Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 55
Found at i:992236 original size:23 final size:23
Alignment explanation
Indices: 992205--992277 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
992195 ATAGGTAAAC
*
992205 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
992228 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
992251 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
992274 ATAT
1 ATAT
992278 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:995566 original size:6 final size:6
Alignment explanation
Indices: 995555--995579 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
995545 GCTTAAGGTC
995555 GAACGT GAACGT GAACGT GAACGT G
1 GAACGT GAACGT GAACGT GAACGT G
995580 GTATCACCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GAACGT
Found at i:1000471 original size:40 final size:40
Alignment explanation
Indices: 1000427--1000508 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
1000417 TCTATAAGTG
1000427 ACGTCATATGGAAAACATGTAATCCACTTGCCCATAATTT
1 ACGTCATATGGAAAACATGTAATCCACTTGCCCATAATTT
1000467 ACGTCATATGGAAAACATGTAATCCACTTGCCCATAATTT
1 ACGTCATATGGAAAACATGTAATCCACTTGCCCATAATTT
1000507 AC
1 AC
1000509 ACCTAACGTT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.23, G:0.12, T:0.29
Consensus pattern (40 bp):
ACGTCATATGGAAAACATGTAATCCACTTGCCCATAATTT
Found at i:1004321 original size:3 final size:3
Alignment explanation
Indices: 1004308--1004344 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
1004298 TAATCTGTAA
1004308 AAT AAT AAAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1004345 GTTTCAATCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:1006369 original size:20 final size:19
Alignment explanation
Indices: 1006343--1006391 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
1006333 TCATTTTGAG
*
1006343 GTATCGATACC-TTGGGTA
1 GTATCGATACCGATGGGTA
1006361 GAATATCGATACCGATGGGTA
1 G--TATCGATACCGATGGGTA
1006382 GTATCGATAC
1 GTATCGATAC
1006392 TACATGGCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 1 0.04
19 9 0.33
20 10 0.37
21 7 0.26
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (19 bp):
GTATCGATACCGATGGGTA
Found at i:1009098 original size:2 final size:2
Alignment explanation
Indices: 1009093--1009145 Score: 97
Period size: 2 Copynumber: 26.5 Consensus size: 2
1009083 TTTTTTATTT
*
1009093 TA TA TA TA TA TA TA TA TA TA TC TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1009135 TA TA TA TA TA T
1 TA TA TA TA TA T
1009146 TTTAAAATTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1011901 original size:23 final size:23
Alignment explanation
Indices: 1011868--1011951 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 23
1011858 AGTCGAGGGT
*
1011868 TCTACGCGGTCCTTCGGGACAAA
1 TCTACGTGGTCCTTCGGGACAAA
* **
1011891 TCTACGTGGTCCTTTGGGACATT
1 TCTACGTGGTCCTTCGGGACAAA
* * * *
1011914 TCTATGTGATCATTCAGGAC-AA
1 TCTACGTGGTCCTTCGGGACAAA
*
1011936 TACTATGTGGTCCTTC
1 T-CTACGTGGTCCTTC
1011952 TGGATTTTTC
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
22 1 0.02
23 46 0.98
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
TCTACGTGGTCCTTCGGGACAAA
Found at i:1012347 original size:33 final size:31
Alignment explanation
Indices: 1012283--1012359 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 31
1012273 ATGAATGAAG
* *
1012283 AATGCATAATG-TTATATGTTTTGTTGGTTA
1 AATGCATGATGTTTATATATTTTGTTGGTTA
*
1012313 AATGCATGATGTTATATATATTCTTGTTGTTTA
1 AATGCATGATGTT-TATATATT-TTGTTGGTTA
**
1012346 AATATATGATGTTT
1 AATGCATGATGTTT
1012360 TCTGTACATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
30 10 0.26
31 1 0.03
32 8 0.21
33 20 0.51
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.51
Consensus pattern (31 bp):
AATGCATGATGTTTATATATTTTGTTGGTTA
Found at i:1016212 original size:45 final size:45
Alignment explanation
Indices: 1016125--1016241 Score: 119
Period size: 45 Copynumber: 2.6 Consensus size: 45
1016115 TATGGATATG
* * * * * *
1016125 TGAGAACAAGATATAAGATATGTGATATTAACCTACGTGATTACA
1 TGAGAATATGATATAAGCTATATGATATTAACCTAAGCGATTACA
* * *
1016170 TGAGAATATGATATAAGCTATATGTTATTGACCTAAGCGATTATA
1 TGAGAATATGATATAAGCTATATGATATTAACCTAAGCGATTACA
* *
1016215 TGA-ACATGTGATATAAGCTATGTGATA
1 TGAGA-ATATGATATAAGCTATATGATA
1016242 AGGATATGTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 1 0.02
45 58 0.98
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.32
Consensus pattern (45 bp):
TGAGAATATGATATAAGCTATATGATATTAACCTAAGCGATTACA
Found at i:1016342 original size:14 final size:16
Alignment explanation
Indices: 1016306--1016343 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1016296 ATGACATGAG
*
1016306 CTATGTGATTATATGT
1 CTATGTGATTATAAGT
1016322 CTATGTGA-TATAAGT
1 CTATGTGATTATAAGT
1016337 -TATGTGA
1 CTATGTGA
1016344 ACTGTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
15 6 0.29
16 8 0.38
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (16 bp):
CTATGTGATTATAAGT
Found at i:1016454 original size:23 final size:23
Alignment explanation
Indices: 1016420--1016512 Score: 100
Period size: 23 Copynumber: 4.1 Consensus size: 23
1016410 GAGTCGAGGG
*
1016420 TTCTACGCGGTCCTTCGGGATAA
1 TTCTACGTGGTCCTTCGGGATAA
* *
1016443 TTCTACGTGGTCCTTCAGGATAT
1 TTCTACGTGGTCCTTCGGGATAA
*
1016466 TTCTACGCT-GTCCTTCGGGACAA
1 TTCTACG-TGGTCCTTCGGGATAA
* * *
1016489 TACTATGTGGTCATTCGGGA-AA
1 TTCTACGTGGTCCTTCGGGATAA
1016511 TT
1 TT
1016513 TTTATGTGGC
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
22 4 0.07
23 53 0.91
24 1 0.02
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGATAA
Found at i:1016546 original size:24 final size:24
Alignment explanation
Indices: 1016509--1016561 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1016499 TCATTCGGGA
*
1016509 AATTTTTATGTGGCAATTC-GATGC
1 AATTTCTATGTGGCAATTCAG-TGC
* *
1016533 AATTTCTATTTGGCACTTCAGTGC
1 AATTTCTATGTGGCAATTCAGTGC
1016557 AATTT
1 AATTT
1016562 ATACGAGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (24 bp):
AATTTCTATGTGGCAATTCAGTGC
Found at i:1016747 original size:8 final size:9
Alignment explanation
Indices: 1016715--1016750 Score: 51
Period size: 8 Copynumber: 4.3 Consensus size: 9
1016705 GATGATGATG
1016715 ATGATATAT
1 ATGATATAT
1016724 AT-ATATAT
1 ATGATATAT
1016732 AT-ATATAT
1 ATGATATAT
1016740 ATGA-ATAT
1 ATGATATAT
1016748 ATG
1 ATG
1016751 CTTTTGTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
8 23 0.88
9 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.44
Consensus pattern (9 bp):
ATGATATAT
Found at i:1018979 original size:7 final size:7
Alignment explanation
Indices: 1018969--1018995 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1018959 TATTACTTAT
1018969 ACATATC
1 ACATATC
1018976 ACATATC
1 ACATATC
1018983 ACATATC
1 ACATATC
1018990 ACATAT
1 ACATAT
1018996 ACCTTTTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.30
Consensus pattern (7 bp):
ACATATC
Found at i:1019223 original size:18 final size:18
Alignment explanation
Indices: 1019200--1019235 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1019190 ATATAACACA
1019200 TATGTCCCAAAGGACCAC
1 TATGTCCCAAAGGACCAC
*
1019218 TATGTCCCGAAGGACCAC
1 TATGTCCCAAAGGACCAC
1019236 ATATAACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (18 bp):
TATGTCCCAAAGGACCAC
Found at i:1019236 original size:46 final size:46
Alignment explanation
Indices: 1019153--1019279 Score: 193
Period size: 46 Copynumber: 2.7 Consensus size: 46
1019143 GCATAGAATT
* *
1019153 TGTCCCGAAGGACCACGTAGATATCCCGAAGGACCACATATAACACATA
1 TGTCCCAAAGGACCAC-T--ATGTCCCGAAGGACCACATATAACACATA
1019202 TGTCCCAAAGGACCACTATGTCCCGAAGGACCACATATAACACATA
1 TGTCCCAAAGGACCACTATGTCCCGAAGGACCACATATAACACATA
1019248 TGTCCCGAAA-GACCACTATGTCCCGAAGGACC
1 TGTCCC-AAAGGACCACTATGTCCCGAAGGACC
1019280 GCGTAGACCC
Statistics
Matches: 75, Mismatches: 2, Indels: 5
0.91 0.02 0.06
Matches are distributed among these distances:
46 56 0.75
47 3 0.04
48 1 0.01
49 15 0.20
ACGTcount: A:0.35, C:0.31, G:0.18, T:0.17
Consensus pattern (46 bp):
TGTCCCAAAGGACCACTATGTCCCGAAGGACCACATATAACACATA
Found at i:1023415 original size:20 final size:22
Alignment explanation
Indices: 1023370--1023427 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1023360 GCATGGGTAG
1023370 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
1023394 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
1023414 TGTATCGATGCACT
1 TGCATCGATGCACT
1023428 TCGAGGGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:1024342 original size:2 final size:2
Alignment explanation
Indices: 1024335--1024424 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
1024325 AGGAAAGATA
1024335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1024377 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1024419 AT AT AT
1 AT AT AT
1024425 GATAAGACAT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1024730 original size:38 final size:38
Alignment explanation
Indices: 1024688--1024782 Score: 127
Period size: 38 Copynumber: 2.5 Consensus size: 38
1024678 AGGGATTATC
1024688 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGAGACAT
* * * * * *
1024726 AGTGGTTCTTTGGAACAATCAGTGGTCCTTTGGGACAT
1 AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGAGACAT
*
1024764 AGTGGTCCTCCGGGACAAA
1 AGTGGTCCTTCGGGACAAA
1024783 TATTCAGTGC
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (38 bp):
AGTGGTCCTTCGGGACAAACAGTGGTCCTTCGAGACAT
Found at i:1024731 original size:18 final size:19
Alignment explanation
Indices: 1024688--1024781 Score: 93
Period size: 20 Copynumber: 4.9 Consensus size: 19
1024678 AGGGATTATC
*
1024688 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC-AAT
*
1024708 AGTGGTCCTTCGAGAC-AT
1 AGTGGTCCTTCGGGACAAT
* * *
1024726 AGTGGTTCTTTGGAACAAT
1 AGTGGTCCTTCGGGACAAT
*
1024745 CAGTGGTCCTTTGGGAC-AT
1 -AGTGGTCCTTCGGGACAAT
*
1024764 AGTGGTCCTCCGGGACAA
1 AGTGGTCCTTCGGGACAA
1024782 ATATTCAGTG
Statistics
Matches: 61, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
18 27 0.44
19 5 0.08
20 29 0.48
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (19 bp):
AGTGGTCCTTCGGGACAAT
Found at i:1028117 original size:64 final size:64
Alignment explanation
Indices: 1028035--1028190 Score: 181
Period size: 64 Copynumber: 2.4 Consensus size: 64
1028025 TTCAGTGTGT
* * * *
1028035 ATCGATGCACAAGAAGTGCATCGATGCA-CCCATTAAAAATGGAAACATCGAATGCAATTAGTGA
1 ATCGATGCATAAGGAGTGCATCGATGCACCCCATT-AAAATGAAAACATCGAAGGCAATTAGTGA
* * ** * *
1028099 ATCGATGCATAAGGAGTGCATCGATGCACCCCCTTAAAATGAAAACATTGAAGGTGATTGGTGT
1 ATCGATGCATAAGGAGTGCATCGATGCACCCCATTAAAATGAAAACATCGAAGGCAATTAGTGA
*
1028163 ATCGATGCAT-GGGTAGTGCATCGATGCA
1 ATCGATGCATAAGG-AGTGCATCGATGCA
1028191 ATGTAGAATG
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
63 2 0.03
64 72 0.91
65 5 0.06
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.23
Consensus pattern (64 bp):
ATCGATGCATAAGGAGTGCATCGATGCACCCCATTAAAATGAAAACATCGAAGGCAATTAGTGA
Found at i:1028620 original size:17 final size:19
Alignment explanation
Indices: 1028609--1028663 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
1028599 ATGATGATAT
1028609 AAATTATATGATACGATAAG
1 AAATTATATGATA-GATAAG
* *
1028629 AAATTATATGAATATAAAAG
1 AAATTATATG-ATAGATAAG
1028649 AGAAGTTATATGATA
1 A-AA-TTATATGATA
1028664 AGATCTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 15 0.50
21 8 0.27
22 7 0.23
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.31
Consensus pattern (19 bp):
AAATTATATGATAGATAAG
Found at i:1029241 original size:19 final size:18
Alignment explanation
Indices: 1029206--1029246 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
1029196 GAGAATGAGG
1029206 TATAAGTTATATGATATGA
1 TATAAGTTATATGATAT-A
* *
1029225 TATAAGTTATTTTATATA
1 TATAAGTTATATGATATA
1029243 TATA
1 TATA
1029247 TATGATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (18 bp):
TATAAGTTATATGATATA
Found at i:1029639 original size:18 final size:18
Alignment explanation
Indices: 1029616--1029686 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
1029606 AGGGATTATC
1029616 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1029634 AGTGGTTCTTCAGAACAAT
1 AGTGGTCCTTCGGGAC-AT
*
1029653 CAGTGGTCTTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
* *
1029672 ATTGGTCCTTTGGGA
1 AGTGGTCCTTCGGGA
1029687 TAAATATTCA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 25 0.61
19 4 0.10
20 12 0.29
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1033246 original size:64 final size:64
Alignment explanation
Indices: 1033110--1033246 Score: 161
Period size: 64 Copynumber: 2.1 Consensus size: 64
1033100 ATTGTTCAGT
* * *
1033110 GTGTATCGATGCACAGGAAGTGCATCGATGCACCCATTAAAAATGGAAACATCGAATGCAATTA
1 GTGTATCGATGCAAAGGAAGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGCAATTA
* * * **
1033174 GTGCATCGATGCATAAGG-AGTGCATCGATGCACCCCCTT-AAAATGAAAACATTGAAGGTGATT
1 GTGTATCGATGCA-AAGGAAGTGCATCGATGCA-CCCATTAAAAATGAAAACATCGAAGGCAATT
*
1033237 G
64 A
1033238 GTGTATCGA
1 GTGTATCGA
1033247 GTCATGGGTA
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
64 53 0.87
65 8 0.13
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (64 bp):
GTGTATCGATGCAAAGGAAGTGCATCGATGCACCCATTAAAAATGAAAACATCGAAGGCAATTA
Found at i:1033723 original size:17 final size:18
Alignment explanation
Indices: 1033701--1033742 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
1033691 TATGCTATGT
*
1033701 TATGATGAT-ATAAATTA
1 TATGATGATAAGAAATTA
1033718 TATGATATGATAAGAAATTA
1 TATG--ATGATAAGAAATTA
1033738 TATGA
1 TATGA
1033743 ATATAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 4 0.19
18 1 0.05
19 5 0.24
20 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (18 bp):
TATGATGATAAGAAATTA
Found at i:1033752 original size:20 final size:20
Alignment explanation
Indices: 1033712--1033766 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 20
1033702 ATGATGATAT
*
1033712 AAATTATATGATATGATAAG
1 AAATTATATGATATGAAAAG
1033732 AAATTATATGAATAT-AAAAG
1 AAATTATATG-ATATGAAAAG
*
1033752 AGAAGTTATGTGATA
1 A-AA-TTATATGATA
1033767 AGATCTTTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 15 0.50
21 9 0.30
22 6 0.20
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (20 bp):
AAATTATATGATATGAAAAG
Found at i:1034812 original size:22 final size:22
Alignment explanation
Indices: 1034786--1034837 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1034776 TAAGATCATA
*
1034786 TGATAAAAGTAATCTATGATAG
1 TGATAAAAGGAATCTATGATAG
1034808 TGATAAAAGGAATCTATGATAG
1 TGATAAAAGGAATCTATGATAG
1034830 TGATAAAA
1 TGATAAAA
1034838 ATGATGATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (22 bp):
TGATAAAAGGAATCTATGATAG
Found at i:1038148 original size:63 final size:64
Alignment explanation
Indices: 1038010--1038169 Score: 216
Period size: 63 Copynumber: 2.5 Consensus size: 64
1038000 ATTGTTCAGT
* * *
1038010 GTGTATCGATGCACAGGAAGTGCATCGATGCACCCATTAAAAATGGAAACATTGAATGTAATTA
1 GTGTATCGATGCATAGGAAGTGCATCGATGCACCCATTAAAAATGAAAACATTGAAGGTAATTA
* * * *
1038074 GTGCATCGATGCATAAGG-AGTGCATCGATGCACCCCTT-AAAATGAAAACATTGAAGGTGATTG
1 GTGTATCGATGCAT-AGGAAGTGCATCGATGCACCCATTAAAAATGAAAACATTGAAGGTAATTA
* *
1038137 GTGTATCGATGCATGGGCAGTGCATCGATGCAC
1 GTGTATCGATGCATAGGAAGTGCATCGATGCAC
1038170 TGTAGAATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
62 2 0.02
63 49 0.58
64 31 0.36
65 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (64 bp):
GTGTATCGATGCATAGGAAGTGCATCGATGCACCCATTAAAAATGAAAACATTGAAGGTAATTA
Found at i:1038597 original size:17 final size:18
Alignment explanation
Indices: 1038575--1038616 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
1038565 TATGCTATGT
*
1038575 TATGATGAT-ATAAATTA
1 TATGATGATAAGAAATTA
1038592 TATGATATGATAAGAAATTA
1 TATG--ATGATAAGAAATTA
1038612 TATGA
1 TATGA
1038617 ATATAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 4 0.19
18 1 0.05
19 5 0.24
20 11 0.52
ACGTcount: A:0.48, C:0.00, G:0.14, T:0.38
Consensus pattern (18 bp):
TATGATGATAAGAAATTA
Found at i:1038611 original size:20 final size:19
Alignment explanation
Indices: 1038586--1038640 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
1038576 ATGATGATAT
*
1038586 AAATTATATGATATGATAAG
1 AAATTATATGATAT-AAAAG
1038606 AAATTATATGAATATAAAAG
1 AAATTATATG-ATATAAAAG
1038626 AGAAGTTATATGATA
1 A-AA-TTATATGATA
1038641 AGATCTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
20 15 0.48
21 9 0.29
22 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (19 bp):
AAATTATATGATATAAAAG
Found at i:1039310 original size:2 final size:2
Alignment explanation
Indices: 1039303--1039344 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1039293 ATGAAAGATA
1039303 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1039345 GATAAGACAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1039630 original size:20 final size:20
Alignment explanation
Indices: 1039607--1039702 Score: 83
Period size: 20 Copynumber: 5.0 Consensus size: 20
1039597 GAGGGATTAT
*
1039607 CAGTGGTGCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
1039627 CAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * * *
1039645 TAGTGGTTCTTCAGAACAAT
1 CAGTGGTCCTTCGGGACAAA
*
1039665 TAGTGGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* *
1039683 TAGTGGTCTTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
1039703 TATTTAGTGC
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
18 30 0.49
20 31 0.51
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:1039651 original size:18 final size:18
Alignment explanation
Indices: 1039608--1039700 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
1039598 AGGGATTATC
* *
1039608 AGTGGTGCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
1039628 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1039646 AGTGGTTCTTCAGAACAATT
1 AGTGGTCCTTCGGGAC-A-T
1039666 AGTGGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
*
1039684 AGTGGTCTTTCGGGACA
1 AGTGGTCCTTCGGGACA
1039701 AATATTTAGT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
18 31 0.50
19 2 0.03
20 29 0.47
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1043129 original size:64 final size:64
Alignment explanation
Indices: 1043061--1043182 Score: 147
Period size: 64 Copynumber: 1.9 Consensus size: 64
1043051 GTACCCATTA
* *
1043061 AAAATGGAAACATCGAATGCAATTAGTGCATCGATGCATAAGG-AGTGCATCGATGCACCCCCTT
1 AAAATGAAAACATCGAAGGCAATTAGTGCATCGATGCAT-AGGTAGTGCATCGATGCACCCCCTT
* * ** * * *
1043125 AAAATGAAAACATTGTAGGTTATTGGTGTATCGATGCATGGGTAGTGCATCGATGCAC
1 AAAATGAAAACATCGAAGGCAATTAGTGCATCGATGCATAGGTAGTGCATCGATGCAC
1043183 ATGTTAAAGA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
63 2 0.04
64 46 0.96
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (64 bp):
AAAATGAAAACATCGAAGGCAATTAGTGCATCGATGCATAGGTAGTGCATCGATGCACCCCCTT
Found at i:1043215 original size:20 final size:23
Alignment explanation
Indices: 1043170--1043223 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 23
1043160 GCATGGGTAG
1043170 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCACATGTT-AAGAA
1043194 TGCATCGATGCA-ATG-T-AGAA
1 TGCATCGATGCACATGTTAAGAA
*
1043214 TGTATCGATG
1 TGCATCGATG
1043224 TACTTCGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 13 0.45
22 1 0.03
23 3 0.10
24 12 0.41
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (23 bp):
TGCATCGATGCACATGTTAAGAA
Found at i:1043661 original size:20 final size:21
Alignment explanation
Indices: 1043621--1043670 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1043611 ATGATGATAT
*
1043621 AAATTATAT-AATATGATAAG
1 AAATTATATGAATATGAAAAG
1043641 AAATTATATGAATAT-AAAAG
1 AAATTATATGAATATGAAAAG
1043661 AGAATT-TATG
1 A-AATTATATG
1043671 TGATAAGATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.34
Consensus pattern (21 bp):
AAATTATATGAATATGAAAAG
Found at i:1044340 original size:2 final size:2
Alignment explanation
Indices: 1044333--1044366 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1044323 ATGAAAGATA
1044333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1044367 GATAAGACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1044657 original size:20 final size:20
Alignment explanation
Indices: 1044629--1044666 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1044619 GAGTGATTAT
*
1044629 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGAGACAAA
*
1044649 CAGTTGTCCTTCGAGACA
1 CAGTGGTCCTTCGAGACA
1044667 TAGTGGTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.26, G:0.26, T:0.24
Consensus pattern (20 bp):
CAGTGGTCCTTCGAGACAAA
Found at i:1044672 original size:38 final size:38
Alignment explanation
Indices: 1044630--1044724 Score: 109
Period size: 38 Copynumber: 2.5 Consensus size: 38
1044620 AGTGATTATC
* *
1044630 AGTGGTCCTTCGGGACAAACAGTTGTCCTTCGAGACAT
1 AGTGGTACTTCGGGACAAACAGTGGTCCTTCGAGACAT
* * * * * *
1044668 AGTGGTTCTTTGGAACAATCAGTGGTCTTTCGGGACAT
1 AGTGGTACTTCGGGACAAACAGTGGTCCTTCGAGACAT
*
1044706 AGTGGTAATTCGGGACAAA
1 AGTGGTACTTCGGGACAAA
1044725 TATTCAGTGC
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.28
Consensus pattern (38 bp):
AGTGGTACTTCGGGACAAACAGTGGTCCTTCGAGACAT
Found at i:1044711 original size:18 final size:18
Alignment explanation
Indices: 1044630--1044722 Score: 69
Period size: 18 Copynumber: 4.9 Consensus size: 18
1044620 AGTGATTATC
*
1044630 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
* *
1044650 AGTTGTCCTTCGAGACAT
1 AGTGGTCCTTCGGGACAT
* * *
1044668 AGTGGTTCTTTGGAACAAT
1 AGTGGTCCTTCGGGAC-AT
*
1044687 CAGTGGTCTTTCGGGACAT
1 -AGTGGTCCTTCGGGACAT
**
1044706 AGTGGTAATTCGGGACA
1 AGTGGTCCTTCGGGACA
1044723 AATATTCAGT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
18 27 0.47
19 4 0.07
20 26 0.46
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:1045099 original size:4 final size:4
Alignment explanation
Indices: 1045087--1046943 Score: 3355
Period size: 4 Copynumber: 467.8 Consensus size: 4
1045077 ATGATAATGA
*
1045087 TATG CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1045135 TATG TATG TATG TATA TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045183 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045231 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045279 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045326 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045374 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
1045422 TATG TATG TATG TATG CATG TATG TATG TATG TATG CATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045470 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045518 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045566 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
1045614 TATG TATG TATG TACG TACG TACG TACG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
1045662 TATG TACG TACG TACG TACG TACG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045710 TATG TATG TATG TATG --TG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
1045756 TATG TATG TACG TATG TATG TATG TACG TATG TATG TATC TACG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1045804 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045852 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1045900 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
1045948 TATG TATG TATG TATG TATG CATG CATG CATG CATG CATG CATG CATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1045996 CATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046044 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046092 TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
1046139 TATG TATG TATG TATG -ATG CATG CATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046186 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046234 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046282 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046330 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046378 TATG TATG TATG TATG TATG --TG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046423 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046469 TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046516 TATG TATG TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046563 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
1046611 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATC TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046659 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046707 TATG TATG TATG TATG TA-G TATG TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046753 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046801 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046849 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1046897 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1046944 TTGTTACATG
Statistics
Matches: 1812, Mismatches: 27, Indels: 28
0.97 0.01 0.01
Matches are distributed among these distances:
2 6 0.00
3 24 0.01
4 1782 0.98
ACGTcount: A:0.25, C:0.02, G:0.25, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:1047950 original size:23 final size:23
Alignment explanation
Indices: 1047916--1048038 Score: 94
Period size: 23 Copynumber: 5.6 Consensus size: 23
1047906 ACCCGATGGA
1047916 TGCATCGATGCACATTCAAGGCG
1 TGCATCGATGCACATTCAAGGCG
* * *
1047939 TGCATCGGTGCACCTTC-ATG-G
1 TGCATCGATGCACATTCAAGGCG
*
1047960 TGTATCGATGCACATTCAAGGCG
1 TGCATCGATGCACATTCAAGGCG
** * * * *
1047983 TTTATCGGTGCTCCTTC-ATG-G
1 TGCATCGATGCACATTCAAGGCG
* * *
1048004 TGTATTGATGCACATTCAAGG-A
1 TGCATCGATGCACATTCAAGGCG
1048026 TGCATCGATGCAC
1 TGCATCGATGCAC
1048039 TGTTAGGTGT
Statistics
Matches: 76, Mismatches: 21, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
21 28 0.37
22 19 0.25
23 29 0.38
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCACATTCAAGGCG
Found at i:1047971 original size:21 final size:21
Alignment explanation
Indices: 1047919--1048057 Score: 93
Period size: 21 Copynumber: 6.4 Consensus size: 21
1047909 CGATGGATGC
*
1047919 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTC-AGG-GTGT
* * *
1047942 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAGGGTGT
*
1047963 ATCGATGCACATTCAAGGCGTTT
1 ATCGATGCACATTC-AGG-GTGT
* * * *
1047986 ATCGGTGCTCCTTCATGGTGT
1 ATCGATGCACATTCAGGGTGT
* * *
1048007 ATTGATGCACATTCAAGGATGC
1 ATCGATGCACATTC-AGGGTGT
*
1048029 ATCGATGCAC-TGTTA-GGTGT
1 ATCGATGCACAT-TCAGGGTGT
1048049 ATCGATGCA
1 ATCGATGCA
1048058 TGAAGCTCAA
Statistics
Matches: 88, Mismatches: 24, Indels: 11
0.72 0.20 0.09
Matches are distributed among these distances:
20 12 0.14
21 30 0.34
22 20 0.23
23 26 0.30
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (21 bp):
ATCGATGCACATTCAGGGTGT
Found at i:1047982 original size:44 final size:44
Alignment explanation
Indices: 1047919--1048057 Score: 185
Period size: 44 Copynumber: 3.2 Consensus size: 44
1047909 CGATGGATGC
1047919 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
** *
1047963 ATCGATGCACATTCAAGGCGTTTATCGGTGCTCCTTCATGGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
* * * *
1048007 ATTGATGCACATTCAAGG-ATGCATCGATGCA-CTGTTA-GGTGT
1 ATCGATGCACATTCAAGGCGTGCATCGGTGCACCT-TCATGGTGT
1048049 ATCGATGCA
1 ATCGATGCA
1048058 TGAAGCTCAA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 15 0.18
43 10 0.12
44 58 0.70
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGGTGCACCTTCATGGTGT
Found at i:1053905 original size:45 final size:46
Alignment explanation
Indices: 1053817--1053906 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
1053807 TTGAAAAAGC
* *
1053817 CTGAGTGCATCGATGCATAGTCTTGTGCATCAATGCATCAAATGCA
1 CTGAGTGCATCGATGCATAGTCATGTGCATCAATGCATAAAATGCA
* *
1053863 CTGAGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGC
1 CTGAGTGCATCGATGCATAGTCATGTGCATCAATGCATAAAATGC
1053907 CTTCGATGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 20 0.50
46 20 0.50
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATAGTCATGTGCATCAATGCATAAAATGCA
Found at i:1056577 original size:18 final size:18
Alignment explanation
Indices: 1056554--1056589 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1056544 ATACAACACA
1056554 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
1056572 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
1056590 ATATAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:1056587 original size:46 final size:46
Alignment explanation
Indices: 1056507--1056633 Score: 173
Period size: 46 Copynumber: 2.7 Consensus size: 46
1056497 GCGTAGAATT
*
1056507 TGTCCCGAAGGACCATGTAGATGTCCCGAAGGACCACATACAACACATA
1 TGTCCCGAAGGACCA-CT--ATGTCCCGAAGGACCACATACAACACATA
* *
1056556 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACATATAACATATA
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACCACATACAACACATA
* * *
1056602 TGTTCCAAATGACCACTATGTCCCGAAGGACC
1 TGTCCCGAAGGACCACTATGTCCCGAAGGACC
1056634 GCGTAGACCC
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 56 0.78
48 1 0.01
49 15 0.21
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (46 bp):
TGTCCCGAAGGACCACTATGTCCCGAAGGACCACATACAACACATA
Found at i:1059677 original size:23 final size:23
Alignment explanation
Indices: 1059651--1059775 Score: 92
Period size: 23 Copynumber: 5.4 Consensus size: 23
1059641 GGTTCTATAC
*
1059651 GGTCCTTAGGAATAAATCTACGT
1 GGTCCTTAGGAACAAATCTACGT
** *
1059674 GGT-CTTTCGAGACAAATCTATGT
1 GGTCCTTAGGA-ACAAATCTACGT
* *
1059697 GGTCCTTCGGGACAAATCTACGT
1 GGTCCTTAGGAACAAATCTACGT
* * ** *
1059720 GGTCCTTCGGGACATTTTTACGT
1 GGTCCTTAGGAACAAATCTACGT
* * *
1059743 GGTCCTTCGGGACAATAT-TATGT
1 GGTCCTTAGGAACAA-ATCTACGT
1059766 GGTCCTTAGG
1 GGTCCTTAGG
1059776 GACATTTCTA
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
22 5 0.06
23 74 0.88
24 5 0.06
ACGTcount: A:0.22, C:0.20, G:0.26, T:0.33
Consensus pattern (23 bp):
GGTCCTTAGGAACAAATCTACGT
Found at i:1059777 original size:23 final size:23
Alignment explanation
Indices: 1059664--1059779 Score: 144
Period size: 23 Copynumber: 5.0 Consensus size: 23
1059654 CCTTAGGAAT
* *
1059664 AAATCTACGTGGTCTTTCGAGAC
1 AAATCTACGTGGTCCTTCGGGAC
*
1059687 AAATCTATGTGGTCCTTCGGGAC
1 AAATCTACGTGGTCCTTCGGGAC
1059710 AAATCTACGTGGTCCTTCGGGAC
1 AAATCTACGTGGTCCTTCGGGAC
** *
1059733 ATTTTTACGTGGTCCTTCGGGAC
1 AAATCTACGTGGTCCTTCGGGAC
* *
1059756 AATAT-TATGTGGTCCTTAGGGAC
1 AA-ATCTACGTGGTCCTTCGGGAC
1059779 A
1 A
1059780 TTTCTATGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
23 80 0.99
24 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (23 bp):
AAATCTACGTGGTCCTTCGGGAC
Found at i:1060901 original size:11 final size:11
Alignment explanation
Indices: 1060885--1060938 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
1060875 CCCTAAACCC
1060885 TATGTATAATA
1 TATGTATAATA
*
1060896 TATGTATAATG
1 TATGTATAATA
*
1060907 TATGCATAAATA
1 TATGTAT-AATA
*
1060919 TAATGTATATTA
1 T-ATGTATAATA
*
1060931 TATATATA
1 TATGTATA
1060939 TACACACTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
11 22 0.63
12 8 0.23
13 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (11 bp):
TATGTATAATA
Found at i:1062121 original size:15 final size:15
Alignment explanation
Indices: 1062074--1062121 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
1062064 ATCGGTTTGA
*
1062074 TTGGGTTCATTTCGGT
1 TTGGG-TCATTTCGAT
* **
1062090 TCGGGTCATTTTAAT
1 TTGGGTCATTTCGAT
1062105 TTGGGTCATTTCGAT
1 TTGGGTCATTTCGAT
1062120 TT
1 TT
1062122 AGACTTAATT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.12, C:0.12, G:0.25, T:0.50
Consensus pattern (15 bp):
TTGGGTCATTTCGAT
Found at i:1062862 original size:24 final size:24
Alignment explanation
Indices: 1062818--1062891 Score: 82
Period size: 24 Copynumber: 3.1 Consensus size: 24
1062808 TAAATTATAA
*
1062818 ATAAAAATAGA-TATCTT-TGTATT
1 ATAAAAATAAATTAT-TTGTGTATT
1062841 GA-AAAAATAAATTATTTGTGTATT
1 -ATAAAAATAAATTATTTGTGTATT
* *
1062865 ATAAAAATAAATTATTTATATATT
1 ATAAAAATAAATTATTTGTGTATT
1062889 ATA
1 ATA
1062892 TTTAAATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 11 0.25
24 33 0.75
ACGTcount: A:0.49, C:0.01, G:0.07, T:0.43
Consensus pattern (24 bp):
ATAAAAATAAATTATTTGTGTATT
Found at i:1064879 original size:16 final size:15
Alignment explanation
Indices: 1064854--1064887 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
1064844 TTGATTTAAG
*
1064854 TATCAATTTTATTTT
1 TATCAATTTTATATT
1064869 TATCGAATTTTATATT
1 TATC-AATTTTATATT
1064885 TAT
1 TAT
1064888 GCTTAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (15 bp):
TATCAATTTTATATT
Found at i:1068151 original size:27 final size:25
Alignment explanation
Indices: 1068106--1068155 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
1068096 ATGTGTTTTA
*
1068106 TATGTTTATTGAATAATTATATGTAG
1 TATGTTTATTAAATAATTA-ATGTAG
*
1068132 TATGTGTTATTAAATTATTAATGT
1 TATGT-TTATTAAATAATTAATGT
1068156 TATTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (25 bp):
TATGTTTATTAAATAATTAATGTAG
Found at i:1068293 original size:21 final size:21
Alignment explanation
Indices: 1068260--1068313 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
1068250 AGCGATGGAG
* *
1068260 TTATTATTTTTTAATAAAATA
1 TTATAATTGTTTAATAAAATA
*
1068281 TTATAATTGTTT-ATTAAATA
1 TTATAATTGTTTAATAAAATA
1068301 TTATTAA-TGTTTA
1 TTA-TAATTGTTTA
1068314 TTTTATGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
TTATAATTGTTTAATAAAATA
Found at i:1068301 original size:20 final size:20
Alignment explanation
Indices: 1068276--1068315 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1068266 TTTTTTAATA
1068276 AAATATTA-TAATTGTTTATT
1 AAATATTATTAA-TGTTTATT
1068296 AAATATTATTAATGTTTATT
1 AAATATTATTAATGTTTATT
1068316 TTATGATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
AAATATTATTAATGTTTATT
Found at i:1070917 original size:20 final size:21
Alignment explanation
Indices: 1070880--1070939 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
1070870 ACGAACCGAT
*
1070880 ATCTCTTCTTCTTCTTTCTTTC
1 ATCTTTTC-TCTTCTTTCTTTC
*
1070902 -TCTTTTCTCTTATTTC-TTC
1 ATCTTTTCTCTTCTTTCTTTC
1070921 ATCTTTTCTCTTCTTTCTT
1 ATCTTTTCTCTTCTTTCTT
1070940 CTCCTCTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 3 0.09
20 23 0.70
21 7 0.21
ACGTcount: A:0.05, C:0.28, G:0.00, T:0.67
Consensus pattern (21 bp):
ATCTTTTCTCTTCTTTCTTTC
Found at i:1070940 original size:20 final size:19
Alignment explanation
Indices: 1070889--1070942 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 19
1070879 TATCTCTTCT
1070889 TCTTCTTTCTTTCTCTTTTC
1 TCTTCTTTC-TTCTCTTTTC
*
1070909 TCTTATTTCTTCATCTTTTC
1 TCTTCTTTCTTC-TCTTTTC
1070929 TCTTCTTTCTTCTC
1 TCTTCTTTCTTCTC
1070943 CTCTTCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 5 0.16
20 26 0.84
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.67
Consensus pattern (19 bp):
TCTTCTTTCTTCTCTTTTC
Found at i:1070949 original size:20 final size:20
Alignment explanation
Indices: 1070882--1070949 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
1070872 GAACCGATAT
1070882 CTCTTCTTCTTCTTTCTT-TC
1 CTCTTC-TCTTCTTTCTTCTC
* *
1070902 TCTTTTCTCTTATTTCTTCAT-
1 -CTCTTCTCTTCTTTCTTC-TC
*
1070923 CTTTTCTCTTCTTTCTTCTC
1 CTCTTCTCTTCTTTCTTCTC
1070943 CTCTTCT
1 CTCTTCT
1070950 TTTTTTTCAT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
19 1 0.03
20 33 0.82
21 5 0.12
22 1 0.03
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (20 bp):
CTCTTCTCTTCTTTCTTCTC
Found at i:1075697 original size:21 final size:21
Alignment explanation
Indices: 1075673--1075714 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1075663 TTTATTAATC
1075673 AATTTATTTAAATATTTAAAT
1 AATTTATTTAAATATTTAAAT
1075694 AATTTATTTAAATATTTAAAT
1 AATTTATTTAAATATTTAAAT
1075715 GATGTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTATTTAAATATTTAAAT
Found at i:1076590 original size:80 final size:78
Alignment explanation
Indices: 1076500--1076659 Score: 266
Period size: 80 Copynumber: 2.0 Consensus size: 78
1076490 TTTTAATGAA
1076500 AAAAAAAACACTAAGCTAATATGGGGTATGTTTCATTTTTCACTATTCCAACTTGATTAATATTA
1 AAAAAAAACACTAAGCTAATATGGGGTATGTTTCATTTTT-ACTATTCCAACTTG-TTAATATTA
1076565 TGATCAAATTGAAAG
64 TGATCAAATTGAAAG
* * *
1076580 AAAAAAAACACTCATCTAATATGGGGTATGTTTCATTTTTACTATTTCAACTTGTTAATATTATG
1 AAAAAAAACACTAAGCTAATATGGGGTATGTTTCATTTTTACTATTCCAACTTGTTAATATTATG
*
1076645 ATCAAATTGGAAG
66 ATCAAATTGAAAG
1076658 AA
1 AA
1076660 TGTTTAAATA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
78 25 0.33
79 13 0.17
80 38 0.50
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (78 bp):
AAAAAAAACACTAAGCTAATATGGGGTATGTTTCATTTTTACTATTCCAACTTGTTAATATTATG
ATCAAATTGAAAG
Found at i:1076851 original size:22 final size:23
Alignment explanation
Indices: 1076814--1076861 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
1076804 TGAATTACCA
*
1076814 TTAACCGAATTAACCAAATTTTTT
1 TTAACCG-ATTAACCAAACTTTTT
1076838 TTAACCG-TTAACCAAACTTTTT
1 TTAACCGATTAACCAAACTTTTT
1076860 TT
1 TT
1076862 CTTGAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
24 7 0.30
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (23 bp):
TTAACCGATTAACCAAACTTTTT
Found at i:1086940 original size:21 final size:21
Alignment explanation
Indices: 1086898--1086940 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1086888 CTCCTAAACC
*
1086898 CTTCAACTCCTTTGTAACATT
1 CTTCAACTCCTTTGCAACATT
*
1086919 CTTCAACTCCTTTGCAATATT
1 CTTCAACTCCTTTGCAACATT
1086940 C
1 C
1086941 ATTCTCGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (21 bp):
CTTCAACTCCTTTGCAACATT
Found at i:1094164 original size:39 final size:39
Alignment explanation
Indices: 1094101--1094179 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
1094091 TCGTTGATAG
*
1094101 AGCTGGTCTTGCCTGCCACGATTTACTTACTACCAGACT
1 AGCTGGTCTTGCCTGCCACAATTTACTTACTACCAGACT
*
1094140 AGCTGGTCTTGCCTGTCACAATTTACTTACTACCAGACT
1 AGCTGGTCTTGCCTGCCACAATTTACTTACTACCAGACT
1094179 A
1 A
1094180 TATTTATCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (39 bp):
AGCTGGTCTTGCCTGCCACAATTTACTTACTACCAGACT
Found at i:1094582 original size:45 final size:45
Alignment explanation
Indices: 1094532--1094621 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
1094522 TCAACATGAT
1094532 ACTTAAATCAAGCAAATCTAACTAATTGGAACGGGGGAAATCCCA
1 ACTTAAATCAAGCAAATCTAACTAATTGGAACGGGGGAAATCCCA
1094577 ACTTAAATCAAGCAAATCTAACTAATTGGAACGGGGGAAATCCCA
1 ACTTAAATCAAGCAAATCTAACTAATTGGAACGGGGGAAATCCCA
1094622 GAAAAGTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (45 bp):
ACTTAAATCAAGCAAATCTAACTAATTGGAACGGGGGAAATCCCA
Found at i:1098025 original size:21 final size:21
Alignment explanation
Indices: 1097999--1098043 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1097989 TAGTGTATGG
1097999 GTTAAGATTAGAGACTTACCA
1 GTTAAGATTAGAGACTTACCA
1098020 GTTAAGATTAGAGACTTACCA
1 GTTAAGATTAGAGACTTACCA
1098041 GTT
1 GTT
1098044 GAGTCCCGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (21 bp):
GTTAAGATTAGAGACTTACCA
Found at i:1099013 original size:7 final size:7
Alignment explanation
Indices: 1098998--1099034 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
1098988 CATAATTAGA
*
1098998 TTTATGG
1 TTTAGGG
1099005 TTTAGGG
1 TTTAGGG
1099012 TTTAGGG
1 TTTAGGG
1099019 TTTAGGG
1 TTTAGGG
1099026 TTTAGGG
1 TTTAGGG
1099033 TT
1 TT
1099035 CATTACAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.00, G:0.38, T:0.49
Consensus pattern (7 bp):
TTTAGGG
Found at i:1099188 original size:11 final size:11
Alignment explanation
Indices: 1099172--1099234 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1099162 GTATTATAGA
1099172 ATTTTTAATAT
1 ATTTTTAATAT
1099183 ATTTTTAA-A-
1 ATTTTTAATAT
1099192 ATTTTATAAT-T
1 ATTTT-TAATAT
*** * *
1099203 ATCAATAGTGT
1 ATTTTTAATAT
1099214 ATTTTTAATAT
1 ATTTTTAATAT
1099225 ATTTTTAATA
1 ATTTTTAATA
1099235 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 9, Indels: 8
0.70 0.16 0.14
Matches are distributed among these distances:
9 5 0.13
10 7 0.18
11 27 0.69
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:1104798 original size:23 final size:22
Alignment explanation
Indices: 1104752--1104876 Score: 129
Period size: 23 Copynumber: 5.8 Consensus size: 22
1104742 AACCCGACAA
1104752 GGGGTATCGATACC-ATT--AG
1 GGGGTATCGATACCTATTCAAG
1104771 GGGGTATCGATA-CTCATTCAAAG
1 GGGGTATCGATACCT-ATTC-AAG
*
1104794 AGGGTATCGATACCTATTCAA-
1 GGGGTATCGATACCTATTCAAG
*
1104815 TGGGTATCGATACCTATTCAAAG
1 GGGGTATCGATACCTATTC-AAG
*
1104838 GGGGTATCGATACCTGTATC-A-
1 GGGGTATCGATACCTAT-TCAAG
1104859 GGGGTATCGATACTCTAT
1 GGGGTATCGATAC-CTAT
1104877 GCACATAAAT
Statistics
Matches: 91, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.01
19 12 0.13
20 3 0.03
21 31 0.34
22 8 0.09
23 32 0.35
24 4 0.04
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (22 bp):
GGGGTATCGATACCTATTCAAG
Found at i:1104821 original size:21 final size:21
Alignment explanation
Indices: 1104749--1104876 Score: 138
Period size: 21 Copynumber: 6.0 Consensus size: 21
1104739 CCTAACCCGA
1104749 CAAGGGGTATCGATACC-ATT
1 CAAGGGGTATCGATACCTATT
*
1104769 -AGGGGGTATCGATA-CTCATT
1 CAAGGGGTATCGATACCT-ATT
1104789 CAAAGAGGGTATCGATACCTATT
1 C-AAG-GGGTATCGATACCTATT
*
1104812 CAATGGGTATCGATACCTATT
1 CAAGGGGTATCGATACCTATT
*
1104833 CAAAGGGGGTATCGATACCTGTAT
1 C-AA-GGGGTATCGATACCTAT-T
1104857 C-AGGGGTATCGATACTCTAT
1 CAAGGGGTATCGATAC-CTAT
1104877 GCACATAAAT
Statistics
Matches: 92, Mismatches: 6, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
18 1 0.01
19 13 0.14
20 3 0.03
21 31 0.34
22 10 0.11
23 30 0.33
24 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (21 bp):
CAAGGGGTATCGATACCTATT
Found at i:1104834 original size:44 final size:44
Alignment explanation
Indices: 1104753--1104876 Score: 157
Period size: 44 Copynumber: 2.8 Consensus size: 44
1104743 ACCCGACAAG
*
1104753 GGGTATCGATACC-ATT-AGGGGGTATCGATA-CTCATTCAAAGA
1 GGGTATCGATACCTATTCAAGGGGTATCGATACCT-ATTCAAAGA
* *
1104795 GGGTATCGATACCTATTCAATGGGTATCGATACCTATTCAAAGG
1 GGGTATCGATACCTATTCAAGGGGTATCGATACCTATTCAAAGA
*
1104839 GGGTATCGATACCTGTATC-AGGGGTATCGATACTCTAT
1 GGGTATCGATACCTAT-TCAAGGGGTATCGATAC-CTAT
1104877 GCACATAAAT
Statistics
Matches: 72, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
42 13 0.18
43 3 0.04
44 48 0.67
45 8 0.11
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (44 bp):
GGGTATCGATACCTATTCAAGGGGTATCGATACCTATTCAAAGA
Found at i:1108716 original size:22 final size:21
Alignment explanation
Indices: 1108674--1108713 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1108664 GAGTTTATTT
*
1108674 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1108695 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1108714 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1110658 original size:21 final size:20
Alignment explanation
Indices: 1110634--1110703 Score: 79
Period size: 22 Copynumber: 3.4 Consensus size: 20
1110624 AAATGCCTGA
*
1110634 GGGTATCGGTACCTAAGTAGG
1 GGGTATCGATACCTAA-TAGG
1110655 GGGTATCGATACC-ATATCATGG
1 GGGTATCGATACCTA-AT-A-GG
*
1110677 GGGTATCGATACCTACTAGG
1 GGGTATCGATACCTAATAGG
1110697 GGGTATC
1 GGGTATC
1110704 AGTACCATCC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
20 11 0.26
21 15 0.35
22 16 0.37
23 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (20 bp):
GGGTATCGATACCTAATAGG
Found at i:1119565 original size:35 final size:34
Alignment explanation
Indices: 1119500--1119611 Score: 135
Period size: 32 Copynumber: 3.4 Consensus size: 34
1119490 AATCACCAGC
1119500 ATAATAATAATACC--AGAGAGTAAAATCAGCATT
1 ATAATAATAATACCTGAGAGAGTAAAATCAGCA-T
* * *
1119533 ATAATAATAATACCTGAAAGAGTCAAAGCAGC--
1 ATAATAATAATACCTGAGAGAGTAAAATCAGCAT
1119565 ATAATAATAATACCTGAGAGAGTAAAATCAGCAT
1 ATAATAATAATACCTGAGAGAGTAAAATCAGCAT
1119599 CA-AATAAATAATA
1 -ATAAT-AATAATA
1119612 ATATTGTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
32 29 0.43
33 14 0.21
34 3 0.04
35 21 0.31
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.22
Consensus pattern (34 bp):
ATAATAATAATACCTGAGAGAGTAAAATCAGCAT
Found at i:1119574 original size:32 final size:32
Alignment explanation
Indices: 1119496--1119598 Score: 138
Period size: 32 Copynumber: 3.2 Consensus size: 32
1119486 GAAAAATCAC
1119496 CAGCATAATAATAATACC--AGAGAGTAAAAT
1 CAGCATAATAATAATACCTGAGAGAGTAAAAT
* * *
1119526 CAGCATTATAATAATAATACCTGAAAGAGTCAAAG
1 CAGC---ATAATAATAATACCTGAGAGAGTAAAAT
1119561 CAGCATAATAATAATACCTGAGAGAGTAAAAT
1 CAGCATAATAATAATACCTGAGAGAGTAAAAT
1119593 CAGCAT
1 CAGCAT
1119599 CAAATAAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
30 4 0.06
32 31 0.50
33 14 0.23
35 13 0.21
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (32 bp):
CAGCATAATAATAATACCTGAGAGAGTAAAAT
Found at i:1121911 original size:132 final size:129
Alignment explanation
Indices: 1121665--1121925 Score: 301
Period size: 132 Copynumber: 2.0 Consensus size: 129
1121655 AATTACTTTC
* * * *
1121665 CCATTATTTTCAGATGGACTATGATCATATAAACCAGGAATTTGATGAGAAGCATTAGCTATTAA
1 CCATTATTTTCAGATGGACCATGATCATATAAACCAGGAATTTGATGAGAAGAATTACCTATAAA
** * *
1121730 ACTATATAAATGAAAACAGATTAGTTAACTGCGTACATGGAAATTTCACATATTTCACCATCCA
66 ACTATATAAATGAAAACAGATTAGTTAACCACATACATGGAAATCTCACATATTTCACCATCCA
* * * *
1121794 CCATTATTTTCAGATGGACCATGGTCATATAAATCA-GCATTTGATGATGGGATGAATTACCTAT
1 CCATTATTTTCAGATGGACCATGATCATATAAACCAGGAATTTGATGA---GAAGAATTACCTAT
** * * * *
1121858 AAAAACTATATGCATGGAAATC-GATTAGTTAACCATATACTTGGAAATCTCACATATTTCATCA
63 -AAAACTATATAAAT-GAAAACAGATTAGTTAACCACATACATGGAAATCTCACATATTTCACCA
1121922 TCCA
126 TCCA
1121926 TAAGCCAAAT
Statistics
Matches: 109, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
128 10 0.09
129 33 0.30
131 11 0.10
132 50 0.46
133 5 0.05
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (129 bp):
CCATTATTTTCAGATGGACCATGATCATATAAACCAGGAATTTGATGAGAAGAATTACCTATAAA
ACTATATAAATGAAAACAGATTAGTTAACCACATACATGGAAATCTCACATATTTCACCATCCA
Found at i:1124171 original size:30 final size:30
Alignment explanation
Indices: 1124122--1124188 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
1124112 TCATTAATTA
1124122 TTATTTTTTAACAACAATTAATAATGTT-TAT
1 TTATTTTTTAACAACAATTAA-AAT-TTATAT
*
1124153 TTATTTTTTAATAA-AATTAAAATTTAATAT
1 TTATTTTTTAACAACAATTAAAATTT-ATAT
1124183 TTATTT
1 TTATTT
1124189 AATATTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 2 0.06
29 3 0.09
30 15 0.45
31 13 0.39
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.55
Consensus pattern (30 bp):
TTATTTTTTAACAACAATTAAAATTTATAT
Found at i:1124178 original size:27 final size:29
Alignment explanation
Indices: 1124119--1124192 Score: 82
Period size: 31 Copynumber: 2.6 Consensus size: 29
1124109 TATTCATTAA
*
1124119 TTATTATTTTTTAACAACAATTAATAATGT
1 TTATTATTTTTTAATAACAATTAATAA-GT
1124149 TTATTTATTTTTTAATAA-AATTAA-AA-T
1 TTA-TTATTTTTTAATAACAATTAATAAGT
*
1124176 TTAATATTTATTTAATA
1 TTATTATTT-TTTAATA
1124193 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.12
27 11 0.28
29 2 0.05
30 9 0.22
31 13 0.32
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (29 bp):
TTATTATTTTTTAATAACAATTAATAAGT
Found at i:1124290 original size:11 final size:10
Alignment explanation
Indices: 1124255--1124317 Score: 56
Period size: 10 Copynumber: 6.1 Consensus size: 10
1124245 TTAGCTTTAC
1124255 ATTCTATTTTT
1 ATTC-ATTTTT
* *
1124266 ATTGAATTTT
1 ATTCATTTTT
1124276 ATTCATTTTT
1 ATTCATTTTT
1124286 AATTC-TTTTT
1 -ATTCATTTTT
*
1124296 ATAGCATTTTT
1 AT-TCATTTTT
*
1124307 ATTGATTTTT
1 ATTCATTTTT
1124317 A
1 A
1124318 AAAAAATGAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 26 0.62
11 14 0.33
ACGTcount: A:0.24, C:0.06, G:0.05, T:0.65
Consensus pattern (10 bp):
ATTCATTTTT
Found at i:1124315 original size:21 final size:20
Alignment explanation
Indices: 1124260--1124317 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
1124250 TTTACATTCT
* *
1124260 ATTTTTATTGAATTTTATTC
1 ATTTTTATTGATTTTTATGC
*
1124280 ATTTTTAATT-CTTTTTATAGC
1 ATTTTT-ATTGATTTTTAT-GC
1124301 ATTTTTATTGATTTTTA
1 ATTTTTATTGATTTTTA
1124318 AAAAAATGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (20 bp):
ATTTTTATTGATTTTTATGC
Found at i:1125575 original size:3 final size:3
Alignment explanation
Indices: 1125567--1125644 Score: 126
Period size: 3 Copynumber: 27.0 Consensus size: 3
1125557 GGGTTCTAAT
*
1125567 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1125615 TTA TTA TTA TTA TTA TT- TTA TT- TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1125645 ATTACATATT
Statistics
Matches: 70, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
2 6 0.09
3 64 0.91
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1127110 original size:2 final size:2
Alignment explanation
Indices: 1127103--1127153 Score: 63
Period size: 2 Copynumber: 27.0 Consensus size: 2
1127093 AAAAGAATGC
* *
1127103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT -T TT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1127143 AT AT AT -T AT AT
1 AT AT AT AT AT AT
1127154 GTATTATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
1 3 0.07
2 40 0.93
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (2 bp):
AT
Found at i:1127167 original size:18 final size:18
Alignment explanation
Indices: 1127114--1127169 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 18
1127104 TATATATATA
*
1127114 TATATATATATATATATTAT
1 TATATGTAT-TAT-TATTAT
*
1127134 TTTATGTA-TA-TA-TAT
1 TATATGTATTATTATTAT
1127149 TATATGTATTATTATTAT
1 TATATGTATTATTATTAT
1127167 TAT
1 TAT
1127170 TAACAAACAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 10 0.33
16 4 0.13
17 2 0.07
18 8 0.27
20 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (18 bp):
TATATGTATTATTATTAT
Found at i:1127170 original size:9 final size:10
Alignment explanation
Indices: 1127103--1127171 Score: 51
Period size: 9 Copynumber: 7.1 Consensus size: 10
1127093 AAAAGAATGC
1127103 ATATA-TATAT
1 ATATATTAT-T
1127113 ATATATATATAT
1 ATATAT-TAT-T
1127125 ATATATTATT
1 ATATATTATT
1127135 -T-TATGTA-T
1 ATATAT-TATT
1127143 ATATATTA-T
1 ATATATTATT
*
1127152 ATGTATTATT
1 ATATATTATT
1127162 AT-TATTATT
1 ATATATTATT
1127171 A
1 A
1127172 ACAAACATTT
Statistics
Matches: 52, Mismatches: 1, Indels: 13
0.79 0.02 0.20
Matches are distributed among these distances:
8 4 0.08
9 22 0.42
10 12 0.23
11 3 0.06
12 11 0.21
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
ATATATTATT
Found at i:1128301 original size:19 final size:19
Alignment explanation
Indices: 1128232--1128306 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
1128222 TTTTTTTTCT
*
1128232 TATTT-TTAT-TTATTTAAA
1 TATTTATTATATTA-TTACA
*
1128250 TATTATATTTTATTATTACA
1 TATT-TATTATATTATTACA
*
1128270 TATTTTTTATATTATT-CA
1 TATTTATTATATTATTACA
* *
1128288 TATATTATTCTATTTTTAC
1 TAT-TTATTATATTATTAC
1128307 TTTCTCTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
18 9 0.20
19 21 0.47
20 12 0.27
21 3 0.07
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTATTATATTATTACA
Found at i:1128503 original size:12 final size:13
Alignment explanation
Indices: 1128476--1128518 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1128466 ATATTTTATA
* *
1128476 ATTTTATATATAT
1 ATTTTCTATATTT
*
1128489 ATTTT-TCTATTT
1 ATTTTCTATATTT
1128501 ATTTTCTATATTT
1 ATTTTCTATATTT
1128514 ATTTT
1 ATTTT
1128519 ATTATTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTCTATATTT
Found at i:1128510 original size:21 final size:20
Alignment explanation
Indices: 1128486--1128543 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
1128476 ATTTTATATA
1128486 TATATTTTTCTATTTATTTTC
1 TATATTTTT-TATTTATTTTC
1128507 TATATTTATTT-TATTATTTTC
1 TATATTT-TTTAT-TTATTTTC
1128528 -AGT-TTTTTTATTTATT
1 TA-TATTTTTTATTTATT
1128544 ACTATTATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
19 8 0.24
20 6 0.18
21 17 0.52
22 2 0.06
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (20 bp):
TATATTTTTTATTTATTTTC
Found at i:1128623 original size:18 final size:16
Alignment explanation
Indices: 1128588--1128633 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
1128578 TCTTTTGTCT
1128588 TTATTATTAT--TATTA
1 TTATTATTATACT-TTA
1128603 TTATATATATATACTTTA
1 TTAT-TAT-TATACTTTA
1128621 TTATTATTATACT
1 TTATTATTATACT
1128634 ACCTACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.15
16 9 0.33
17 6 0.22
18 7 0.26
19 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTATTATACTTTA
Found at i:1128773 original size:19 final size:19
Alignment explanation
Indices: 1128751--1128803 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
1128741 GTATATATGC
1128751 TTTTATTTTATTTAATTCA
1 TTTTATTTTATTTAATTCA
* *
1128770 TTTTATCTTATTT-TTTCA
1 TTTTATTTTATTTAATTCA
1128788 TTTCTATTTTCATTTA
1 TTT-TATTTT-ATTTA
1128804 GTTATTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 7 0.25
19 17 0.61
20 4 0.14
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTATTTTATTTAATTCA
Found at i:1133024 original size:100 final size:99
Alignment explanation
Indices: 1132841--1133110 Score: 366
Period size: 100 Copynumber: 2.7 Consensus size: 99
1132831 ATATTATATA
* * * *
1132841 TATATATATATATACAATAAAGCTTGAA-TTGTCCCTATAAAGAAATTGGTTAAACGCCCCGACT
1 TATA-ATATCTATACAATAAAGCTT-AAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACT
*
1132905 TTATGGAAAAGATTCAGCTAAGCCTGATAAAGGTGAT
64 TTATGGATAAGATTCAGCT-AGCCTGATAAAGGTGAT
*
1132942 TATAATATCTATACAATAAAGCTTAAGTTGGCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTT
1 TATAATATCTATACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTT
* *
1133007 ATGGATAATATTTAGCTAGCCTGATAAAGGTGAT
66 ATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
* * * * *
1133041 TATAATATCTATACAATGATA--TTATGTTGTCCCTCTAGAGCAATTAGTTAAACACCCCGGCTT
1 TATAATATCTATACAAT-AAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTT
1133104 TATGGAT
65 TATGGAT
1133111 TCAGCTGGCC
Statistics
Matches: 153, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
98 44 0.29
99 36 0.24
100 69 0.45
101 4 0.03
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (99 bp):
TATAATATCTATACAATAAAGCTTAAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGACTTT
ATGGATAAGATTCAGCTAGCCTGATAAAGGTGAT
Found at i:1134842 original size:20 final size:20
Alignment explanation
Indices: 1134825--1134869 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1134815 CACAGATGTG
*
1134825 CCAATTCATGCATCGATGCA
1 CCAATCCATGCATCGATGCA
1134845 CCAATCCATGCATCGATGCA
1 CCAATCCATGCATCGATGCA
1134865 CCAAT
1 CCAAT
1134870 GAATAAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.33, G:0.13, T:0.22
Consensus pattern (20 bp):
CCAATCCATGCATCGATGCA
Found at i:1134949 original size:65 final size:64
Alignment explanation
Indices: 1134880--1135041 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 64
1134870 GAATAAATTG
* * * ** * *
1134880 AACATCAAATGCAGTTTATGCATCGATGCACTCTCCATGGATCGATGCACTCAGGTTTTAATGAA
1 AACATCAAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGG-CTTAATCAA
* * * * *
1134945 AACATCTATTGCATTTTATGCATCGATGCACACACCATACATCGATGCAGTTAGGCTTATTCAA
1 AACATCAAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGCTTAATCAA
* *
1135009 AACAACGAATGCATTTTATGCATCGATGCACAC
1 AACATCAAATGCATTTTATGCATCGATGCACAC
1135042 TTAATGCTCC
Statistics
Matches: 82, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
64 36 0.44
65 46 0.56
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (64 bp):
AACATCAAATGCATTTTATGCATCGATGCACACACCATACATCGATGCACTCAGGCTTAATCAA
Found at i:1135607 original size:33 final size:33
Alignment explanation
Indices: 1135565--1135627 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
1135555 CCTCAAAAGA
*
1135565 AAGAAAAAATTAGTGAATTTGTTGGAAAATCCT
1 AAGAAAAAATTAGTGAATTTATTGGAAAATCCT
1135598 AAGAAAAAATTAGTGAATTTATTGGAAAAT
1 AAGAAAAAATTAGTGAATTTATTGGAAAAT
1135628 TCTTAGTGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.49, C:0.03, G:0.17, T:0.30
Consensus pattern (33 bp):
AAGAAAAAATTAGTGAATTTATTGGAAAATCCT
Found at i:1139440 original size:32 final size:32
Alignment explanation
Indices: 1139399--1139488 Score: 112
Period size: 32 Copynumber: 2.8 Consensus size: 32
1139389 AGTCGAGGGT
*
1139399 TTACCTATGTTCTACGGAACATATGGACATAA
1 TTACCTATGTTCTAAGGAACATATGGACATAA
*** *
1139431 TTACCTATG-TCTTTTGAGACATATGGACATTA
1 TTACCTATGTTCTAAGGA-ACATATGGACATAA
1139463 -TACCTATGTTCTAAGGAACATATGGA
1 TTACCTATGTTCTAAGGAACATATGGA
1139489 TAGTTTACCT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
31 22 0.45
32 27 0.55
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (32 bp):
TTACCTATGTTCTAAGGAACATATGGACATAA
Found at i:1139484 original size:31 final size:31
Alignment explanation
Indices: 1139400--1139505 Score: 108
Period size: 31 Copynumber: 3.4 Consensus size: 31
1139390 GTCGAGGGTT
* *
1139400 TACCTATGTTCTACGGAACATATGGACATAA
1 TACCTATGTTCTAAGGAACATATGGACATTA
***
1139431 TTACCTATG-TCTTTTGAGACATATGGACATTA
1 -TACCTATGTTCTAAGGA-ACATATGGACATTA
*
1139463 TACCTATGTTCTAAGGAACATATGGATAGTT-
1 TACCTATGTTCTAAGGAACATATGGACA-TTA
*
1139494 TACCTAGGTTCT
1 TACCTATGTTCT
1139506 TCGGGACCTA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
31 34 0.55
32 28 0.45
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACATTA
Found at i:1143179 original size:20 final size:22
Alignment explanation
Indices: 1143134--1143191 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
1143124 GCATGGGTAG
1143134 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
1143158 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
1143178 TGTATCGATGCACT
1 TGCATCGATGCACT
1143192 TCAAGTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:1144214 original size:32 final size:32
Alignment explanation
Indices: 1144173--1144297 Score: 132
Period size: 31 Copynumber: 4.0 Consensus size: 32
1144163 AGTCGAGGGT
1144173 TTACCTATGTTCTACGGAACATATGGACA-TAA
1 TTACCTATGTTCTACGGAACATATGGACAGT-A
***
1144205 TTACCTATG-TCTTTTGAGACATATGGACAGTA
1 TTACCTATGTTCTACGGA-ACATATGGACAGTA
*
1144237 -TACCTATGTTCTAAGGAACATATGGACAGT-
1 TTACCTATGTTCTACGGAACATATGGACAGTA
* * * *
1144267 TTACCTAGGTTCTTCGGGACCTATGGACAGT
1 TTACCTATGTTCTACGGAACATATGGACAGT
1144298 TGCCGAGGTT
Statistics
Matches: 78, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
31 51 0.65
32 26 0.33
33 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAGTA
Found at i:1151212 original size:20 final size:20
Alignment explanation
Indices: 1151183--1151220 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1151173 TTTCAAAGGA
1151183 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
1151203 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
1151221 AAATAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:1151275 original size:19 final size:19
Alignment explanation
Indices: 1151251--1151358 Score: 207
Period size: 19 Copynumber: 5.7 Consensus size: 19
1151241 GCAGTTTATT
1151251 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
1151270 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
1151289 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
1151308 CATCGATGCACTCTCCATG
1 CATCGATGCACTCTCCATG
*
1151327 CATCGATGCACTCTCCATA
1 CATCGATGCACTCTCCATG
1151346 CATCGATGCACTC
1 CATCGATGCACTC
1151359 AGGTTTAATG
Statistics
Matches: 88, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
19 88 1.00
ACGTcount: A:0.22, C:0.37, G:0.15, T:0.26
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:1151475 original size:64 final size:64
Alignment explanation
Indices: 1151324--1151485 Score: 209
Period size: 64 Copynumber: 2.5 Consensus size: 64
1151314 TGCACTCTCC
* * * *
1151324 ATGCATCGATGCACTCTCCATACATCGATGCACTCAGGTTTAATGAAAACATCGATTGCATTTT
1 ATGCATCGATGCACACTCCATGCATCGATGCACTCAGGCTTAATCAAAACATCGATTGCATTTT
* * * *
1151388 ATGCATCGATGCACACACCATGCATCGATGCACTTAGGCTTATTCAAAATATCGAATT-CATTTT
1 ATGCATCGATGCACACTCCATGCATCGATGCACTCAGGCTTAATCAAAACATCG-ATTGCATTTT
** *
1151452 ATGCATCGATGCACACTTAATGCACCGATGCACT
1 ATGCATCGATGCACACTCCATGCATCGATGCACT
1151486 AAGTGTTCCA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 82 0.96
65 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (64 bp):
ATGCATCGATGCACACTCCATGCATCGATGCACTCAGGCTTAATCAAAACATCGATTGCATTTT
Found at i:1153020 original size:2 final size:2
Alignment explanation
Indices: 1153013--1153050 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
1153003 AAAAGAATGC
*
1153013 AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1153051 GTATTATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1153064 original size:9 final size:10
Alignment explanation
Indices: 1153016--1153065 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
1153006 AGAATGCATA
1153016 TATATATATAT
1 TATATAT-TAT
1153027 ATATATATTAT
1 -TATATATTAT
1153038 GTATATATTA-
1 -TATATATTAT
*
1153048 TATGTATTAT
1 TATATATTAT
1153058 TAT-TATTA
1 TATATATTA
1153066 ACAAACATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 13 0.37
10 3 0.09
11 12 0.34
12 7 0.20
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (10 bp):
TATATATTAT
Found at i:1154365 original size:18 final size:20
Alignment explanation
Indices: 1154344--1154402 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 20
1154334 CTTATTTTTA
1154344 TTTATT-TAAATAT-TATAT
1 TTTATTATAAATATATATAT
*
1154362 TTTATTATATATATATATA-
1 TTTATTATAAATATATATAT
* *
1154381 TATA-TATATATATATATTAT
1 TTTATTATAAATATATA-TAT
1154401 TT
1 TT
1154403 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 18 0.53
19 11 0.32
20 5 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATTATAAATATATATAT
Found at i:1154367 original size:5 final size:5
Alignment explanation
Indices: 1154353--1154420 Score: 51
Period size: 4 Copynumber: 14.4 Consensus size: 5
1154343 ATTTATTTAA
*
1154353 ATATT ATATT TTATT ATA-T ATA-T ATATAT ATATAT ATATAT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATAT-T ATAT-T ATAT-T ATATT
1154399 AT-TT AT-TT AT-TT -T-TT ATATT AT
1 ATATT ATATT ATATT ATATT ATATT AT
1154421 TCATATATTA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
3 3 0.05
4 19 0.33
5 18 0.32
6 17 0.30
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
ATATT
Found at i:1154374 original size:2 final size:2
Alignment explanation
Indices: 1154367--1154397 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1154357 TATATTTTAT
1154367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1154398 TATTTATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1154414 original size:11 final size:12
Alignment explanation
Indices: 1154353--1154421 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 12
1154343 ATTTATTTAA
1154353 ATATTA-TATTT
1 ATATTATTATTT
*
1154364 -TATTATATATAT
1 ATATTAT-TATTT
*
1154376 ATATATATATATAT
1 ATAT-TAT-TATTT
1154390 ATATATATTATTT
1 ATAT-TATTATTT
*
1154403 AT-TTATTTTTT
1 ATATTATTATTT
1154414 ATATTATT
1 ATATTATT
1154422 CATATATTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
10 5 0.10
11 9 0.18
12 10 0.20
13 9 0.18
14 17 0.34
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTATTATTT
Found at i:1154621 original size:23 final size:22
Alignment explanation
Indices: 1154595--1154639 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1154585 TAATTATATA
1154595 TATATATATTTCTATTTATTTTC
1 TATATATATTTCTA-TTATTTTC
* *
1154618 TATATATTTTTTTATTATTTTC
1 TATATATATTTCTATTATTTTC
1154640 AATTTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (22 bp):
TATATATATTTCTATTATTTTC
Found at i:1154638 original size:22 final size:22
Alignment explanation
Indices: 1154595--1154656 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
1154585 TAATTATATA
* *
1154595 TATATATATTTCTATTTATTTTC
1 TATATATTTTTTTA-TTATTTTC
1154618 TATATATTTTTTTATTATTTTC
1 TATATATTTTTTTATTATTTTC
* *
1154640 AAT-TTTTTTATTTATTA
1 TATATATTTT-TTTATTA
1154657 CTATTATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 5 0.15
22 17 0.50
23 12 0.35
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TATATATTTTTTTATTATTTTC
Found at i:1154892 original size:22 final size:21
Alignment explanation
Indices: 1154837--1154896 Score: 59
Period size: 25 Copynumber: 2.6 Consensus size: 21
1154827 ATTAAATTTG
1154837 TTTATTTTTATTATGTATATATGCT
1 TTTATTTTTATT-T-T-T-TATGCT
1154862 TTTATTTTTCATTTTTTATGTCT
1 TTTATTTTT-ATTTTTTATG-CT
1154885 TTTA-TTTTATTT
1 TTTATTTTTATTT
1154897 AATTCATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
21 4 0.12
22 8 0.24
23 7 0.21
24 1 0.03
25 10 0.30
26 3 0.09
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTATTTTTATTTTTTATGCT
Found at i:1154908 original size:19 final size:18
Alignment explanation
Indices: 1154884--1154935 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
1154874 TTTTTATGTC
1154884 TTTTATTTTATTTAATTCA
1 TTTTATTTTATTT-ATTCA
*
1154903 TTTTATCTTATTT-TTCA
1 TTTTATTTTATTTATTCA
1154920 TTTCTATTTTTATTTA
1 TTT-TA-TTTTATTTA
1154936 GTTATTTTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 7 0.25
18 2 0.07
19 19 0.68
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTTATTTATTCA
Found at i:1154998 original size:20 final size:20
Alignment explanation
Indices: 1154970--1155016 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
1154960 TTTTTATCCC
* *
1154970 CTTTATTTTCTTTTCATTTAT
1 CTTTCTTTT-TTTACATTTAT
*
1154991 -TTTCTTTTTTTACCTTTAT
1 CTTTCTTTTTTTACATTTAT
1155010 CTTTCTT
1 CTTTCTT
1155017 ATTTCATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.72
Consensus pattern (20 bp):
CTTTCTTTTTTTACATTTAT
Found at i:1155077 original size:22 final size:23
Alignment explanation
Indices: 1155056--1155099 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 23
1155046 TATTCATTTC
1155056 CTTAAATTTA-TTTATTT-TTTT
1 CTTAAATTTATTTTATTTGTTTT
* *
1155077 CTTTATTTTATTTTATTTGTTTT
1 CTTAAATTTATTTTATTTGTTTT
1155100 TTTGTTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 7 0.37
23 4 0.21
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (23 bp):
CTTAAATTTATTTTATTTGTTTT
Found at i:1155131 original size:19 final size:20
Alignment explanation
Indices: 1155073--1155156 Score: 61
Period size: 19 Copynumber: 4.3 Consensus size: 20
1155063 TTATTTATTT
* *
1155073 TTTTCTTTATTTT-ATTTTA
1 TTTTATTTATTTTAATCTTA
*
1155092 TTTGT-TTTTTTGTTAATCTTAA
1 TTT-TATTTATT-TTAATCTT-A
*
1155114 TTTT-TTTCTTTTAA-CTTA
1 TTTTATTTATTTTAATCTTA
*
1155132 TTTTATTTATTTT-ATTTTA
1 TTTTATTTATTTTAATCTTA
1155151 TTTTAT
1 TTTTAT
1155157 GTCCTTTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.11
19 27 0.50
20 7 0.13
21 10 0.19
22 4 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (20 bp):
TTTTATTTATTTTAATCTTA
Found at i:1155172 original size:5 final size:5
Alignment explanation
Indices: 1155078--1155156 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
1155068 TATTTTTTTC
* * *
1155078 TTTAT TTTAT TTTAT TTGT-T TTT-T TGTTAAT CTTAA TTT-T TTTCT
1 TTTAT TTTAT TTTAT TT-TAT TTTAT T-TT-AT TTTAT TTTAT TTTAT
* *
1155123 TTTAA CTTAT TTTA- TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
1155157 GTCCTTTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
4 10 0.17
5 45 0.76
6 3 0.05
7 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTAT
Found at i:1156739 original size:21 final size:21
Alignment explanation
Indices: 1156682--1156732 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
1156672 GGGCTTGATA
1156682 GTATCGATACTACTGTTCACG
1 GTATCGATACTACTGTTCACG
*
1156703 GTATCGATACTACTGTTCATG
1 GTATCGATACTACTGTTCACG
1156724 GTATCGATA
1 GTATCGATA
1156733 TTGCTGTAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (21 bp):
GTATCGATACTACTGTTCACG
Found at i:1156814 original size:21 final size:21
Alignment explanation
Indices: 1156790--1156837 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1156780 GCATCGGTAC
*
1156790 TGTTCATGCTATCAATACTAT
1 TGTTCATGCTATCAATACAAT
*
1156811 TGTTCATGGTATCAATACAAT
1 TGTTCATGCTATCAATACAAT
1156832 TGTTCA
1 TGTTCA
1156838 CACAGTATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
TGTTCATGCTATCAATACAAT
Found at i:1158252 original size:19 final size:19
Alignment explanation
Indices: 1158205--1158252 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
1158195 ATAAATCATT
**
1158205 TTTCAAAATTTAATTTTGA
1 TTTCAAAATCAAATTTTGA
*
1158224 TTTCCAAAATCAAATTTTGC
1 TTT-CAAAATCAAATTTTGA
1158244 TTTCAAAAT
1 TTTCAAAAT
1158253 AAACTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTCAAAATCAAATTTTGA
Found at i:1158784 original size:19 final size:19
Alignment explanation
Indices: 1158754--1158804 Score: 93
Period size: 19 Copynumber: 2.6 Consensus size: 19
1158744 TTCTTGTTTT
1158754 TCTTCTCTTCACCTTCTTCC
1 TCTTC-CTTCACCTTCTTCC
1158774 TCTTCCTTCACCTTCTTCC
1 TCTTCCTTCACCTTCTTCC
1158793 TCTTCCTTCACC
1 TCTTCCTTCACC
1158805 ATCAACTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (19 bp):
TCTTCCTTCACCTTCTTCC
Found at i:1160226 original size:21 final size:21
Alignment explanation
Indices: 1160187--1160244 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1160177 GGGCTTGATA
***
1160187 GTATCGATACTACCATTCATG
1 GTATCGATACTATTGTTCATG
1160208 GTAGT-GATACTATTGTTCATG
1 GTA-TCGATACTATTGTTCATG
1160229 GTATCGATACTATTGT
1 GTATCGATACTATTGT
1160245 AGCAGTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (21 bp):
GTATCGATACTATTGTTCATG
Done.