGTAAAATGACTA-AAATACCCCCATA
1 AGGTAAAATGACTGAAATACCCTCATA--G--GGTAAAATGAC-AGAAATACCCCTATA
33457932 AGGTAAAATGA-TCGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
1 AGGTAAAATGACT-GAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
* ** * * *
33457986 GGGTAAAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCCTATA
1 AGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
* *
33458040 GGGTAAAATGACTGAAATACCCTTATAGGGTAAAATGATC-GAAATACCCCTATA
1 AGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGA-CAGAAATACCCCTATA
33458094 AGGTAAAATGACTG
1 AGGTAAAATGACTG
33458108 TTATACCCCT
Statistics
Matches: 156, Mismatches: 16, Indels: 12
0.85 0.09 0.07
Matches are distributed among these distances:
53 1 0.01
54 130 0.83
55 1 0.01
56 1 0.01
57 1 0.01
58 22 0.14
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (54 bp):
AGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATA
Found at i:33461655 original size:30 final size:30
Alignment explanation
Indices: 33461587--33461672 Score: 93
Period size: 31 Copynumber: 2.9 Consensus size: 30
33461577 GATTAAATCA
*
33461587 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * *
33461617 ACAATTAAAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
* *
33461648 AAATTAAAG-TTCATGCATACAATTG
1 AAATTAAAGTTTCAAGTATACAATTG
33461673 CACATTAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 12 0.26
30 9 0.20
31 25 0.54
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:33462728 original size:19 final size:19
Alignment explanation
Indices: 33462704--33462744 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
33462694 AACACGTGTG
*
33462704 ATAATTTTTCAATTTTGTA
1 ATAATTTATCAATTTTGTA
*
33462723 ATAATTTATCAGTTTTGTA
1 ATAATTTATCAATTTTGTA
33462742 ATA
1 ATA
33462745 TATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (19 bp):
ATAATTTATCAATTTTGTA
Found at i:33478255 original size:12 final size:12
Alignment explanation
Indices: 33478238--33478262 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33478228 ATTGTAAGGT
33478238 GGTAGCCTATGC
1 GGTAGCCTATGC
33478250 GGTAGCCTATGC
1 GGTAGCCTATGC
33478262 G
1 G
33478263 TCTCATCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTAGCCTATGC
Found at i:33506410 original size:6 final size:6
Alignment explanation
Indices: 33506387--33506430 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
33506377 ATTTACAATG
* *
33506387 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
33506431 ATGGCTAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:33506415 original size:20 final size:19
Alignment explanation
Indices: 33506388--33506432 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
33506378 TTTACAATGT
*
33506388 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
33506407 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
33506427 AAAAAT
1 AAAAAT
33506433 GGCTAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:33507886 original size:29 final size:30
Alignment explanation
Indices: 33507841--33507905 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 30
33507831 CCAGCCTAAA
*
33507841 TATATTATGTTATAAAAATATTATAT-TAAT
1 TATA-TATGTTAAAAAAATATTATATATAAT
* *
33507871 TATATATGTTAAAAAATTATTATATATATT
1 TATATATGTTAAAAAAATATTATATATAAT
33507901 TATAT
1 TATAT
33507906 TAAATCGCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 19 0.61
30 12 0.39
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (30 bp):
TATATATGTTAAAAAAATATTATATATAAT
Found at i:33508915 original size:31 final size:31
Alignment explanation
Indices: 33508879--33508937 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
33508869 ATTTAACAGA
*
33508879 GAGTGACCAAAATAGAAACAATCTAAAATGT
1 GAGTGACAAAAATAGAAACAATCTAAAATGT
**
33508910 GAGTGACAAAAATAGAAATTATCTAAAA
1 GAGTGACAAAAATAGAAACAATCTAAAA
33508938 CACCAGTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.20
Consensus pattern (31 bp):
GAGTGACAAAAATAGAAACAATCTAAAATGT
Found at i:33517926 original size:16 final size:16
Alignment explanation
Indices: 33517905--33517935 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33517895 CCTTTCAATT
*
33517905 TTTTTTCTCGTTTTTA
1 TTTTTTCTCATTTTTA
33517921 TTTTTTCTCATTTTT
1 TTTTTTCTCATTTTT
33517936 CTAATTTCAA
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:0.06, C:0.13, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTCTCATTTTTA
Found at i:33518125 original size:34 final size:35
Alignment explanation
Indices: 33518073--33518140 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
33518063 CACTCCATTA
*
33518073 TGAAGTTAGCCATTGTCGACGTCCCTCAGGCCAAT
1 TGAAGTTAGCCATCGTCGACGTCCCTCAGGCCAAT
*
33518108 TGAA-TTAGCCATCGTCGACGTCCCTCGGGCCAA
1 TGAAGTTAGCCATCGTCGACGTCCCTCAGGCCAA
33518141 CTGGCAGCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 27 0.87
35 4 0.13
ACGTcount: A:0.22, C:0.31, G:0.24, T:0.24
Consensus pattern (35 bp):
TGAAGTTAGCCATCGTCGACGTCCCTCAGGCCAAT
Found at i:33520478 original size:64 final size:64
Alignment explanation
Indices: 33520356--33520483 Score: 166
Period size: 64 Copynumber: 2.0 Consensus size: 64
33520346 ACAAATAGCC
* * * * ** * * *
33520356 TATATCAGGACGCTCATAAAGAGTTGTGGTATGTCCGCATTATATACAGGATCCATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
*
33520420 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATGCAAGATCAATACCGATCA
1 TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
33520484 GGATGCTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (64 bp):
TATAACAGGACGCTCACAAAGAGCTGTGGTATATCCGCAACACATACAAGATCAATACCGATCA
Found at i:33525240 original size:50 final size:50
Alignment explanation
Indices: 33525161--33525382 Score: 189
Period size: 50 Copynumber: 4.3 Consensus size: 50
33525151 TATCCCAAAT
* * ** * * *
33525161 ATGGTCTTGCATGGGAGTTCTCATATCGGTGCCCATGCCATCTCCTAGAC
1 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGAC
* * * *
33525211 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCGTGTCCCAAAC
1 ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGAC
*
33525261 ATGGTCTTACATGGGG-CCTCTCATCTCGGTGCCAACT-CCATGT-CTCAGAG
1 ATGGTCTTACA-GGGGACCTCTCATCTCGGTGCCAA-TGCCATGTCCT-AGAC
* * * *
33525311 ATGGTCTTACATGGGACATCTCATAATCTCAATGATGCCAATGCCATGTCCCAGAC
1 ATGGTCTTACAGGGGAC--CTC-TCATCTC---GGTGCCAATGCCATGTCCTAGAC
*
33525367 ATGGTCTTACATGGGA
1 ATGGTCTTACAGGGGA
33525383 TCTATTTACC
Statistics
Matches: 139, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
49 4 0.03
50 88 0.63
51 4 0.03
52 3 0.02
53 6 0.04
55 1 0.01
56 32 0.23
57 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
ATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCTAGAC
Found at i:33525267 original size:100 final size:100
Alignment explanation
Indices: 33525153--33525381 Score: 239
Period size: 100 Copynumber: 2.2 Consensus size: 100
33525143 CAATGTCATA
* * * *
33525153 TCCCAAATATGGTCTTGCATGGGAG-TTCTCATATCGGTGCCCA-TGCCATCTC-CTAGACATGG
1 TCCCAAACATGGTCTTACATGGG-GCCTCTCATATCGGTGCCAACT-CCATCTCTC-AGACATGG
*
33525215 TCTTACAGGGGACCTCTCATCTCGGTGCCAACGCCGTG
63 TCTTACAGGGGACATCTCATCTCGGTGCCAACGCCGTG
* * *
33525253 TCCCAAACATGGTCTTACATGGGGCCTCTCATCTCGGTGCCAACTCCATGTCTCAGAGATGGTCT
1 TCCCAAACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACTCCATCTCTCAGACATGGTCT
* * * *
33525318 TACATGGGACATCTCATAATCTCAATGATGCCAATGCCATG
66 TACAGGGGACATCTC---ATCTC---GGTGCCAACGCCGTG
*
33525359 TCCCAGACATGGTCTTACATGGG
1 TCCCAAACATGGTCTTACATGGG
33525382 ATCTATTTAC
Statistics
Matches: 107, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
99 1 0.01
100 65 0.61
101 2 0.02
103 5 0.05
106 34 0.32
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (100 bp):
TCCCAAACATGGTCTTACATGGGGCCTCTCATATCGGTGCCAACTCCATCTCTCAGACATGGTCT
TACAGGGGACATCTCATCTCGGTGCCAACGCCGTG
Found at i:33528795 original size:50 final size:49
Alignment explanation
Indices: 33528715--33528831 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 49
33528705 AGATCCCATA
* * * *
33528715 TAAGACCATTTCTGGGACATGGCGTTGGCACCAAGATGAGAGGC-CCCCCG
1 TAAGACCATTT-TGGGACATGGCATGGGCACCAAGATGAGA-ACTCCCACG
* * *
33528765 TAAGACCATGTTTGGGACATGGCATGGGCACCTATATGAGAACTCCCATG
1 TAAGACCAT-TTTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
33528815 TAAGACCATATTTGGGA
1 TAAGACCAT-TTTGGGA
33528832 TATGACATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
49 1 0.02
50 54 0.95
51 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (49 bp):
TAAGACCATTTTGGGACATGGCATGGGCACCAAGATGAGAACTCCCACG
Found at i:33529451 original size:31 final size:31
Alignment explanation
Indices: 33529416--33529478 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
33529406 ATATGTAAAT
*
33529416 ATTTGATGATGAATAGTTATTAAAATGGCTA
1 ATTTGATGATGAATAGTTATTAAAATGACTA
33529447 ATTTGATGATGAATAGTTATTAAAATGACTA
1 ATTTGATGATGAATAGTTATTAAAATGACTA
33529478 A
1 A
33529479 GTATGAAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.38
Consensus pattern (31 bp):
ATTTGATGATGAATAGTTATTAAAATGACTA
Found at i:33532203 original size:26 final size:28
Alignment explanation
Indices: 33532139--33532195 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
33532129 AATAAACACC
*
33532139 AAAAAAATATTTTAAAAATAAAAAACAT
1 AAAAAAGTATTTTAAAAATAAAAAACAT
33532167 AAAAAAGTATTTT-AAAATAAAAAA-AT
1 AAAAAAGTATTTTAAAAATAAAAAACAT
33532193 AAA
1 AAA
33532196 TATTTATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
26 5 0.18
27 11 0.39
28 12 0.43
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (28 bp):
AAAAAAGTATTTTAAAAATAAAAAACAT
Found at i:33536807 original size:12 final size:12
Alignment explanation
Indices: 33536790--33536814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33536780 TAATTTTTTG
33536790 TGATTAGTTGGT
1 TGATTAGTTGGT
33536802 TGATTAGTTGGT
1 TGATTAGTTGGT
33536814 T
1 T
33536815 AGACTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.32, T:0.52
Consensus pattern (12 bp):
TGATTAGTTGGT
Found at i:33544759 original size:15 final size:15
Alignment explanation
Indices: 33544739--33544770 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
33544729 GCTATTAAAT
33544739 AAAAATAAAAATTTA
1 AAAAATAAAAATTTA
33544754 AAAAATAAAAATTTA
1 AAAAATAAAAATTTA
33544769 AA
1 AA
33544771 TTTAAATAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAAATAAAAATTTA
Found at i:33544761 original size:21 final size:21
Alignment explanation
Indices: 33544735--33544776 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
33544725 ATGTGCTATT
33544735 AAATAAAAATAAAAATTTAAA
1 AAATAAAAATAAAAATTTAAA
**
33544756 AAATAAAAATTTAAATTTAAA
1 AAATAAAAATAAAAATTTAAA
33544777 TAGATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAAAATAAAAATTTAAA
Found at i:33549373 original size:89 final size:85
Alignment explanation
Indices: 33549195--33549397 Score: 228
Period size: 89 Copynumber: 2.3 Consensus size: 85
33549185 TTAAATGGTA
* *** * * *
33549195 GGAATAAATCCTGAAACAGATTTTATTCAATTTAATTTCTCGTTTTGGAAATAAAATAAAAAGGG
1 GGAATAAA-CCCGAAACAGATTTTATTCAATTTAAAAACTAGTTTTGGAAATAAAATAAAAACGA
*
33549260 AATAAAATTCGTTGAACAACG
65 AATAAAATTCATTGAACAACG
* *
33549281 GGAATAAACCCGAAACAGATTTTATTCTAATTTAAAAACTTATTTTTGGAAATAAAAATCAAAAT
1 GGAATAAACCCGAAACAGATTTTATTC-AATTTAAAAAC-TAGTTTTGGAAAT-AAAAT-AAAAA
**
33549346 CGAAATAAAA-TCTATTGAACAGTG
62 CGAAATAAAATTC-ATTGAACAACG
*
33549370 GGAATAAACCCGAAACAAATTTTATTCA
1 GGAATAAACCCGAAACAGATTTTATTCA
33549398 CCCTTTTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
85 18 0.18
86 16 0.16
87 11 0.11
88 8 0.08
89 46 0.46
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (85 bp):
GGAATAAACCCGAAACAGATTTTATTCAATTTAAAAACTAGTTTTGGAAATAAAATAAAAACGAA
ATAAAATTCATTGAACAACG
Found at i:33556021 original size:14 final size:12
Alignment explanation
Indices: 33555994--33556028 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 12
33555984 AATTTTTATT
33555994 TTTATTTTACAA
1 TTTATTTTACAA
33556006 TTTATTCTTACTAA
1 TTTATT-TTAC-AA
33556020 TTTATTTTA
1 TTTATTTTA
33556029 TTTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.29
13 7 0.33
14 8 0.38
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TTTATTTTACAA
Found at i:33560506 original size:9 final size:9
Alignment explanation
Indices: 33560492--33560563 Score: 83
Period size: 9 Copynumber: 7.9 Consensus size: 9
33560482 GTGCAATCTA
33560492 AAGAGGAGG
1 AAGAGGAGG
*
33560501 AAGAGGAAG
1 AAGAGGAGG
33560510 AAGAAGGAGG
1 AAG-AGGAGG
33560520 AAGAGGAGG
1 AAGAGGAGG
* *
33560529 AGGAGTAGG
1 AAGAGGAGG
*
33560538 ATGAGGAGG
1 AAGAGGAGG
33560547 -AGAGGGAGG
1 AAGA-GGAGG
33560556 AAGAGGAG
1 AAGAGGAG
33560564 AGATTGAAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
8 2 0.04
9 40 0.75
10 11 0.21
ACGTcount: A:0.43, C:0.00, G:0.54, T:0.03
Consensus pattern (9 bp):
AAGAGGAGG
Found at i:33560520 original size:3 final size:3
Alignment explanation
Indices: 33560494--33560563 Score: 52
Period size: 3 Copynumber: 23.0 Consensus size: 3
33560484 GCAATCTAAA
* * * * * *
33560494 GAG GAG GAA GAG GAAG AAG AAG GAG GAA GAG GAG GAG GAG TAG GAT
1 GAG GAG GAG GAG G-AG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
*
33560540 GAG GAG GA- GAGG GAG GAA GAG GAG
1 GAG GAG GAG GA-G GAG GAG GAG GAG
33560564 AGATTGAAGA
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
2 2 0.04
3 46 0.88
4 4 0.08
ACGTcount: A:0.41, C:0.00, G:0.56, T:0.03
Consensus pattern (3 bp):
GAG
Found at i:33565501 original size:101 final size:101
Alignment explanation
Indices: 33565379--33565565 Score: 288
Period size: 101 Copynumber: 1.8 Consensus size: 101
33565369 AAAGTGATGG
* *
33565379 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAAAT-T-ATAGGTCGCATGTGTAGT
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCG-AATGTAAT-GGTCACATGTGTAGC
*
33565442 ACTATGTGCAGGCTACTATGTGTACCGGATAGTTTCGA
64 ACTATGTGCAAGCTACTATGTGTACCGGATAGTTTCGA
* *
33565480 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGCA
1 TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAAT-GTAATGGTCACATGTGTAGCA
33565545 CTATGTGCAAGCTACTATGTG
65 CTATGTGCAAGCTACTATGTG
33565566 AACTAAACAT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 39 0.50
102 35 0.45
103 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACCGAATGTAATGGTCACATGTGTAGCAC
TATGTGCAAGCTACTATGTGTACCGGATAGTTTCGA
Found at i:33565509 original size:51 final size:50
Alignment explanation
Indices: 33565376--33565561 Score: 205
Period size: 51 Copynumber: 3.7 Consensus size: 50
33565366 GTGAAAGTGA
* *
33565376 TGGTCACGTGTGTAATACTATGTGCAGGCTACTACGTGTACC-GA-AATT
1 TGGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGTT
* * *
33565424 ATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGTT
1 -T-GGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGTT
* * * * *
33565476 TCGATCACGTGTGTAATACTATGTGCAGGCTACTACGTGTATCGGATGGTAA
1 T-GGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGT-T
** *
33565528 TGGTCACATGTGTAGCACTATGTGCAAGCTACTA
1 TGGTCACATGTGTAATACTATGTGCAGGCTACTA
33565562 TGTGAACTAA
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.01
50 37 0.32
51 72 0.63
52 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGGTCACATGTGTAATACTATGTGCAGGCTACTACGTGTACCGGATAGTT
Found at i:33565636 original size:45 final size:45
Alignment explanation
Indices: 33565572--33565658 Score: 156
Period size: 45 Copynumber: 1.9 Consensus size: 45
33565562 TGTGAACTAA
* *
33565572 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
33565617 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCAC
33565659 TGAGTATCTG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Found at i:33574107 original size:3 final size:3
Alignment explanation
Indices: 33574099--33574131 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
33574089 GGAATCATTG
*
33574099 ACA ACA ACA ACA ACA ACA ACA ACA AGA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
33574132 GCAGCAGCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.30, G:0.03, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:33581603 original size:16 final size:15
Alignment explanation
Indices: 33581582--33581611 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
33581572 TTTTGTACTA
33581582 TTTTAATATTAAATAT
1 TTTTAAT-TTAAATAT
33581598 TTTTAATTTAAATA
1 TTTTAATTTAAATA
33581612 AAATTAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAATTTAAATAT
Found at i:33581886 original size:33 final size:33
Alignment explanation
Indices: 33581839--33581902 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
33581829 TATGGAGATC
* *
33581839 ATTCTTGAGCAATTTAGATGTATTTTCTTTATT
1 ATTCTCGAGAAATTTAGATGTATTTTCTTTATT
33581872 ATTCTCGAGAAATTTAGATGTATTTTCTTTA
1 ATTCTCGAGAAATTTAGATGTATTTTCTTTA
33581903 CTTTTGACGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.09, G:0.12, T:0.52
Consensus pattern (33 bp):
ATTCTCGAGAAATTTAGATGTATTTTCTTTATT
Found at i:33597545 original size:19 final size:19
Alignment explanation
Indices: 33597518--33597570 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
33597508 AATATTTTCA
*
33597518 TTTTCCTATTATTA-TTTAT
1 TTTTACTATT-TTATTTTAT
33597537 TTTTACTATTTTATTTTAT
1 TTTTACTATTTTATTTTAT
*
33597556 TTTCA-T-TTTTATTTT
1 TTTTACTATTTTATTTT
33597571 TGCAGGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 18 0.58
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTACTATTTTATTTTAT
Found at i:33597550 original size:18 final size:20
Alignment explanation
Indices: 33597518--33597558 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
33597508 AATATTTTCA
*
33597518 TTTTCCTATTATTA-TTTAT
1 TTTTACTATTATTATTTTAT
33597537 TTTTACTATT-TTATTTTAT
1 TTTTACTATTATTATTTTAT
33597556 TTT
1 TTT
33597559 CATTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTACTATTATTATTTTAT
Found at i:33600676 original size:3 final size:3
Alignment explanation
Indices: 33600668--33600700 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33600658 AAAATTTTGG
33600668 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33600701 TTGAGATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:33604276 original size:15 final size:15
Alignment explanation
Indices: 33604256--33604290 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
33604246 TAATTTGCGT
33604256 ATTTTAATTTAATTA
1 ATTTTAATTTAATTA
**
33604271 ATTTTAATTTCTTTA
1 ATTTTAATTTAATTA
33604286 ATTTT
1 ATTTT
33604291 TTATTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTAATTTAATTA
Found at i:33616491 original size:20 final size:20
Alignment explanation
Indices: 33616468--33616515 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
33616458 ATCAAAAGCA
33616468 TCGATACCCGTAACAAAGTT
1 TCGATACCCGTAACAAAGTT
** * *
33616488 TCGATACCTTTCATAAAGTT
1 TCGATACCCGTAACAAAGTT
33616508 TCGATACC
1 TCGATACC
33616516 TTATCCTTGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.31
Consensus pattern (20 bp):
TCGATACCCGTAACAAAGTT
Found at i:33628234 original size:59 final size:59
Alignment explanation
Indices: 33628142--33628257 Score: 205
Period size: 59 Copynumber: 2.0 Consensus size: 59
33628132 TGGAGCTTGG
* *
33628142 TCAACTCCTGTTGTAATTGTGTTGTATCTTTTTGAAATCTGGTGGTGACACCACTACCA
1 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTACCA
*
33628201 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAGATCTGGTGATGACACCACTAC
1 TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTAC
33628258 TATCCATGAG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 54 1.00
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.39
Consensus pattern (59 bp):
TCAACTCCTGTTGTAACTGTGTTGTATCTTTTTGAAATCTGGTGATGACACCACTACCA
Found at i:33629927 original size:35 final size:35
Alignment explanation
Indices: 33629850--33629929 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
33629840 ACGATTATCG
* *
33629850 ATAGGTCCTTTAGGGTGACACCATGTAAACGGTAT
1 ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
* * *
33629885 ATAGGTCCTTCAGGGTGACACCGTGTAAATAGTTT
1 ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
*
33629920 ATGGGTCCTT
1 ATAGGTCCTT
33629930 TGAGGCTACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (35 bp):
ATAGGTCCTTCAGGGTGACACCATGTAAACAGTAT
Found at i:33631092 original size:78 final size:77
Alignment explanation
Indices: 33630846--33631119 Score: 281
Period size: 78 Copynumber: 3.6 Consensus size: 77
33630836 AAAAATCCTG
* * * * * * *
33630846 TTTCAGTATTTTATTCCTGTCGTTTAACATGATTTATTTGATTTCTGTTTCAAACAGAAAATCAA
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
33630911 TTGAACACTGCTA
66 TTGAACACT-CTA
* * * * * *
33630924 TTTCAGGATTTTACTCTTGTCGTTTAATAGGATTTGTTT-A--TTT-TTTCAAATATAGACTCAA
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
33630985 TTGAACACTCCTA
66 TTGAACACT-CTA
* *
33630998 TTTTAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTTAAATAGGAAACT-A
1 TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATA-GAAACTCA
*
33631062 ATTGAACAAT-TA
65 ATTGAACACTCTA
** * *
33631074 TGTTCAGGATTTTTATTCCTGCCACTCAACAGGATTTGTTCGATTT
1 T-TTCAGGA-TTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTT
33631120 CCACAATTCT
Statistics
Matches: 163, Mismatches: 26, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
74 60 0.37
75 3 0.02
76 3 0.02
77 10 0.06
78 83 0.51
79 4 0.02
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (77 bp):
TTTCAGGATTTTATTCCTGCCGTTTAACAGGATTTGTTTGATTTTTGTTTCAAATAGAAACTCAA
TTGAACACTCTA
Found at i:33640939 original size:16 final size:16
Alignment explanation
Indices: 33640918--33640948 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33640908 ACTAGCTTTG
*
33640918 GCTTTTGATCTTTGTT
1 GCTTTTGATCCTTGTT
33640934 GCTTTTGATCCTTGT
1 GCTTTTGATCCTTGT
33640949 GACTCATCAT
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:0.06, C:0.16, G:0.19, T:0.58
Consensus pattern (16 bp):
GCTTTTGATCCTTGTT
Found at i:33648316 original size:18 final size:18
Alignment explanation
Indices: 33648293--33648386 Score: 60
Period size: 17 Copynumber: 5.5 Consensus size: 18
33648283 TTACAAGATA
33648293 AATATTAAATTAAAATTT
1 AATATTAAATTAAAATTT
*
33648311 AATATTAAGA-TAATATCTTT
1 AATATTAA-ATTAA-A-ATTT
*
33648331 AATAGTAAATTAAAA---
1 AATATTAAATTAAAATTT
* *
33648346 AATATT--ATTAAGA-TA
1 AATATTAAATTAAAATTT
*
33648361 AATATTAAATT-TAATTT
1 AATATTAAATTAAAATTT
33648378 AATATTAAA
1 AATATTAAA
33648387 ACTAATAAAA
Statistics
Matches: 59, Mismatches: 8, Indels: 19
0.69 0.09 0.22
Matches are distributed among these distances:
13 6 0.10
15 11 0.19
16 1 0.02
17 13 0.22
18 11 0.19
19 4 0.07
20 13 0.22
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (18 bp):
AATATTAAATTAAAATTT
Found at i:33648393 original size:68 final size:72
Alignment explanation
Indices: 33648254--33648393 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 72
33648244 AACTTAATTA
*
33648254 CTTTAATATTAAATTAATAAAATATTTATTTACAAGATAAATATTAAATTAAAATTTAATATTAA
1 CTTTAATAGTAAATTAATAAAATATTTATTTA-AAGATAAATATTAAATTAAAATTTAATATTAA
*
33648319 GATAATAT
65 AATAATAT
*
33648327 CTTTAATAGTAAATTAA-AAAATA-TTA-TT-AAGATAAATATTAAATT-TAATTTAATATTAAA
1 CTTTAATAGTAAATTAATAAAATATTTATTTAAAGATAAATATTAAATTAAAATTTAATATTAAA
33648387 ACTAATA
66 A-TAATA
33648394 AAATAATATT
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
67 14 0.22
68 22 0.35
70 2 0.03
71 3 0.05
72 6 0.10
73 16 0.25
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (72 bp):
CTTTAATAGTAAATTAATAAAATATTTATTTAAAGATAAATATTAAATTAAAATTTAATATTAAA
ATAATAT
Found at i:33654289 original size:102 final size:103
Alignment explanation
Indices: 33654089--33654295 Score: 344
Period size: 102 Copynumber: 2.0 Consensus size: 103
33654079 TCTTAGGTGG
*
33654089 AGATGGTAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
1 AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
*
33654154 TATCACATCCATTCCCATATATAACTCAAAACATGCAT
66 CATCACATCCATTCCCATATATAACTCAAAACATGCAT
* * *
33654192 AGATGATAGTCCATGGTCTATTTTCTAAGAACCATAACCTTGG-AAAAAAATAACAATTATATAA
1 AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
* *
33654256 CATCGCATCCATTTCCATATATAACTCAAAACATGCAT
66 CATCACATCCATTCCCATATATAACTCAAAACATGCAT
33654294 AG
1 AG
33654296 TATCTAAAAA
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 57 0.59
103 40 0.41
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (103 bp):
AGATGATAGTCCATGGTCTATTTCCTAAGAACCACAACCTTGGCAAAAAAATAACAATTATACAA
CATCACATCCATTCCCATATATAACTCAAAACATGCAT
Found at i:33654893 original size:38 final size:36
Alignment explanation
Indices: 33654851--33654927 Score: 93
Period size: 38 Copynumber: 2.1 Consensus size: 36
33654841 ACTTAATCAC
*
33654851 TTTAATATTAAATTAATA-AAATACTATTAAGATAAGTA
1 TTTAAT-TTAAATTAATATAAA-ACTATTAAAATAA-TA
*
33654889 TTTAATTTAATTTAATATTAAAACTATTAAAATAATA
1 TTTAATTTAAATTAATA-TAAAACTATTAAAATAATA
33654926 TT
1 TT
33654928 ATTTCTGGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
37 14 0.40
38 18 0.51
39 3 0.09
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (36 bp):
TTTAATTTAAATTAATATAAAACTATTAAAATAATA
Found at i:33658694 original size:24 final size:26
Alignment explanation
Indices: 33658644--33658690 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
33658634 AGTGTTCATC
33658644 TCTTTTTTACTTATTATGTATTGTGT
1 TCTTTTTTACTTATTATGTATTGTGT
33658670 TCTTTTTT-C-TATTAT-TATTGT
1 TCTTTTTTACTTATTATGTATTGT
33658691 TGTTAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 1 0.05
26 8 0.38
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.68
Consensus pattern (26 bp):
TCTTTTTTACTTATTATGTATTGTGT
Found at i:33663283 original size:16 final size:16
Alignment explanation
Indices: 33663253--33663325 Score: 76
Period size: 16 Copynumber: 4.6 Consensus size: 16
33663243 ACATTTGGTT
*
33663253 GAGTTG-AATGAAATA
1 GAGTTGTAATGGAATA
*
33663268 GGGTTGTAATGGAATA
1 GAGTTGTAATGGAATA
* **
33663284 GAGATGTAACAGAATA
1 GAGTTGTAATGGAATA
* *
33663300 CAATTGTAATGGAATA
1 GAGTTGTAATGGAATA
33663316 GAGTTGTAAT
1 GAGTTGTAAT
33663326 TAGTAATTTT
Statistics
Matches: 44, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
15 5 0.11
16 39 0.89
ACGTcount: A:0.41, C:0.03, G:0.27, T:0.29
Consensus pattern (16 bp):
GAGTTGTAATGGAATA
Found at i:33674265 original size:11 final size:11
Alignment explanation
Indices: 33674249--33674281 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33674239 TATATATGTA
33674249 AATATAATAAT
1 AATATAATAAT
33674260 AATATAATAAT
1 AATATAATAAT
*
33674271 AACA-AATAAT
1 AATATAATAAT
33674281 A
1 A
33674282 CAATAACAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 7 0.33
11 14 0.67
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (11 bp):
AATATAATAAT
Found at i:33675714 original size:50 final size:50
Alignment explanation
Indices: 33675545--33675716 Score: 150
Period size: 50 Copynumber: 3.5 Consensus size: 50
33675535 CAGGGAAGTA
* * * * *
33675545 AGATCTGCCGCTGTGGCCTCAATCTTTTTAATTGCGCTGTCGGAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
* ** * * * * * ***
33675595 AGATCTGCCGTTGTGACTTCAATC-TGCTACACTGCACCG-CTAGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTTTTTA-ATTGCGCTGTCGAAGAAACC
* *
33675644 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
*
33675694 AGATCCACCGTTGTGACTTCAAT
1 AGATCCGCCGTTGTGACTTCAAT
33675717 ATGCTCCACT
Statistics
Matches: 89, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
49 34 0.38
50 55 0.62
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTTTTTAATTGCGCTGTCGAAGAAACC
Found at i:33675866 original size:50 final size:50
Alignment explanation
Indices: 33675595--33676068 Score: 217
Period size: 50 Copynumber: 9.5 Consensus size: 50
33675585 CGGAGAAACC
* * *
33675595 AGATCTGCCGTTGTGACTTCAATCTGCTACACTGCACCGCTA-GGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* * ** * * * * * * * *
33675644 AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTG-TCGAAGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAG-GGAAGCA
* * * * * *
33675694 AGATCCACCGTTGTGACTTCAATATGCTCCACTACACCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
**** * ** * * * * * * *
33675744 AGATCTATTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCTG-TCGGGGAAACC
1 AGATCCGCCGTTGTGACTTC---AATCTGCTTCACTGCACCGCT-AGGGAAGCA
* *
33675796 AGATTCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* * * * * * * * * *
33675846 AGATCTGCTGTTGTGGCTTCAAACT-TTTAAATTGCACTG-TCGGGGAAACCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTT-CACTGCACCGCT-AGGG-AAGCA
* * * * *
33675897 A-ATCCGCCGTTGTGACTTCAATCTGCTCCACTGTATCGCCAGGGAAGTA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* ** * * * * * *
33675946 AGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG-TCGAGGAAACC
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAG-GGAAGCA
* * *
33675996 AGATCCGCTGTTGTGACTTCAATCTGCTCCACTGCACAGCTAGGGAAGCA
1 AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
* *
33676046 AGATCTGCCGTTGTGGCTTCAAT
1 AGATCCGCCGTTGTGACTTCAAT
33676069 ATTTTTAATT
Statistics
Matches: 287, Mismatches: 121, Indels: 33
0.65 0.27 0.07
Matches are distributed among these distances:
48 1 0.00
49 40 0.14
50 208 0.72
51 9 0.03
52 26 0.09
53 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (50 bp):
AGATCCGCCGTTGTGACTTCAATCTGCTTCACTGCACCGCTAGGGAAGCA
Found at i:33675920 original size:100 final size:100
Alignment explanation
Indices: 33675521--33676079 Score: 755
Period size: 100 Copynumber: 5.6 Consensus size: 100
33675511 CTCAAGTCCA
* * *
33675521 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGCTGTGGCCTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
* *
33675586 GGAGAAACCAGATCTGCCGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
33675621 CTACACTGCACCGCTA-GGAAGTAAGAT-TCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
1 CTCCACTGCACCGCCAGGGAAGTAAGATCT-GCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGT
** * *
33675684 CGAAGAAACCAGATCCACCGTTGTGACTTCAATATG
65 CGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *** *
33675720 CTCCACTACACCGCCAGGGAAGTAAGATCTATTGTTGTGGCTTCAAAAATTTTTTAATTGCGCTG
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTC--AAACTTTTTAATTGCGCTG
*
33675785 TCGGGGAAACCAGATTCGCCGTTGTGACTTCAATCTG
64 TCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * * *
33675822 CTTCACTGCACCGCTAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCACTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
*
33675887 GGGGAAACCAAATCCGCCGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * * *
33675922 CTCCACTGTATCGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTGTC
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
* *
33675987 GAGGAAACCAGATCCGCTGTTGTGACTTCAATCTG
66 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * *
33676022 CTCCACTGCACAGCTAGGGAAGCAAGATCTGCCGTTGTGGCTTCAATA-TTTTTAATTG
1 CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAA-ACTTTTTAATTG
33676080 AAATGCCAAA
Statistics
Matches: 404, Mismatches: 49, Indels: 12
0.87 0.11 0.03
Matches are distributed among these distances:
98 1 0.00
99 88 0.22
100 226 0.56
101 1 0.00
102 88 0.22
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (100 bp):
CTCCACTGCACCGCCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAAACTTTTTAATTGCGCTGTC
GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
Found at i:33677500 original size:15 final size:14
Alignment explanation
Indices: 33677482--33677531 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
33677472 TTAGCCTCTC
33677482 CATTTTTATTTTTT
1 CATTTTTATTTTTT
33677496 CCATTTTTCA-TTTTT
1 -CATTTTT-ATTTTTT
33677511 CATTTTT-TTATTTT
1 CATTTTTATT-TTTT
33677525 CATTTTT
1 CATTTTT
33677532 TCACATCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.03
14 18 0.56
15 12 0.38
16 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
CATTTTTATTTTTT
Found at i:33677502 original size:8 final size:7
Alignment explanation
Indices: 33677482--33677531 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
33677472 TTAGCCTCTC
33677482 CATTTTT
1 CATTTTT
33677489 -ATTTTTT
1 CA-TTTTT
33677496 CCATTTTT
1 -CATTTTT
33677504 CATTTTT
1 CATTTTT
33677511 CATTTTT
1 CATTTTT
*
33677518 -TTATTTT
1 CAT-TTTT
33677525 CATTTTT
1 CATTTTT
33677532 TCACATCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 2 0.06
7 27 0.75
8 6 0.17
9 1 0.03
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
CATTTTT
Found at i:33684157 original size:11 final size:11
Alignment explanation
Indices: 33684141--33684166 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33684131 TATATATGTA
33684141 AATATAATAAT
1 AATATAATAAT
33684152 AATATAATAAT
1 AATATAATAAT
33684163 AATA
1 AATA
33684167 ACAAATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATAATAAT
Found at i:33684446 original size:25 final size:25
Alignment explanation
Indices: 33684409--33684470 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
33684399 TAATTTAAAA
* *
33684409 GCACTATAGAAGGAAGGGACCAATT
1 GCACTGTAAAAGGAAGGGACCAATT
33684434 GCACTGTAAAAGGAAGGGACCAATT
1 GCACTGTAAAAGGAAGGGACCAATT
33684459 GCACTGTAAAAG
1 GCACTGTAAAAG
33684471 CACTGTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.16, G:0.27, T:0.16
Consensus pattern (25 bp):
GCACTGTAAAAGGAAGGGACCAATT
Found at i:33713979 original size:35 final size:35
Alignment explanation
Indices: 33713913--33714107 Score: 223
Period size: 35 Copynumber: 5.6 Consensus size: 35
33713903 GTATAAAGAT
* * *
33713913 GGAGAGATTCCCTACAA-GAAATGATGTGTGAATA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* *
33713947 AGAGAGATTCCCTGCAACAAAATGATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33713982 GGATAGATTCCCTGCAA-GAAATGATGTGTGAATA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33714016 GGAGAGATTCCCTACAACAAAATAATGCATGAATA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33714051 GCAGAGATTCCCTGCAACAAAATAATGCGTGAACA
1 GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
* * *
33714086 GGAAATATTCCCTGCAAGAAAA
1 GGAGAGATTCCCTGCAACAAAA
33714108 GACAAGTGAA
Statistics
Matches: 135, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
34 44 0.33
35 91 0.67
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.21
Consensus pattern (35 bp):
GGAGAGATTCCCTGCAACAAAATGATGCGTGAATA
Found at i:33714028 original size:69 final size:69
Alignment explanation
Indices: 33713915--33714107 Score: 242
Period size: 69 Copynumber: 2.8 Consensus size: 69
33713905 ATAAAGATGG
* * * *
33713915 AGAGATTCCCTACAAGAAATGATGTGTGAATAAGAGAGATTCCCTGCAACAAAATGATGCGTGAA
1 AGAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAATAATGCATGAA
*
33713980 CAGG
66 CAGC
* *
33713984 ATAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTACAACAAAATAATGCATGAA
1 AGAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAATAATGCATGAA
*
33714049 TAGC
66 CAGC
* * * * * * *
33714053 AGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 AGAGATTCCCTGCAA-GAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAA
33714108 GACAAGTGAA
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
69 75 0.71
70 31 0.29
ACGTcount: A:0.41, C:0.17, G:0.21, T:0.21
Consensus pattern (69 bp):
AGAGATTCCCTGCAAGAAATGATGTGTGAATAGGAGAGATTCCCTGCAACAAAATAATGCATGAA
CAGC
Found at i:33714096 original size:104 final size:103
Alignment explanation
Indices: 33713913--33714106 Score: 300
Period size: 104 Copynumber: 1.9 Consensus size: 103
33713903 GTATAAAGAT
* * ** *
33713913 GGAGAGATTCCCTACAAGAAATGATGTGTGAATAAGAGAGATTCCCTGCAACAAAATGATGCGTG
1 GGAGAGATTCCCTACAAAAAATAATGCATGAATAAGAGAGATTCCCTGCAACAAAATAATGCGTG
*
33713978 AACAGGATAGATTCCCTGCAAGAAATGATGTGTGAATA
66 AACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAATA
33714016 GGAGAGATTCCCTACAACAAAATAATGCATGAAT-AGCAGAGATTCCCTGCAACAAAATAATGCG
1 GGAGAGATTCCCTACAA-AAAATAATGCATGAATAAG-AGAGATTCCCTGCAACAAAATAATGCG
*
33714080 TGAACAGGAAATATTCCCTGCAAGAAA
64 TGAACAGGAAAGATTCCCTGCAAGAAA
33714107 AGACAAGTGA
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 19 0.23
104 63 0.77
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (103 bp):
GGAGAGATTCCCTACAAAAAATAATGCATGAATAAGAGAGATTCCCTGCAACAAAATAATGCGTG
AACAGGAAAGATTCCCTGCAAGAAATGATGTGTGAATA
Found at i:33714336 original size:10 final size:10
Alignment explanation
Indices: 33714304--33714343 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
33714294 TTCTCCAAAG
33714304 AGTTTCTCAA
1 AGTTTCTCAA
* *
33714314 AATTT-TTAA
1 AGTTTCTCAA
33714323 AGTTTCTCAA
1 AGTTTCTCAA
33714333 AGTTTCTCAA
1 AGTTTCTCAA
33714343 A
1 A
33714344 ATTTTTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.42
Consensus pattern (10 bp):
AGTTTCTCAA
Found at i:33714371 original size:22 final size:21
Alignment explanation
Indices: 33714343--33714385 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
33714333 AGTTTCTCAA
33714343 AATTTTTAAGTTTACAAAATTT
1 AATTTTTAAGTTT-CAAAATTT
*
33714365 AATTTTTAAGTTTCTAAATTT
1 AATTTTTAAGTTTCAAAATTT
33714386 TCAAATTAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
AATTTTTAAGTTTCAAAATTT
Found at i:33714444 original size:27 final size:27
Alignment explanation
Indices: 33714406--33714457 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
33714396 TTTTCAAACC
33714406 GATCCTCAGATCCTCGGGACTTACTAA
1 GATCCTCAGATCCTCGGGACTTACTAA
33714433 GATCCTCAGATCCTCGGGACTTACT
1 GATCCTCAGATCCTCGGGACTTACT
33714458 GGTATCAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (27 bp):
GATCCTCAGATCCTCGGGACTTACTAA
Found at i:33718641 original size:21 final size:23
Alignment explanation
Indices: 33718599--33718641 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
33718589 TAATTAATTA
*
33718599 TAAACAGAAGCAAATCTCTTTTC
1 TAAACAGAAGCAAATATCTTTTC
*
33718622 TAAA-AGAAG-AAATATGTTTT
1 TAAACAGAAGCAAATATCTTTT
33718642 AAAAAATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (23 bp):
TAAACAGAAGCAAATATCTTTTC
Found at i:33727350 original size:42 final size:42
Alignment explanation
Indices: 33727256--33727371 Score: 112
Period size: 42 Copynumber: 2.8 Consensus size: 42
33727246 CAACACGGTT
* *
33727256 GTGTGTCACAAGTCAGAGAGTTACACGGCCTGCGACACGACA
1 GTGTGTCCCAACTCAGAGAGTTACACGGCCTGCGACACGACA
* * * *
33727298 ATGTGACCCAACTCAGTGAGTTACACGAG-CTGGGACACGATC-
1 GTGTGTCCCAACTCAGAGAGTTACACG-GCCTGCGACACGA-CA
* *
33727340 GTGTGTCCCAACATCA-AAAGTTACATGGCCTG
1 GTGTGTCCCAAC-TCAGAGAGTTACACGGCCTG
33727372 AGGCATTCCA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.02
42 53 0.90
43 5 0.08
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.20
Consensus pattern (42 bp):
GTGTGTCCCAACTCAGAGAGTTACACGGCCTGCGACACGACA
Found at i:33728936 original size:42 final size:42
Alignment explanation
Indices: 33728826--33728938 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
33728816 CCTAGCACAT
* * * *
33728826 GGCCTGCAACACGGTTGTGTGTCACAAGTCAGAGAGTTACAC
1 GGCCTGCGACACGGCTGTGTGTCCCAACTCAGAGAGTTACAC
* ** * *
33728868 GGCCTGCGACATGGCAATGTGACCCAACTCAGTGAGTTACAC
1 GGCCTGCGACACGGCTGTGTGTCCCAACTCAGAGAGTTACAC
33728910 GAG-CTAG-GACACGGCTGTGTGTCCCAACT
1 G-GCCT-GCGACACGGCTGTGTGTCCCAACT
33728939 TCAAAACTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
42 54 0.96
43 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (42 bp):
GGCCTGCGACACGGCTGTGTGTCCCAACTCAGAGAGTTACAC
Found at i:33748529 original size:37 final size:37
Alignment explanation
Indices: 33748451--33748529 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
33748441 GTGCCGAGGC
* * *
33748451 GTGTTATCGGTTGGATTAGCTCTCATAAGCGTTTGGC
1 GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
* * * *
33748488 GTGTTATTAGTTGGATTAGCTCTTATGAGTGTTTAGA
1 GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
33748525 GTGTT
1 GTGTT
33748530 TTGATTGGAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.18, C:0.10, G:0.29, T:0.43
Consensus pattern (37 bp):
GTGTTATCAGTTGGATTAGCTCTCATAAGCGTTTAGA
Found at i:33750408 original size:40 final size:40
Alignment explanation
Indices: 33750371--33750595 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
33750361 GCTACTCGTT
* *
33750371 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
33750411 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
33750451 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
33750491 TC-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 -CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
33750530 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
33750571 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
33750596 CATCATTCGA
Statistics
Matches: 163, Mismatches: 15, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
38 3 0.02
39 31 0.19
40 115 0.71
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:33750555 original size:119 final size:120
Alignment explanation
Indices: 33750373--33750595 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
33750363 TACTCGTTCA
* *
33750373 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
33750438 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATC
* * **
33750493 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
33750555 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
33750596 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCATC
Found at i:33765034 original size:120 final size:120
Alignment explanation
Indices: 33764821--33765060 Score: 367
Period size: 120 Copynumber: 2.0 Consensus size: 120
33764811 ATAATAAATT
* *
33764821 GAGTACTGAATACCCTATTAATTGTTTCGATAGAGTCAGATAAAGTTGGCATGACATAGGATAGG
1 GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCAGATAAAGTTAGCATGACATAGGATAGG
* * *
33764886 AAGAGTTCGGGATTACTTCAAATACGAGTCAATGAGGCACTAGGTGCCAAATTGC
66 AAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
* * *
33764941 GAGTAATGAATACCCTATTAATTGTTTCGGTAGAGTC-GAATATAA-TTAGCATGCCATAGGATT
1 GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCAG-ATA-AAGTTAGCATGACATAGGATA
*
33765004 GGAAGAGTTCAGGATTACTTCGAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
64 GGAAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
33765061 TTCAGTTATA
Statistics
Matches: 109, Mismatches: 9, Indels: 4
0.89 0.07 0.03
Matches are distributed among these distances:
119 1 0.01
120 106 0.97
121 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (120 bp):
GAGTAATGAATACCCTATTAATTGTTTCGATAGAGTCAGATAAAGTTAGCATGACATAGGATAGG
AAGAGTTCAGGATTACTTCAAATACGAGTCAATGAGGCACGAGGTACCAAATTGC
Found at i:33767906 original size:31 final size:31
Alignment explanation
Indices: 33767820--33767907 Score: 99
Period size: 31 Copynumber: 2.8 Consensus size: 31
33767810 ACTTTATTTG
**
33767820 TTATGTGTTTAC-TGTCCTAATGGACTATCTA
1 TTATGTGTTTACAT-TCCTAACAGACTATCTA
* *
33767851 TTTTGTGTTTACCA-TCCCAACAGACTATCTA
1 TTATGTGTTTA-CATTCCTAACAGACTATCTA
*
33767882 TTATGTGTTTACATTCCTAGCAGACT
1 TTATGTGTTTACATTCCTAACAGACT
33767908 TTCTCTGTGG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.04
31 44 0.94
32 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (31 bp):
TTATGTGTTTACATTCCTAACAGACTATCTA
Found at i:33777535 original size:23 final size:23
Alignment explanation
Indices: 33777445--33777536 Score: 62
Period size: 23 Copynumber: 3.9 Consensus size: 23
33777435 GAGCCATGAT
*
33777445 CGGTAAGCTCATTCCAAGCTGATAAA
1 CGGTAAGCTCA-TACAAGCTG--AAA
* * *
33777471 CGATAAGCTC-TATCGAGCTAAAA
1 CGGTAAGCTCATA-CAAGCTGAAA
* * *
33777494 CAGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-CATACAAGCTGAAA
33777517 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTCATACAAGCTG
33777537 TGGTGAGTCC
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
22 3 0.06
23 31 0.60
24 2 0.04
25 7 0.13
26 9 0.17
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (23 bp):
CGGTAAGCTCATACAAGCTGAAA
Found at i:33789041 original size:4 final size:4
Alignment explanation
Indices: 33789032--33789058 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
33789022 ATTGCTAATA
33789032 GATT GATT GATT GATT GATT GATT GAT
1 GATT GATT GATT GATT GATT GATT GAT
33789059 AATAGCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
GATT
Found at i:33790897 original size:5 final size:5
Alignment explanation
Indices: 33790882--33790921 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
33790872 GGAGAAAAAT
*
33790882 ACCCA ATCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA
1 ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA ACCCA
33790922 GAGCTAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.40, C:0.57, G:0.00, T:0.03
Consensus pattern (5 bp):
ACCCA
Found at i:33791897 original size:38 final size:40
Alignment explanation
Indices: 33791833--33791917 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 40
33791823 AAATTATTTG
* *
33791833 TATTAAAAACACTACCATAAATATAATAAATTTTTTATTA
1 TATTAAAAACACTACAATAAATATAATAAATATTTTATTA
*
33791873 TATTAAAAACA-TA-AATAAATATAATAAATATTTTATTG
1 TATTAAAAACACTACAATAAATATAATAAATATTTTATTA
33791911 TATTAAA
1 TATTAAA
33791918 TATAATTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 29 0.69
39 2 0.05
40 11 0.26
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (40 bp):
TATTAAAAACACTACAATAAATATAATAAATATTTTATTA
Done.