Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_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: 2005044
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 9
Found at i:1332815 original size:2 final size:2
Alignment explanation
Indices: 1332808--1332857 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1332798 GATGGGGGTA
1332808 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
1332850 AT AT AT AT
1 AT AT AT AT
1332858 GTTTTAAAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1334027 original size:23 final size:25
Alignment explanation
Indices: 1334015--1334069 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
1334005 AATACTTTTA
1334015 TATT-AAT-ATTTTTAATTTTTAAT
1 TATTAAATAATTTTTAATTTTTAAT
1334038 TATTAAATAATTTTTAATTTTTAAT
1 TATTAAATAATTTTTAATTTTTAAT
1334063 TATTAAA
1 TATTAAA
1334070 AAAGTAGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 4 0.13
24 3 0.10
25 23 0.77
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTAAATAATTTTTAATTTTTAAT
Found at i:1334050 original size:18 final size:18
Alignment explanation
Indices: 1334027--1334061 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1334017 TTAATATTTT
1334027 TAATTTTTAATTATTAAA
1 TAATTTTTAATTATTAAA
*
1334045 TAATTTTTAATTTTTAA
1 TAATTTTTAATTATTAA
1334062 TTATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTTTTAATTATTAAA
Found at i:1335266 original size:31 final size:31
Alignment explanation
Indices: 1335231--1335307 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 31
1335221 GAAAAAATTA
* *
1335231 ATGATCATTTTATAAAAATTTAATAAATTTG
1 ATGATCATCTTATAAAAATCTAATAAATTTG
* * * *
1335262 ATGATTATCTTATAATAATCTGATAAATTTA
1 ATGATCATCTTATAAAAATCTAATAAATTTG
* *
1335293 ATTATCAACTTATAA
1 ATGATCATCTTATAA
1335308 CTTTTAAAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.44
Consensus pattern (31 bp):
ATGATCATCTTATAAAAATCTAATAAATTTG
Found at i:1344008 original size:21 final size:21
Alignment explanation
Indices: 1343984--1344026 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1343974 TATTTAAATT
*
1343984 AATTAATATATAACAAACATA
1 AATTAATAAATAACAAACATA
* *
1344005 AATTTATAAATATCAAACATA
1 AATTAATAAATAACAAACATA
1344026 A
1 A
1344027 TATCAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTAATAAATAACAAACATA
Found at i:1344041 original size:2 final size:2
Alignment explanation
Indices: 1344034--1344073 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1344024 TAATATCAAA
1344034 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
1344074 TAAATCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1345809 original size:59 final size:58
Alignment explanation
Indices: 1345733--1345878 Score: 172
Period size: 59 Copynumber: 2.5 Consensus size: 58
1345723 AACATAATGA
* * *
1345733 ATAGTTAAGTGACCATTTTGTAACTTTAATAGTT-GATGGACTCAACAAAAT-AATATCCT
1 ATAGTTAAGAGATCATTTTGTAACTTTAATAGTTGGA--GACTCAAC-AAATCAAGATCCT
*
1345792 ATAGTTAAGAGATCATTTTGTAACTTTTAATAGTTGGAGACTCAACAAATCAAGATCTT
1 ATAGTTAAGAGATCATTTTGTAAC-TTTAATAGTTGGAGACTCAACAAATCAAGATCCT
* *
1345851 ATAGTTGAGATATCATTTATGT-ACTTTA
1 ATAGTTAAGAGATCATTT-TGTAACTTTA
1345879 CCCATCAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
58 8 0.10
59 54 0.70
60 13 0.17
61 2 0.03
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (58 bp):
ATAGTTAAGAGATCATTTTGTAACTTTAATAGTTGGAGACTCAACAAATCAAGATCCT
Found at i:1346069 original size:45 final size:48
Alignment explanation
Indices: 1346011--1346099 Score: 123
Period size: 45 Copynumber: 1.9 Consensus size: 48
1346001 AAATTATTCT
*
1346011 TAAATTTTTTAAACATTCTAAT-TCCATCCATA-AT-TGACTTTTATCC
1 TAAATTTTTTAAACAATCTAATGT-CATCCATATATATGACTTTTATCC
*
1346057 TAAA-TTTTTAAACAATCTAATGTCATCCCTATATATGACTTTT
1 TAAATTTTTTAAACAATCTAATGTCATCCATATATATGACTTTT
1346100 GAATGTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
45 23 0.61
46 7 0.18
47 8 0.21
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (48 bp):
TAAATTTTTTAAACAATCTAATGTCATCCATATATATGACTTTTATCC
Found at i:1346336 original size:9 final size:9
Alignment explanation
Indices: 1346322--1346346 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1346312 AATAATTTAA
1346322 AGAAAATTT
1 AGAAAATTT
1346331 AGAAAATTT
1 AGAAAATTT
1346340 AGAAAAT
1 AGAAAAT
1346347 AATGTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (9 bp):
AGAAAATTT
Found at i:1346506 original size:12 final size:12
Alignment explanation
Indices: 1346489--1346514 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1346479 TTTTATTAAC
1346489 AATTTGGAGGTA
1 AATTTGGAGGTA
1346501 AATTTGGAGGTA
1 AATTTGGAGGTA
1346513 AA
1 AA
1346515 CTAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (12 bp):
AATTTGGAGGTA
Found at i:1347449 original size:31 final size:31
Alignment explanation
Indices: 1347378--1347454 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
1347368 CTTTTAAAAC
** * *
1347378 TTGCAATATAATCTCTCAACATTTAGTCCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCCAT
1347409 TTGCAATATGGTCCCTCAACATTTAGTCCAT
1 TTGCAATATGGTCCCTCAACATTTAGTCCAT
1347440 TTGCAATATGGTCCC
1 TTGCAATATGGTCCC
1347455 AGACGTAACT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCCAT
Found at i:1366638 original size:90 final size:92
Alignment explanation
Indices: 1366532--1366716 Score: 320
Period size: 93 Copynumber: 2.0 Consensus size: 92
1366522 GGACAAGGAC
*
1366532 ATGGGGCATGTACATGACCCTCCAAATATATGAAAAGACTT-AAAAAAAA-TGAAATTACACATC
1 ATGGGGCATGGACATGACCCTCCAAATATATGAAAAGACTTAAAAAAAAATTGAAATTACACATC
1366595 TATATCCTAACACATACACTAACATGG
66 TATATCCTAACACATACACTAACATGG
*
1366622 ATGGGGCATGGGCATGACCCTCCAAATATATGAAAAGACTTAAAAAAAAAATTGAAATTACACAT
1 ATGGGGCATGGACATGACCCTCCAAATATATGAAAAGACTT-AAAAAAAAATTGAAATTACACAT
*
1366687 CTATATCCTAATACATACACTAACATGG
65 CTATATCCTAACACATACACTAACATGG
1366715 AT
1 AT
1366717 AAGAATTCAA
Statistics
Matches: 89, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
90 39 0.44
92 8 0.09
93 42 0.47
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (92 bp):
ATGGGGCATGGACATGACCCTCCAAATATATGAAAAGACTTAAAAAAAAATTGAAATTACACATC
TATATCCTAACACATACACTAACATGG
Found at i:1367625 original size:24 final size:24
Alignment explanation
Indices: 1367572--1367625 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
1367562 GTGAATACGT
**
1367572 TAAAC-AACTTATAAATGAGTCAA
1 TAAACGAACTTATAAACAAGTCAA
* *
1367595 CATACGAACTTATAAACAAGTCAA
1 TAAACGAACTTATAAACAAGTCAA
1367619 TAAACGA
1 TAAACGA
1367626 GCTTGTTCGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 3 0.12
24 21 0.88
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (24 bp):
TAAACGAACTTATAAACAAGTCAA
Found at i:1368873 original size:28 final size:29
Alignment explanation
Indices: 1368797--1368879 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 29
1368787 TAGTTTTTGA
* *
1368797 TCAAAATAAGTATCTAAAGTTATTTTTTTAG
1 TCAAAATAAGCATCTAAAG-TA-TTTTATAG
* *
1368828 TTAAAATAGGCA-CTTAAAGTATTTTAT-G
1 TCAAAATAAGCATC-TAAAGTATTTTATAG
* *
1368856 TCAAAATATGCATCTAAACTATTT
1 TCAAAATAAGCATCTAAAGTATTT
1368880 AAACTTTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 20 0.47
29 6 0.14
30 3 0.07
31 14 0.33
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.41
Consensus pattern (29 bp):
TCAAAATAAGCATCTAAAGTATTTTATAG
Found at i:1376506 original size:16 final size:18
Alignment explanation
Indices: 1376487--1376530 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
1376477 AATATTCTAT
1376487 ATCA-ATTTA-AACAATG
1 ATCATATTTACAACAATG
*
1376503 ATCATACTTCACAACAATG
1 ATCATA-TTTACAACAATG
1376522 ATCATATTT
1 ATCATATTT
1376531 GAAATTGGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.17
17 1 0.04
18 5 0.22
19 13 0.57
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (18 bp):
ATCATATTTACAACAATG
Found at i:1387409 original size:73 final size:76
Alignment explanation
Indices: 1387302--1387477 Score: 232
Period size: 73 Copynumber: 2.3 Consensus size: 76
1387292 TCTATTTAAA
* **
1387302 AAATTTAGATATTAAAAAAGTTTTGGTTGAAGTAAAGTTCTCATGTTTAATATT-T-AA-ATATT
1 AAATTTAGATATTAAAAAAGTTTTGATTGAAGTAAAACTCTCATGTTTAATATTATAAAGATATT
*
1387364 ATAATTTGTTT
66 ATAATTTGATT
* * *
1387375 AAATTTAGATATTAAAAGAGTTTTGATTGGAGTAAAACTCTCATGTTTAATATTATAAAAAGATG
1 AAATTTAGATATTAAAAAAGTTTTGATTGAAGTAAAACTCTCATGTTTAATATTAT--AAAGATA
1387440 TTATAATTTGATT
64 TTATAATTTGATT
* *
1387453 AAATTTAAATATTAAAATAGTTTTG
1 AAATTTAGATATTAAAAAAGTTTTG
1387478 TTTAATATTA
Statistics
Matches: 89, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
73 49 0.55
74 1 0.01
77 2 0.02
78 37 0.42
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.44
Consensus pattern (76 bp):
AAATTTAGATATTAAAAAAGTTTTGATTGAAGTAAAACTCTCATGTTTAATATTATAAAGATATT
ATAATTTGATT
Found at i:1387497 original size:58 final size:58
Alignment explanation
Indices: 1387418--1387531 Score: 219
Period size: 58 Copynumber: 2.0 Consensus size: 58
1387408 AAAACTCTCA
1387418 TGTTTAATATTATAAAAAGATGTTATAATTTGATTAAATTTAAATATTAAAATAGTTT
1 TGTTTAATATTATAAAAAGATGTTATAATTTGATTAAATTTAAATATTAAAATAGTTT
*
1387476 TGTTTAATATTATAAAAAGATGTTATAATTTGTTTAAATTTAAATATTAAAATAGT
1 TGTTTAATATTATAAAAAGATGTTATAATTTGATTAAATTTAAATATTAAAATAGT
1387532 CGAAGGCAGA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.46
Consensus pattern (58 bp):
TGTTTAATATTATAAAAAGATGTTATAATTTGATTAAATTTAAATATTAAAATAGTTT
Found at i:1387504 original size:21 final size:21
Alignment explanation
Indices: 1387417--1387504 Score: 59
Period size: 21 Copynumber: 4.5 Consensus size: 21
1387407 TAAAACTCTC
1387417 ATGTT-TAATATTATAAAAAG
1 ATGTTATAATATTATAAAAAG
*
1387437 ATGTTATAAT-TTGAT--TAA-
1 ATGTTATAATATT-ATAAAAAG
*
1387455 AT-TTA-AATATTA-AAATAG
1 ATGTTATAATATTATAAAAAG
*
1387473 TTTTGTT-TAATATTATAAAAAG
1 --ATGTTATAATATTATAAAAAG
1387495 ATGTTATAAT
1 ATGTTATAAT
1387505 TTGTTTAAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 23
0.63 0.08 0.29
Matches are distributed among these distances:
16 4 0.08
17 6 0.12
18 2 0.04
19 2 0.04
20 12 0.24
21 19 0.38
22 5 0.10
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (21 bp):
ATGTTATAATATTATAAAAAG
Found at i:1391315 original size:16 final size:18
Alignment explanation
Indices: 1391296--1391332 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
1391286 CCATAGCCCC
1391296 TATCACACAT-ATAT-CA
1 TATCACACATCATATACA
1391312 TATCACACATCATATACA
1 TATCACACATCATATACA
1391330 TAT
1 TAT
1391333 ATCACATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.32
Consensus pattern (18 bp):
TATCACACATCATATACA
Found at i:1391338 original size:18 final size:19
Alignment explanation
Indices: 1391296--1391339 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
1391286 CCATAGCCCC
1391296 TATCACA-CATATATCATA
1 TATCACATCATATATCATA
1391314 TCA-CACATCATATA-CATA
1 T-ATCACATCATATATCATA
1391332 TATCACAT
1 TATCACAT
1391340 ACATTGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.04
18 15 0.65
19 7 0.30
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (19 bp):
TATCACATCATATATCATA
Found at i:1391640 original size:17 final size:17
Alignment explanation
Indices: 1391602--1391633 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1391592 CCATGTACAC
1391602 ATGTGAGAACTATAGAT
1 ATGTGAGAACTATAGAT
1391619 ATGTGAG-ACTATAGA
1 ATGTGAGAACTATAGA
1391634 GGTTGTGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.41, C:0.06, G:0.25, T:0.28
Consensus pattern (17 bp):
ATGTGAGAACTATAGAT
Found at i:1391693 original size:23 final size:23
Alignment explanation
Indices: 1391662--1391753 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
1391652 CACCACAGCT
* *
1391662 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
* *
1391685 CATAGAATTACACCGGAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
* *
1391708 CGTAGAATTGCACTGGAGTGCCG
1 CGTAGAATTGCACCGGAGTGCCA
*
1391731 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGGAGTGCCA
1391754 TATAATAATG
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 58 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGGAGTGCCA
Found at i:1391896 original size:103 final size:103
Alignment explanation
Indices: 1391769--1391983 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
1391759 TAATGTCCAT
* * *
1391769 AAGGAACACATATCATTCATTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
1391834 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
1391872 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCATTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
1391937 TACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1391975 AAGGACCAC
1 AAGGACCAC
1391984 GTAGACCCTC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCATTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1393375 original size:20 final size:20
Alignment explanation
Indices: 1393334--1393409 Score: 125
Period size: 20 Copynumber: 3.7 Consensus size: 20
1393324 TTCACTTGAG
*
1393334 GGGTATCGATTCCCCATTGAAT
1 GGGTACCGATT-CCC-TTGAAT
1393356 GGGTACCGATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
1393376 GGGTACCGATTCCCTTGAAT
1 GGGTACCGATTCCCTTGAAT
1393396 GGGTACCGATTCCC
1 GGGTACCGATTCCC
1393410 CTTGCCCAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
20 40 0.75
21 3 0.06
22 10 0.19
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (20 bp):
GGGTACCGATTCCCTTGAAT
Found at i:1398224 original size:7 final size:7
Alignment explanation
Indices: 1398212--1398245 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
1398202 AGATTGAAAA
1398212 GGAGAGG
1 GGAGAGG
1398219 GGAGAGG
1 GGAGAGG
1398226 GGAGAGG
1 GGAGAGG
1398233 GGAGAGG
1 GGAGAGG
1398240 GGAGAG
1 GGAGAG
1398246 AATAGAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.71, T:0.00
Consensus pattern (7 bp):
GGAGAGG
Found at i:1399343 original size:18 final size:19
Alignment explanation
Indices: 1399308--1399344 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1399298 CACGAAATGT
1399308 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1399328 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1399345 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1402593 original size:23 final size:23
Alignment explanation
Indices: 1402566--1402610 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
1402556 ATAAGAAAAT
*
1402566 TTTTGTCTTTGTGACACATTTAC
1 TTTTGTCTTTATGACACATTTAC
*
1402589 TTTTGTCTTTATGACACGTTTA
1 TTTTGTCTTTATGACACATTTA
1402611 TCTCTGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.18, C:0.16, G:0.13, T:0.53
Consensus pattern (23 bp):
TTTTGTCTTTATGACACATTTAC
Found at i:1402618 original size:23 final size:23
Alignment explanation
Indices: 1402569--1402621 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1402559 AGAAAATTTT
* *
1402569 TGTCTTTGTGACACATTTACTTT
1 TGTCTTTATGACACATTTACTTC
*
1402592 TGTCTTTATGACACGTTTA-TCTC
1 TGTCTTTATGACACATTTACT-TC
1402615 TGTCTTT
1 TGTCTTT
1402622 TGGTCGTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.15, C:0.19, G:0.13, T:0.53
Consensus pattern (23 bp):
TGTCTTTATGACACATTTACTTC
Found at i:1403439 original size:6 final size:6
Alignment explanation
Indices: 1403428--1403462 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
1403418 TCGTATTTAG
1403428 TATTTT TATTTT TA-TTT TA-TTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT T
1403463 CGATGATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TATTTT
Found at i:1403450 original size:16 final size:16
Alignment explanation
Indices: 1403431--1403461 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1403421 TATTTAGTAT
1403431 TTTTATTTTTATTTTA
1 TTTTATTTTTATTTTA
1403447 TTTTATTTTTATTTT
1 TTTTATTTTTATTTT
1403462 TCGATGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTATTTTA
Found at i:1403471 original size:22 final size:22
Alignment explanation
Indices: 1403428--1403471 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1403418 TCGTATTTAG
** *
1403428 TATTTTTATTTTTATTTTATTT
1 TATTTTTATTTTTAGATGATTT
*
1403450 TATTTTTATTTTTCGATGATTT
1 TATTTTTATTTTTAGATGATTT
1403472 AACATCATAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (22 bp):
TATTTTTATTTTTAGATGATTT
Found at i:1403582 original size:13 final size:13
Alignment explanation
Indices: 1403564--1403589 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1403554 GAATTTTATC
1403564 ATTTCTTCGAGAG
1 ATTTCTTCGAGAG
1403577 ATTTCTTCGAGAG
1 ATTTCTTCGAGAG
1403590 CACTTCCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.38
Consensus pattern (13 bp):
ATTTCTTCGAGAG
Found at i:1404906 original size:344 final size:345
Alignment explanation
Indices: 1404041--1406477 Score: 4663
Period size: 344 Copynumber: 7.1 Consensus size: 345
1404031 TTTATTGTTG
*
1404041 TTTTAATTGTTAACTGATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
*
1404106 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTTGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
1404171 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
*
1404236 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1404301 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGG-AAAAAAGATATA-
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
1404364 TTTTTCTTATTTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
1404384 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1404449 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
*
1404514 CTTGTTCTTGAAAGAAGAGGTGCTCCCTGTGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
*
1404579 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAG
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1404644 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
1404709 TTTTTCTTATTTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
1404729 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTG-TTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1404793 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
*
1404858 CTTGTTCTTGAAATAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
*
1404923 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAG
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1404988 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGG-AAAAAAGATATAT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
1405052 TTTTTCTTATTTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
*
1405072 TTTTAATTGTTAACTCATGCTTGAACAATGCGGTGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1405137 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
1405202 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
1405267 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1405332 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATA-
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
1405396 TTTTTCTTA-TTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
1405415 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1405480 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
1405545 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
* ** *
1405610 CTAATGAAGAAATTGATGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAG
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1405675 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGG-AAAAAAGATATAT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
*
1405739 ATTTTCTTATTTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
1405759 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1405824 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
1405889 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
*
1405954 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1406019 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
1406084 TTTTTCTTATTTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
1406104 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1406169 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
*
1406234 CTTATTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
* * *
1406299 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGTAGAAGAAGAAGAAGACATCAA
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
1406364 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
1406429 TTTTTCTTATTTTTTTAACT
326 TTTTTCTTATTTTTTTAACT
1406449 TTTTAATTGTTAACTCATGCTTGAACAAT
1 TTTTAATTGTTAACTCATGCTTGAACAAT
1406478 TCGATGTATT
Statistics
Matches: 2062, Mismatches: 25, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
342 12 0.01
343 699 0.34
344 879 0.43
345 472 0.23
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (345 bp):
TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAA
ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
TTTTTCTTATTTTTTTAACT
Found at i:1405402 original size:687 final size:689
Alignment explanation
Indices: 1404041--1406477 Score: 4675
Period size: 687 Copynumber: 3.5 Consensus size: 689
1404031 TTTATTGTTG
*
1404041 TTTTAATTGTTAACTGATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
*
1404106 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTTGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
1404171 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
1404236 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
1404301 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATA-T
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATATT
1404365 TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAAC
326 TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAAC
1404430 AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
391 AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
*
1404495 GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTGTGGTAACCAAAATTTCA
456 GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCA
1404560 TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
521 TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
*
1404625 AAGAAGAATAAGACAACAGATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
586 AAGAAGAATAAGACAACAAATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
1404690 AGAGGAAAAAAAGATATATTTTTTCTTATTTTTTTAACT
651 AGAGGAAAAAAAGATATATTTTTTCTTATTTTTTTAACT
1404729 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTG-TTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1404793 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
*
1404858 CTTGTTCTTGAAATAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
* *
1404923 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAG
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
1404988 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATATT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATATT
*
1405053 TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGTGTGTTTTTTAAC
326 TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAAC
1405118 AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
391 AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
1405183 GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCA
456 GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCA
1405248 TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
521 TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
1405313 AAGAAGAATAAGACAACAAATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
586 AAGAAGAATAAGACAACAAATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
1405378 AGAGGAAAAAAAGATATA-TTTTTCTTA-TTTTTTAACT
651 AGAGGAAAAAAAGATATATTTTTTCTTATTTTTTTAACT
1405415 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1405480 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
1405545 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
* ** * *
1405610 CTAATGAAGAAATTGATGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAATAAGACAACAG
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
*
1405675 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATATA
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATATT
1405740 TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAAC
326 TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAAC
1405805 AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
391 AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
1405870 GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCA
456 GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCA
1405935 TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
521 TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
*
1406000 AAGAAGAAGAAGACAACAAATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
586 AAGAAGAATAAGACAACAAATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
1406065 AGAGGAAAAAAAGATATATTTTTTCTTATTTTTTTAACT
651 AGAGGAAAAAAAGATATATTTTTTCTTATTTTTTTAACT
1406104 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1 TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
1406169 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
66 TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
*
1406234 CTTATTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
131 CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
* *
1406299 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGTAGAAGAAGAAGAAGACATCAA
196 CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
1406364 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAAGATATAT
261 ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGG-AAAAAAGATATAT
1406429 TTTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAAT
325 TTTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAAT
1406478 TCGATGTATT
Statistics
Matches: 1720, Mismatches: 24, Indels: 8
0.98 0.01 0.00
Matches are distributed among these distances:
686 47 0.03
687 913 0.53
688 386 0.22
689 313 0.18
690 61 0.04
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.30
Consensus pattern (689 bp):
TTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAACAGAGGACTACTATGACTCA
TCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTTGTCGTAGTAGTTTCAGGTT
CTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCATGAAAAGACAAGGTGACGA
CTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAGAAGAAGAAGAAGACAACAA
ATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGAAGAGGAAAAAAGATATATT
TTTTCTTATTTTTTTAACTTTTTAATTGTTAACTCATGCTTGAACAATGCGGCGTGTTTTTTAAC
AGAGGACTACTATGACTCATCGTTGTGGGAGAAAGAATCACAAGTTGTTCATTATTTGTCACCTT
GTCGTAGTAGTTTCAGGTTCTTGTTCTTGAAAGAAGAGGTGCTCCCTATGGTAACCAAAATTTCA
TGAAAAGACAAGGTGACGACTAATGAAGAACTTGCGGTTCCTCCTCACGATCGACGATGAAGAAG
AAGAAGAATAAGACAACAAATGGACAACTTATGATTCTTCCTCCAGACGACGACAACGAAGAAGA
AGAGGAAAAAAAGATATATTTTTTCTTATTTTTTTAACT
Found at i:1407030 original size:11 final size:11
Alignment explanation
Indices: 1407014--1407045 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1407004 GAAGAAGAAC
1407014 ACAATTTATGA
1 ACAATTTATGA
1407025 ACAATTTATGA
1 ACAATTTATGA
*
1407036 ACAACTTATG
1 ACAATTTATG
1407046 GTTCCTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.34
Consensus pattern (11 bp):
ACAATTTATGA
Found at i:1407209 original size:339 final size:332
Alignment explanation
Indices: 1406715--1407327 Score: 761
Period size: 339 Copynumber: 1.8 Consensus size: 332
1406705 CAATGTGTGA
* *
1406715 TTCCTCCTCCAGGCGACGACAACAACGAAGAAGAAGAAGAAAAAGAAGCATATTTTTTTTAATTT
1 TTCCTCCTCCAGACGACGACAACAACAAAGAAGAAGAAGAAAAAGAAGCATATTTTTTTTAATTT
* * * ** * * *
1406780 TTTAATTGTTGACTCATACTTGGACTATGTGATGTATTTTCTAATAGATGACTACTATGACTACA
66 TTTAATTATTGACTCATACTTGAAATATACGATGTATTTTCCAACAGAGGACTACTATGACTACA
* * * * *
1406845 TCATTGTGGGAGGAGGAACCGTATGGTGTCCATTATTTGTCACCTTATCGCA-TACATTT-CGAA
131 TCATTATGAGAGGAGGAACCGTATGGTATCCATTAATTGTCACCTTATCGCATTA-ATTTAAG-A
* * *
1406908 TTCTTGTTCTTAAAAGAGGAGGTCTTCTTTATGATAACCAAAGTTTGATGAATCGACAAAGTAAC
194 TTCTTGTTCTTAAAAGAGGAGGTCTTCCTTATGATAACCAAAATTTGATGAATAGACAAAGTAAC
1406973 AGTTAATGGACAACCTCCTCCCAACATCGAGGAAGAAGAACACAATTTATGAACAATTTATGAAC
259 AGTTAATGGACAACCTCCTCCCAACATCGAGGAAGAAGAACACAATTTATGAACAATTTATGAAC
1407038 AACTTATGG
324 AACTTATGG
* * *
1407047 TTCCTCCTCCAGACGCCGACAACAACAAAGAAGAAGAAGAAGTAA-AAGACATTTTTCTCAATCT
1 TTCCTCCTCCAGACGACGACAACAACAAAGAAGAAGAAGAA-AAAGAAG-CA-TATT-T---T-T
1407111 TTTAATTTTTTTAA-TATTGACTCATACTT-AAATAATACGATGTATTTTCCAACAGAGGACTAC
58 TTTAA-TTTTTTAATTATTGACTCATACTTGAAAT-ATACGATGTATTTTCCAACAGAGGACTAC
* * * *
1407174 TATGATTACATCGA-TATGAGTGGATGAACCGTATGGTATCCATTAATTGTCACCTTATCTCATT
121 TATGACTACATC-ATTATGAGAGGAGGAACCGTATGGTATCCATTAATTGTCACCTTATCGCATT
* * * * * * *
1407238 AGTTTAAGATTCTTGTTTTTGAAAGAGGATGTGTTCCTTATGGTAACCAAAATTTGATGAATATA
185 AATTTAAGATTCTTGTTCTTAAAAGAGGAGGTCTTCCTTATGATAACCAAAATTTGATGAATAGA
* *
1407303 CAAGGTGACAGTTAATGGACAACCT
250 CAAAGTAACAGTTAATGGACAACCT
1407328 GCGATTTCTC
Statistics
Matches: 234, Mismatches: 34, Indels: 19
0.82 0.12 0.07
Matches are distributed among these distances:
332 41 0.18
333 4 0.02
334 3 0.01
335 1 0.00
338 3 0.01
339 170 0.73
340 12 0.05
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (332 bp):
TTCCTCCTCCAGACGACGACAACAACAAAGAAGAAGAAGAAAAAGAAGCATATTTTTTTTAATTT
TTTAATTATTGACTCATACTTGAAATATACGATGTATTTTCCAACAGAGGACTACTATGACTACA
TCATTATGAGAGGAGGAACCGTATGGTATCCATTAATTGTCACCTTATCGCATTAATTTAAGATT
CTTGTTCTTAAAAGAGGAGGTCTTCCTTATGATAACCAAAATTTGATGAATAGACAAAGTAACAG
TTAATGGACAACCTCCTCCCAACATCGAGGAAGAAGAACACAATTTATGAACAATTTATGAACAA
CTTATGG
Found at i:1407415 original size:52 final size:54
Alignment explanation
Indices: 1407313--1407415 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 54
1407303 CAAGGTGACA
* * * *
1407313 GTTAATGGACAACCTGCGATTTCTCCTCCATACGACGATGAAGAATAAGAATACG
1 GTTAATGGACAACCTGCAATTCCTCCTCCATAC-ACGAAGAAGAAGAAGAATACG
* *
1407368 GTTAATGGACAACTTGCAATTCCTCCTTCA-A-ACGAAGAAGAAGAAGAA
1 GTTAATGGACAACCTGCAATTCCTCCTCCATACACGAAGAAGAAGAAGAA
1407416 GGCACATAGA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
52 15 0.36
54 1 0.02
55 26 0.62
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.22
Consensus pattern (54 bp):
GTTAATGGACAACCTGCAATTCCTCCTCCATACACGAAGAAGAAGAAGAATACG
Found at i:1407715 original size:52 final size:52
Alignment explanation
Indices: 1407635--1407734 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
1407625 ATAAGGTGAG
* * *
1407635 GACTAATGGACAACTTGCGATTCCTCCTCCCGATGAAGAAGAAGAAGAAAAC
1 GACTAATAGACAACCTGCGATTCCTCCTCCCGACGAAGAAGAAGAAGAAAAC
* * * * *
1407687 GACTAATAGACAACCTGCGGTTCTTCCTCTCGACGATGATGAAGAAGA
1 GACTAATAGACAACCTGCGATTCCTCCTCCCGACGAAGAAGAAGAAGA
1407735 TACAAATTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
52 40 1.00
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (52 bp):
GACTAATAGACAACCTGCGATTCCTCCTCCCGACGAAGAAGAAGAAGAAAAC
Found at i:1408202 original size:42 final size:40
Alignment explanation
Indices: 1408155--1408239 Score: 127
Period size: 42 Copynumber: 2.1 Consensus size: 40
1408145 ATTTATAATA
1408155 ATTTTTATTGCGTCTCATTATTATAAATTCAAT-TTTTAATGT
1 ATTTTTATTGCGTCTCATTATTATAAA-TC--TGTTTTAATGT
*
1408197 ATTTTTATTGCGTGTCATTATTATAAATCTGTTTTAATGT
1 ATTTTTATTGCGTCTCATTATTATAAATCTGTTTTAATGT
1408237 ATT
1 ATT
1408240 ATTTTTGAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
39 1 0.02
40 12 0.29
41 2 0.05
42 26 0.63
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.55
Consensus pattern (40 bp):
ATTTTTATTGCGTCTCATTATTATAAATCTGTTTTAATGT
Found at i:1408552 original size:2 final size:2
Alignment explanation
Indices: 1408545--1408573 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1408535 TTGTAAGCTC
1408545 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1408574 AAATATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1409321 original size:11 final size:11
Alignment explanation
Indices: 1409305--1409374 Score: 53
Period size: 11 Copynumber: 6.7 Consensus size: 11
1409295 TTAAATTAAA
1409305 TATATAAATAT
1 TATATAAATAT
*
1409316 TATATATATAT
1 TATATAAATAT
1409327 T-T-TAAAT-T
1 TATATAAATAT
*
1409335 TAATTTAAAT-T
1 T-ATATAAATAT
1409346 TAT-T-AATAT
1 TATATAAATAT
*
1409355 TATATATATAT
1 TATATAAATAT
1409366 ATATATAAA
1 -TATATAAA
1409375 ATAATTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
8 5 0.10
9 9 0.19
10 5 0.10
11 22 0.46
12 7 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TATATAAATAT
Found at i:1420354 original size:3 final size:3
Alignment explanation
Indices: 1420346--1420478 Score: 203
Period size: 3 Copynumber: 43.7 Consensus size: 3
1420336 TTTATCCATT
*
1420346 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
1420394 GCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
*
1420440 TTA TTA TTA ATA TTA TATA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TT
1420479 TAATAAATAA
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
3 113 0.96
4 5 0.04
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1424190 original size:15 final size:14
Alignment explanation
Indices: 1424139--1424191 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
1424129 ATTTTAAATA
*
1424139 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
1424153 TTTTACATTTGCAT
1 ATTTACATTTGCAT
1424167 ATTTACATTTGGCAT
1 ATTTACATTT-GCAT
* *
1424182 CTTTGCATTT
1 ATTTACATTT
1424192 ATATTGCACA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.25, C:0.15, G:0.08, T:0.53
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:1427348 original size:6 final size:6
Alignment explanation
Indices: 1427323--1427368 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
1427313 CTCATCCAGC
* *
1427323 AAAGAA AGAAGAA GAAGAA AAAGAA AAAAAA AAAGAA AAAGGAA AA
1 AAAGAA A-AAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA-GAA AA
1427369 TCGAATAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
6 24 0.71
7 10 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:1429722 original size:83 final size:83
Alignment explanation
Indices: 1429621--1429885 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
1429611 AATGGAACAA
1429621 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1429686 AATCATTGAATTTGGAAG
66 AATCATTGAATTTGGAAG
1429704 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
*
1429769 AATCATTGAATTTAGAAG
66 AATCATTGAATTTGGAAG
* * * *
1429787 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG-CAAAAC
1429851 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTGGAAG
*
1429870 ATGAATTTGCTCATAG
1 ATGAATGTGCTCATAG
1429886 TAGAAATAAG
Statistics
Matches: 174, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 4 0.02
83 170 0.98
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (83 bp):
ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
AATCATTGAATTTGGAAG
Found at i:1432113 original size:54 final size:54
Alignment explanation
Indices: 1432031--1432142 Score: 188
Period size: 54 Copynumber: 2.1 Consensus size: 54
1432021 CAATGATTGA
* **
1432031 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
*
1432085 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1432139 GAAC
1 GAAC
1432143 CTGCTATTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
Found at i:1432528 original size:22 final size:22
Alignment explanation
Indices: 1432502--1432578 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
1432492 ATCTACACTC
1432502 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
1432524 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
* * *
1432546 TTTAAAGATGACATATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
1432568 TTCAAAGATGA
1 TTCAAAGATGA
1432579 AAGCTTTATC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:1433214 original size:113 final size:113
Alignment explanation
Indices: 1432981--1433652 Score: 997
Period size: 113 Copynumber: 5.9 Consensus size: 113
1432971 GCAAAGTTTA
** * **
1432981 AATCCATCATTCAATGGCTCAACA-TTCCAG-GTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCAACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
1433044 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * * ****
1433093 AATCCATCATTCGATGGATCAGCATTACCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1433158 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* *
1433206 AATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1433271 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * *
1433319 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
1433384 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* * *
1433432 AATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
1433497 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTA
66 AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
* ** *
1433545 AATTCATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATCTGAAG
1 AATCCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATCTGAAG
*
1433610 AAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
65 AAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
1433653 GTTTGATATC
Statistics
Matches: 516, Mismatches: 41, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
112 21 0.04
113 432 0.84
114 63 0.12
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTG
Found at i:1433957 original size:3 final size:3
Alignment explanation
Indices: 1433949--1434070 Score: 192
Period size: 3 Copynumber: 40.7 Consensus size: 3
1433939 TTTATCCATT
* **
1433949 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA TTA GCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1433997 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1434045 -TA TTA TATA TTA TTA TTA TTA TTA TT
1 TTA TTA T-TA TTA TTA TTA TTA TTA TT
1434071 TAATAAATAA
Statistics
Matches: 109, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
2 2 0.02
3 104 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1434083 original size:21 final size:24
Alignment explanation
Indices: 1433960--1434083 Score: 73
Period size: 24 Copynumber: 5.2 Consensus size: 24
1433950 TATTATTATT
*
1433960 ATTATTATTATTATTAGTAT-T-ATT
1 ATTATTATTA-TATTA-TATATAATA
* * *
1433984 ATTATTATTAGCATTAT-TATTATT
1 ATTATTATTA-TATTATATATAATA
*
1434008 ATTATTATTATTATTAT-TATTAGTATT
1 ATTATTATTA-TATTATATA-TA--ATA
* *
1434035 ATTATTATTATATTATATATTATT
1 ATTATTATTATATTATATATAATA
1434059 ATTATTATTAT-TTA-ATA-AATA
1 ATTATTATTATATTATATATAATA
1434080 ATTA
1 ATTA
1434084 CAACTGGACC
Statistics
Matches: 86, Mismatches: 8, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.07
22 4 0.05
23 5 0.06
24 48 0.56
25 1 0.01
26 7 0.08
27 15 0.17
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTATTATTATATTATATATAATA
Found at i:1446203 original size:6 final size:6
Alignment explanation
Indices: 1446194--1446228 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
1446184 AGAGAGAGGT
1446194 GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC GGGGA
1 GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC GGGGA
1446229 ACCGTTATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.14, G:0.69, T:0.00
Consensus pattern (6 bp):
GGGGAC
Found at i:1446387 original size:26 final size:28
Alignment explanation
Indices: 1446351--1446407 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
1446341 TAAAAATCTG
*
1446351 ATTTTGATTTAAT-TTGATA-TAAATAA
1 ATTTTGATTTAATAATGATATTAAATAA
* *
1446377 ATTTTTATTTAATAATGATATTAATTAA
1 ATTTTGATTTAATAATGATATTAAATAA
1446405 ATT
1 ATT
1446408 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
26 12 0.46
27 5 0.19
28 9 0.35
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
ATTTTGATTTAATAATGATATTAAATAA
Found at i:1455560 original size:27 final size:28
Alignment explanation
Indices: 1455501--1455562 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
1455491 AACCCGACCT
1455501 GACCCGAATATCACACTTAAAAAAGCCC
1 GACCCGAATATCACACTTAAAAAAGCCC
*
1455529 AACCCGAATATCACACTTAAAAAA-CCC
1 GACCCGAATATCACACTTAAAAAAGCCC
1455556 GACCCGA
1 GACCCGA
1455563 CTCGAACAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 9 0.28
28 23 0.72
ACGTcount: A:0.44, C:0.34, G:0.10, T:0.13
Consensus pattern (28 bp):
GACCCGAATATCACACTTAAAAAAGCCC
Found at i:1455830 original size:37 final size:37
Alignment explanation
Indices: 1455760--1455831 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 37
1455750 TACCCGACCC
* *
1455760 GACCCGAATATCACACTTAAAAAAATCTGACCGACTT
1 GACCCGAATATCACACTTAAAAAAACCCGACCGACTT
1455797 GACCCGAATATCACACTT-AAAAAACCCGAACCGAC
1 GACCCGAATATCACACTTAAAAAAACCCG-ACCGAC
1455832 CCGAACAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 8 0.25
37 24 0.75
ACGTcount: A:0.42, C:0.31, G:0.11, T:0.17
Consensus pattern (37 bp):
GACCCGAATATCACACTTAAAAAAACCCGACCGACTT
Found at i:1456620 original size:32 final size:35
Alignment explanation
Indices: 1456581--1456658 Score: 108
Period size: 37 Copynumber: 2.3 Consensus size: 35
1456571 CTTTATTTTG
1456581 TTCGGGTC-A-GG-TCGGGTTTTTTAAGCGTGATA
1 TTCGGGTCGACGGATCGGGTTTTTTAAGCGTGATA
*
1456613 TTCGGGTCGAGTCGGATCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGA--CGGATCGGGTTTTTTAAGCGTGATA
1456650 TTCGGGTCG
1 TTCGGGTCG
1456659 GGTTTGAGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 8 0.20
33 1 0.03
36 2 0.05
37 29 0.73
ACGTcount: A:0.14, C:0.13, G:0.36, T:0.37
Consensus pattern (35 bp):
TTCGGGTCGACGGATCGGGTTTTTTAAGCGTGATA
Found at i:1456714 original size:68 final size:70
Alignment explanation
Indices: 1456634--1456766 Score: 225
Period size: 73 Copynumber: 1.9 Consensus size: 70
1456624 TCGGATCGGG
1456634 TTTTTTAAGTGTGATATTCGGGTCGGGT-TT-GAGTTTAGGATGAAAAAAACCGGACCGACCGGT
1 TTTTTTAAGTGTGATATTCGGGTCGGGTGTTCGAGTTTAGGATGAAAAAAACCGGACCGACCGGT
1456697 CAGAT
66 CAGAT
1456702 TTTTTTAAGTGTGATATTCGGGTCGGGTCGGGTTCGAGTTTAGGATGAAAAAAACCGGACCGACC
1 TTTTTTAAGTGTGATATTCGGGTCGGGT---GTTCGAGTTTAGGATGAAAAAAACCGGACCGACC
1456767 CAAAAATATA
Statistics
Matches: 60, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
68 28 0.47
72 2 0.03
73 30 0.50
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (70 bp):
TTTTTTAAGTGTGATATTCGGGTCGGGTGTTCGAGTTTAGGATGAAAAAAACCGGACCGACCGGT
CAGAT
Found at i:1460132 original size:15 final size:15
Alignment explanation
Indices: 1460098--1460133 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1460088 AGGAGGAGGA
*
1460098 CGATGATGATGATGG
1 CGATGATGATGACGG
*
1460113 TGATGATGATGACGG
1 CGATGATGATGACGG
1460128 CGATGA
1 CGATGA
1460134 ATCACAACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.28, C:0.08, G:0.39, T:0.25
Consensus pattern (15 bp):
CGATGATGATGACGG
Found at i:1460294 original size:13 final size:13
Alignment explanation
Indices: 1460253--1460296 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
1460243 TATTTAGTAC
*
1460253 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
1460266 TGTTTATTGGACT
1 TTTTTATTGTAAT
1460279 TTTTTATTGTAAT
1 TTTTTATTGTAAT
1460292 TTTTT
1 TTTTT
1460297 TATTTATCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:1465057 original size:2 final size:2
Alignment explanation
Indices: 1465050--1465076 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1465040 AGAAATCATT
1465050 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 T
1465077 CAAAATTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1467610 original size:3 final size:3
Alignment explanation
Indices: 1467602--1467717 Score: 196
Period size: 3 Copynumber: 38.7 Consensus size: 3
1467592 TTTTTATCCA
* *
1467602 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1467650 TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1467698 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
1467718 AATATATATT
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 105 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:1478470 original size:185 final size:182
Alignment explanation
Indices: 1478159--1478525 Score: 682
Period size: 185 Copynumber: 2.0 Consensus size: 182
1478149 AATGTGATCC
1478159 AGTGTTCAAATTACTTCGAAAGAACAATCCTGAAGTTGGAATGAAGAATGTCAAGAAGCTTTGGG
1 AGTGTTCAAATTACTTCGAAAGAACAATCCTGAAGTTGGAATGAAGAATGTCAAGAAGCTTTGGG
1478224 ATATTAAGAAATATTATCCAATGCCCCAATTTTAGTATCACCAATGCCTGATAGACCATTAATTC
66 ATATTAAGAAATATTATCCAATGCCCCAATTTTAGTATCACCAATGCCTGATAGACCATTAATTC
1478289 TCTACTTGACGGTCTTCGAAAATTCGATGGGATGTGTACTAGGACAGCATGA
131 TCTACTTGACGGTCTTCGAAAATTCGATGGGATGTGTACTAGGACAGCATGA
1478341 AGTGTTCAAATTACTTCGAAAGAACAATCCTGAAGTCTGGAATGAAGAATGTCAAGAAGCTTTGG
1 AGTGTTCAAATTACTTCGAAAGAACAATCCTGAAGT-TGGAATGAAGAATGTCAAGAAGCTTTGG
*
1478406 ATATTATTAAGAAATACTTATCCAATGCCCCAA-TTTAGTATCACCAATGCCTGATAGACCATTA
65 -GA-TATTAAGAAATA-TTATCCAATGCCCCAATTTTAGTATCACCAATGCCTGATAGACCATTA
1478470 ATTCTCTACTTGACGGTCTTCGAAAATTCGATGGGATGTGTACTAGGACAGCATGA
127 ATTCTCTACTTGACGGTCTTCGAAAATTCGATGGGATGTGTACTAGGACAGCATGA
1478526 TGAATCTGGA
Statistics
Matches: 180, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
182 36 0.20
183 28 0.16
184 1 0.01
185 99 0.55
186 16 0.09
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (182 bp):
AGTGTTCAAATTACTTCGAAAGAACAATCCTGAAGTTGGAATGAAGAATGTCAAGAAGCTTTGGG
ATATTAAGAAATATTATCCAATGCCCCAATTTTAGTATCACCAATGCCTGATAGACCATTAATTC
TCTACTTGACGGTCTTCGAAAATTCGATGGGATGTGTACTAGGACAGCATGA
Found at i:1480536 original size:1 final size:1
Alignment explanation
Indices: 1480526--1480599 Score: 58
Period size: 1 Copynumber: 74.0 Consensus size: 1
1480516 ATGCTTGAAG
* * * * * * * * *
1480526 AAAAAGAAAAAAAAAGAGAAAAGAAAAAGAAAAAAAAAAGAGAAAAAAAAGAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
1480591 AAGAAAAAA
1 AAAAAAAAA
1480600 GGGGGGTCAA
Statistics
Matches: 53, Mismatches: 20, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (1 bp):
A
Found at i:1480547 original size:11 final size:10
Alignment explanation
Indices: 1480526--1480599 Score: 82
Period size: 11 Copynumber: 7.2 Consensus size: 10
1480516 ATGCTTGAAG
1480526 AAAAAGAAAAA
1 AAAAAG-AAAA
1480537 AAAAGAGAAAA
1 AAAA-AGAAAA
1480548 GAAAAAGAAAAA
1 -AAAAAG-AAAA
1480560 AAAAAGAGAAA
1 AAAAAGA-AAA
1480571 AAAAAG--AA
1 AAAAAGAAAA
1480579 AAAAAG-AAA
1 AAAAAGAAAA
1480588 AAAAAGAAAA
1 AAAAAGAAAA
1480598 AA
1 AA
1480600 GGGGGGTCAA
Statistics
Matches: 57, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
8 8 0.14
9 8 0.14
10 6 0.11
11 25 0.44
12 10 0.18
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:1480547 original size:17 final size:17
Alignment explanation
Indices: 1480526--1480600 Score: 100
Period size: 17 Copynumber: 4.4 Consensus size: 17
1480516 ATGCTTGAAG
1480526 AAAAAGAAAAAAAAAGA
1 AAAAAGAAAAAAAAAGA
*
1480543 GAAAAGAAAAAGAAAA-A
1 AAAAAGAAAAA-AAAAGA
1480560 AAAAAGAGAAAAAAAAGA
1 AAAAAGA-AAAAAAAAGA
1480578 AAAAA-AGAAAAAAAAGA
1 AAAAAGA-AAAAAAAAGA
1480595 AAAAAG
1 AAAAAG
1480601 GGGGGTCAAG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
17 38 0.73
18 14 0.27
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAGA
Found at i:1480549 original size:23 final size:22
Alignment explanation
Indices: 1480523--1480598 Score: 109
Period size: 23 Copynumber: 3.4 Consensus size: 22
1480513 ATTATGCTTG
1480523 AAGAAAAAGAAAAAAAAAGAGAA
1 AAGAAAAAGAAAAAAAAA-AGAA
1480546 AAGAAAAAGAAAAAAAAAAGAGA
1 AAGAAAAAGAAAAAAAAAAGA-A
*
1480569 AA-AAAAAGAAAAAAAGAAAAAA
1 AAGAAAAAGAAAAAAA-AAAGAA
1480591 AAGAAAAA
1 AAGAAAAA
1480599 AGGGGGGTCA
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
22 19 0.39
23 30 0.61
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (22 bp):
AAGAAAAAGAAAAAAAAAAGAA
Found at i:1480599 original size:36 final size:34
Alignment explanation
Indices: 1480526--1480600 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 34
1480516 ATGCTTGAAG
*
1480526 AAAAAGAAAAAAAAAGAGAAAAGAAAAAGAAAAA
1 AAAAAGAAAAAAAAAGAAAAAAGAAAAAGAAAAA
*
1480560 AAAAAGAGAAAAAAAAGAAAAAAAGAAAAA-AAAGA
1 AAAAAGA-AAAAAAAAG-AAAAAAGAAAAAGAAAAA
1480595 AAAAAG
1 AAAAAG
1480601 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 7 0.19
35 19 0.51
36 11 0.30
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (34 bp):
AAAAAGAAAAAAAAAGAAAAAAGAAAAAGAAAAA
Found at i:1481741 original size:83 final size:83
Alignment explanation
Indices: 1481640--1482012 Score: 695
Period size: 83 Copynumber: 4.6 Consensus size: 83
1481630 AATAGAACAA
1481640 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1481705 AAGCATTGAGTTTAGAAG
66 AAGCATTGAGTTTAGAAG
1481723 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1481788 AAGCATTGAGTTTAGAAG
66 AAGCATTGAGTTTAGAAG
*
1481806 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTTATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1481871 AAGCATTGAGTTTAGAAG
66 AAGCATTGAGTTTAGAAG
1481889 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
1481954 AAGCATT--G---A-AAG
66 AAGCATTGAGTTTAGAAG
1481966 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1482013 GTTTGGTATG
Statistics
Matches: 288, Mismatches: 2, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
77 50 0.17
78 1 0.00
81 1 0.00
83 236 0.82
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.36
Consensus pattern (83 bp):
ATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTGGACAGAATC
AAGCATTGAGTTTAGAAG
Found at i:1483389 original size:114 final size:113
Alignment explanation
Indices: 1482853--1483714 Score: 1336
Period size: 114 Copynumber: 7.6 Consensus size: 113
1482843 ATTCAAATCT
** *
1482853 ATCATTTGAAAGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
1482917 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
*
1482965 ATCATTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
1483029 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
*
1483077 ATCATTTGATGGATCAGCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
1483141 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATCC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
*
1483189 ATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
*
1483254 GAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTACCTGAATTC
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * *
1483302 ATCAAATTGATGGATTATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACCCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* **
1483367 AGAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTTTCTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
1483416 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
1483481 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* * * *
1483530 ATCAAATTGATGGATTATCTTTTCCAGAGAAGGTTCATAATGAGAAGAACCCATCTGAAGAAGGA
1 ATC-ATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * *
1483595 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTGAATTC
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
* ** *
1483644 ATCATTTGATGGATCATCATCCCCAGCAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG-
1 ATCATTTGATGGATCATCTTTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1483708 AGAAGAA
65 AGAAGAA
1483715 TTTATTCAAT
Statistics
Matches: 720, Mismatches: 27, Indels: 5
0.96 0.04 0.01
Matches are distributed among these distances:
112 250 0.35
113 110 0.15
114 360 0.50
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
ATCATTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTC
Found at i:1483866 original size:3 final size:3
Alignment explanation
Indices: 1483851--1483942 Score: 148
Period size: 3 Copynumber: 30.7 Consensus size: 3
1483841 TTTTTATCCA
* *
1483851 TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1483899 TAC TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1483943 AATATATATT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1490463 original size:22 final size:22
Alignment explanation
Indices: 1490416--1490465 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
1490406 GGAACATTAT
*
1490416 CGATCCAAGTCAGAAACAATAC
1 CGATCCAAGTCAGAAACAATAA
* *
1490438 CGATCCAATTCAGTAAA-ACTAA
1 CGATCCAAGTCAG-AAACAATAA
1490460 CGATCC
1 CGATCC
1490466 CATTTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.42, C:0.28, G:0.12, T:0.18
Consensus pattern (22 bp):
CGATCCAAGTCAGAAACAATAA
Found at i:1494840 original size:20 final size:20
Alignment explanation
Indices: 1494796--1495009 Score: 198
Period size: 20 Copynumber: 10.6 Consensus size: 20
1494786 GATTCTGACT
* *
1494796 ATCGCAACGAGTATCCATAAA
1 ATCGCAACGCGTATCCGT-AA
1494817 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
1494837 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
1494858 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * * *
1494878 ATCGCAACGAGAATACATAA
1 ATCGCAACGCGTATCCGTAA
* **
1494898 ATCGCAACGTGTATCTATAA
1 ATCGCAACGCGTATCCGTAA
* * * *
1494918 ATCACAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
1494938 ATCGCAATGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* *
1494958 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
1494979 ATCGTAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
1494999 ATCGCAACGCG
1 ATCGCAACGCG
1495010 ATTTTTAAAG
Statistics
Matches: 155, Mismatches: 32, Indels: 13
0.77 0.16 0.06
Matches are distributed among these distances:
20 106 0.68
21 49 0.32
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:1494841 original size:41 final size:41
Alignment explanation
Indices: 1494796--1495007 Score: 302
Period size: 41 Copynumber: 5.2 Consensus size: 41
1494786 GATTCTGACT
* * *
1494796 ATCGCAACGAGTATCCATAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
1494837 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * **
1494878 ATCGCAACGAGAATACAT-AAATCGCAACGTGTATCTATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
1494918 ATCACAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
1494958 ATCGCAACGACAATACGTAAAATCGTAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
1494999 ATCGCAACG
1 ATCGCAACG
1495008 CGATTTTTAA
Statistics
Matches: 151, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 69 0.46
41 82 0.54
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:1495586 original size:20 final size:20
Alignment explanation
Indices: 1495561--1495671 Score: 85
Period size: 20 Copynumber: 5.8 Consensus size: 20
1495551 TTCTAAACTT
*
1495561 AAAATCGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
1495581 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
1495601 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
**
1495622 ACTATCGC-A-ACG---A-G
1 AAAATCGCAACACGAAAATG
*
1495636 AGAATCGCAACACG-AAATG
1 AAAATCGCAACACGAAAATG
*
1495655 AAAATCGCAACGCGAAA
1 AAAATCGCAACACGAAA
1495672 CCAAAATCGC
Statistics
Matches: 75, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
14 7 0.09
15 2 0.03
16 3 0.04
18 2 0.03
19 14 0.19
20 33 0.44
21 14 0.19
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:1495622 original size:21 final size:21
Alignment explanation
Indices: 1495584--1495639 Score: 89
Period size: 21 Copynumber: 2.7 Consensus size: 21
1495574 GAAAATGAAA
1495584 ATCGCAAC-ACGA-AAATGACT
1 ATCGCAACGA-GAGAAATGACT
1495604 ATCGCAACGAGAGAAATGACT
1 ATCGCAACGAGAGAAATGACT
1495625 ATCGCAACGAGAGAA
1 ATCGCAACGAGAGAA
1495640 TCGCAACACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.12
Consensus pattern (21 bp):
ATCGCAACGAGAGAAATGACT
Found at i:1495769 original size:20 final size:20
Alignment explanation
Indices: 1495707--1495762 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
1495697 TCGCGTTGCG
1495707 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
* *
1495727 ATT-TACGCATTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
1495747 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
1495763 TTTCATTTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:1497626 original size:94 final size:93
Alignment explanation
Indices: 1497465--1497844 Score: 618
Period size: 94 Copynumber: 4.1 Consensus size: 93
1497455 TAGATTGCTT
* *
1497465 AGTAAATTTATTCGGTTGCTACCAATAT-TGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAG
1 AGTAAATTTATTCGGTTGCTGCCAAT-TCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAG
1497529 TATTTGTCTTTTGTTTTGTCTTTTGGTTGA
65 TATTTGTC-TTTGTTTTGTCTTTTGGTTGA
* *
1497559 AGTAAATTTATTTGGTTGCTGCCAATTCGGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* * *
1497624 ATTTGTCTTTGTTTTATCTTTTGGTGGGG
66 ATTTGTCTTTGTTTTGTCTTTTGGT-TGA
*
1497653 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1497718 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
1497747 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1497812 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
1497840 AGTAA
1 AGTAA
1497845 TGCAATCCAT
Statistics
Matches: 268, Mismatches: 15, Indels: 7
0.92 0.05 0.02
Matches are distributed among these distances:
93 25 0.09
94 243 0.91
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:1498004 original size:33 final size:33
Alignment explanation
Indices: 1497932--1498061 Score: 149
Period size: 33 Copynumber: 4.0 Consensus size: 33
1497922 AAAAATGACT
* *
1497932 ATCGCAACGCGAAATG-AATTC-CAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
* *
1497963 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
* *
1497996 ATCACAACGCGAAACT-AAAATCGCAACGACAAA
1 ATCGCAACGCGAAA-TGAAAATCGCAACGAGAAA
** *
1498029 ATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
1498062 CTATAATCGC
Statistics
Matches: 84, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
31 15 0.18
32 4 0.05
33 64 0.76
34 1 0.01
ACGTcount: A:0.47, C:0.25, G:0.18, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAAA
Found at i:1498022 original size:19 final size:19
Alignment explanation
Indices: 1497995--1498071 Score: 92
Period size: 19 Copynumber: 4.3 Consensus size: 19
1497985 GCAACGAGAG
*
1497995 AATCACAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
1498014 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
1498028 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACTAA
*
1498047 AATCGCAACGCGAAACTAT
1 AATCGCAACGCGAAACTAA
1498066 AATCGC
1 AATCGC
1498072 GTTGCGATTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
16 2 0.04
17 2 0.04
18 2 0.04
19 32 0.64
ACGTcount: A:0.47, C:0.29, G:0.14, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:1498158 original size:20 final size:20
Alignment explanation
Indices: 1498104--1498172 Score: 93
Period size: 20 Copynumber: 3.5 Consensus size: 20
1498094 GTGATTCTCT
**
1498104 CATTGCGATAGTCAAATTTG
1 CATTGCGATAGTCATTTTTG
1498124 CATTGCGATAGTCATTTTTG
1 CATTGCGATAGTCATTTTTG
* *
1498144 CATTACGATAGTCATTTTCG
1 CATTGCGATAGTCATTTTTG
*
1498164 CGTTGCGAT
1 CATTGCGAT
1498173 TTTAAGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (20 bp):
CATTGCGATAGTCATTTTTG
Found at i:1498702 original size:21 final size:21
Alignment explanation
Indices: 1498679--1498759 Score: 72
Period size: 21 Copynumber: 3.9 Consensus size: 21
1498669 ATCCTCCCCT
*
1498679 ATCGTTCAAGAGGCCCCTATT
1 ATCGTTCAAGAGGCCCCTATC
** * **
1498700 ATCCCTCAAGAGTCCCCTCCC
1 ATCGTTCAAGAGGCCCCTATC
* *
1498721 ATCGTTCAAGAGGCCACTGTC
1 ATCGTTCAAGAGGCCCCTATC
* *
1498742 ATCGTTGAAGAGGTCCCT
1 ATCGTTCAAGAGGCCCCT
1498760 CCCAACATTC
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (21 bp):
ATCGTTCAAGAGGCCCCTATC
Found at i:1498753 original size:42 final size:42
Alignment explanation
Indices: 1498653--1498763 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
1498643 CCTGACTCAC
* * *
1498653 CTGTCATCGTTCAAGAATCCTCC-CCTATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCC-CCTCCCATCGTTCAAGAGGCCA
* * **
1498695 CTATTATCCCTCAAGAGTCCCCTCCCATCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCCCTCCCATCGTTCAAGAGGCCA
*
1498737 CTGTCATCGTTGAAGAGGT-CCCTCCCA
1 CTGTCATCGTTCAAGA-GTCCCCTCCCA
1498764 ACATTCTACA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
41 2 0.04
42 51 0.93
43 2 0.04
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCCCTCCCATCGTTCAAGAGGCCA
Found at i:1500136 original size:14 final size:14
Alignment explanation
Indices: 1500117--1500152 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1500107 TTTGTTTAAT
1500117 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1500131 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1500145 TGATTTGT
1 TGATTTGT
1500153 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1500342 original size:34 final size:33
Alignment explanation
Indices: 1500254--1500349 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
1500244 AAAACAGACT
* **
1500254 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
1500288 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1500321 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
1500350 CGAAACTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 31 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1500345 original size:20 final size:19
Alignment explanation
Indices: 1500287--1500354 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
1500277 GCAACGAGAG
1500287 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1500306 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
1500320 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
1500340 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
1500355 CTAATTTCGC
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.20
16 5 0.12
17 2 0.05
18 3 0.08
19 11 0.28
20 11 0.28
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1500384 original size:20 final size:19
Alignment explanation
Indices: 1500358--1500479 Score: 120
Period size: 19 Copynumber: 6.8 Consensus size: 19
1500348 CGCGAAACTA
1500358 ATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1500377 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
1500395 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
1500411 ATTTTCGCATTGCGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
1500429 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
1500445 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
1500464 ATTTCACATTGCGATT
1 ATTTCGCATTGCGATT
1500480 CTCTCGTTTC
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
14 12 0.14
16 14 0.16
17 3 0.04
18 11 0.13
19 26 0.31
20 19 0.22
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:1500409 original size:34 final size:34
Alignment explanation
Indices: 1500366--1500460 Score: 174
Period size: 34 Copynumber: 2.8 Consensus size: 34
1500356 TAATTTCGCA
1500366 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
1500400 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
1 TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
*
1500434 TTGCGATTTTCA-TTTCGCGTTGCGATT
1 TTGCGATTTTCATTTTCGCATTGCGATT
1500461 TTCATTTCAC
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 14 0.23
34 46 0.77
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (34 bp):
TTGCGATTTTCATTTTCGCATTGCGATTCACTCG
Found at i:1500487 original size:52 final size:54
Alignment explanation
Indices: 1500398--1500512 Score: 162
Period size: 52 Copynumber: 2.2 Consensus size: 54
1500388 GCGATTCACT
* **
1500398 CGTTGCGATTTTCATTTTCGCATTGCGATTCACTCGTTGCGATTTTCATTT-CG
1 CGTTGCGATTTTCATTTTCACATTGCGATTCACTCGTTGCGATAGTCATTTCCG
* *
1500451 CGTTGCGATTTTCA-TTTCACATTGCGATTCTCTCGTTTCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTTCACATTGCGATTCACTCGTTGCGATAGTCATTTCCG
*
1500504 CATTGCGAT
1 CGTTGCGAT
1500513 AGTTAATTCC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 31 0.56
53 24 0.44
ACGTcount: A:0.15, C:0.23, G:0.18, T:0.43
Consensus pattern (54 bp):
CGTTGCGATTTTCATTTTCACATTGCGATTCACTCGTTGCGATAGTCATTTCCG
Found at i:1500514 original size:20 final size:20
Alignment explanation
Indices: 1500489--1500558 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
1500479 TCTCTCGTTT
1500489 CGATAGTCATTTCCGCATTG
1 CGATAGTCATTTCCGCATTG
* *
1500509 CGATAGTTAATTCCGCATTG
1 CGATAGTCATTTCCGCATTG
* **
1500529 CGATAGTCATTTTCGTGTTG
1 CGATAGTCATTTCCGCATTG
1500549 CGATAGTCAT
1 CGATAGTCAT
1500559 ATTCGCGTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (20 bp):
CGATAGTCATTTCCGCATTG
Found at i:1500563 original size:20 final size:20
Alignment explanation
Indices: 1500484--1500568 Score: 84
Period size: 20 Copynumber: 4.2 Consensus size: 20
1500474 GCGATTCTCT
*
1500484 CGTTTCGATAGTCAT-TTCCG
1 CGTTGCGATAGTCATATT-CG
* *
1500504 CATTGCGATAGTTA-ATTCCG
1 CGTTGCGATAGTCATATT-CG
* *
1500524 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATATTCG
*
1500544 TGTTGCGATAGTCATATTCG
1 CGTTGCGATAGTCATATTCG
1500564 CGTTG
1 CGTTG
1500569 TGATTTCCGC
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 52 0.96
21 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATATTCG
Found at i:1500774 original size:17 final size:17
Alignment explanation
Indices: 1500752--1500794 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
1500742 GAAGTTCAAT
1500752 GTTACACATAATACAAC
1 GTTACACATAATACAAC
1500769 GTTACACATAATACAAC
1 GTTACACATAATACAAC
1500786 GTTACACAT
1 GTTACACAT
1500795 TAAGGGATGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (17 bp):
GTTACACATAATACAAC
Found at i:1501362 original size:14 final size:14
Alignment explanation
Indices: 1501343--1501378 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1501333 AATGTTTAAT
1501343 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1501357 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1501371 TGATTTGT
1 TGATTTGT
1501379 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1501568 original size:34 final size:33
Alignment explanation
Indices: 1501480--1501575 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
1501470 AAAACAGACT
* **
1501480 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
1501514 ATCGCAATGCGAAATGAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1501547 ATTGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
1501576 TGAAACTAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1501606 original size:19 final size:19
Alignment explanation
Indices: 1501584--1501784 Score: 125
Period size: 20 Copynumber: 10.8 Consensus size: 19
1501574 CGTGAAACTA
*
1501584 ATTTCGCGTTGCGATTTTC
1 ATTTCGCGTTGCGATATTC
*
1501603 ATTTTCGCATTGCG--ATTC
1 A-TTTCGCGTTGCGATATTC
* *
1501621 A---CTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATATTC
* * *
1501637 ATTTCACATTGCGATTTTC
1 ATTTCGCGTTGCGATATTC
* *
1501656 ATTTCGCATTGCGATTTTC
1 ATTTCGCGTTGCGATATTC
*
1501675 ATTTCGCATTGC-A-ATTC
1 ATTTCGCGTTGCGATATTC
* *
1501692 ---TCTCGTTGCGATAGTC
1 ATTTCGCGTTGCGATATTC
*
1501708 ATTTCCGCGTTGCGATAGTC
1 ATTT-CGCGTTGCGATATTC
* * *
1501728 AATTCCGCATTGCGATAGTC
1 -ATTTCGCGTTGCGATATTC
* *
1501748 ATTTACGTGTTGCGATAGTC
1 ATTT-CGCGTTGCGATATTC
1501768 ATATTCGCGTTGCGATA
1 AT-TTCGCGTTGCGATA
1501785 GTCAAATGAA
Statistics
Matches: 148, Mismatches: 19, Indels: 29
0.76 0.10 0.15
Matches are distributed among these distances:
14 14 0.09
15 1 0.01
16 7 0.05
17 3 0.02
18 5 0.03
19 48 0.32
20 65 0.44
21 5 0.03
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.41
Consensus pattern (19 bp):
ATTTCGCGTTGCGATATTC
Found at i:1501652 original size:33 final size:33
Alignment explanation
Indices: 1501590--1501723 Score: 142
Period size: 33 Copynumber: 3.8 Consensus size: 33
1501580 ACTAATTTCG
1501590 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
* *
1501624 CGTTGCGATTTTCATTTCACATTGCGATTTTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGA--TTCA-CT
* *
1501660 CGCATTGCGATTTTCATTTCGCATTGCAATTCTCT
1 CG--TTGCGATTTTCATTTCGCATTGCGATTCACT
** *
1501695 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
1501724 AGTCAATTCC
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
33 25 0.30
34 23 0.27
35 7 0.08
36 6 0.07
38 23 0.27
ACGTcount: A:0.16, C:0.23, G:0.18, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:1501720 original size:20 final size:20
Alignment explanation
Indices: 1501695--1501788 Score: 136
Period size: 20 Copynumber: 4.7 Consensus size: 20
1501685 GCAATTCTCT
1501695 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
1501715 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
1501735 CATTGCGATAGTCATTTACG
1 CGTTGCGATAGTCATTTCCG
*
1501755 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
1501775 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
1501789 AATGAATGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 64 0.97
21 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:1503924 original size:20 final size:20
Alignment explanation
Indices: 1503901--1503949 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
1503891 TCAGAATCGT
* *
1503901 GTTGCGATTTATATGTTCGC
1 GTTGCGATTTACATATTCGC
1503921 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
1503941 GTTGCGATT
1 GTTGCGATT
1503950 CTGGAAAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:1504005 original size:21 final size:21
Alignment explanation
Indices: 1503981--1504035 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
1503971 TTGTACTATT
1503981 GCATTGCGATTCTTTATAATC
1 GCATTGCGATTCTTTATAATC
1504002 GCATTGCGATTCTTTATAATC
1 GCATTGCGATTCTTTATAATC
*
1504023 GCGTTGCGATTCT
1 GCATTGCGATTCT
1504036 GGGAACTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (21 bp):
GCATTGCGATTCTTTATAATC
Found at i:1505424 original size:23 final size:25
Alignment explanation
Indices: 1505372--1505426 Score: 64
Period size: 23 Copynumber: 2.3 Consensus size: 25
1505362 ATTATTGGAG
*
1505372 AATTCATATGTTTATATATTATAAAT
1 AATT-ATATGTTTATATATTAAAAAT
1505398 --TTATAT-TTTATATA-TAAAAAT
1 AATTATATGTTTATATATTAAAAAT
1505419 AATTATAT
1 AATTATAT
1505427 ATTTTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 6 0.23
22 8 0.31
23 10 0.38
24 2 0.08
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
AATTATATGTTTATATATTAAAAAT
Found at i:1509598 original size:39 final size:39
Alignment explanation
Indices: 1509551--1509627 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
1509541 ACTATCACTC
1509551 ATAAAAGAAAATGCAAATACAACCATAGAATGCACTCAT
1 ATAAAAGAAAATGCAAATACAACCATAGAATGCACTCAT
* *
1509590 ATAAAAGAAAATGCAAATGCAACCGTAGAATGCACTCA
1 ATAAAAGAAAATGCAAATACAACCATAGAATGCACTCA
1509628 CTTGGAAGCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.52, C:0.18, G:0.13, T:0.17
Consensus pattern (39 bp):
ATAAAAGAAAATGCAAATACAACCATAGAATGCACTCAT
Found at i:1512238 original size:276 final size:275
Alignment explanation
Indices: 1511695--1512242 Score: 755
Period size: 276 Copynumber: 2.0 Consensus size: 275
1511685 ATCTTAGAAT
* * *
1511695 TATATTTTTTTAATGATGAAATTGTCAATCGAGGACCCCGAAAAACTTGACCATGTAACCAATCA
1 TATATATTTTTAATGATCAAATTGTCAATCGAGGACCCCGAAAAACCTGACCATGTAACCAATCA
* * *
1511760 GCCATTAGATGAAGGTATTAGGGCGATTGTTCAGTCATGCAAGCGACTCGAGGTTATCAATCTCT
66 GCCATTAGATGAAGGTATTAGGGCAATTGCTCAGTCATGCAAGCGACTCGAGGTTATCAATCTCC
* * * *
1511825 GGCGCTGTGACCAATCAGGTTTTTCTTTACATTGGAATATATGCTGAACAACTCGAAATGTTGTC
131 AGCGCTGTGACCAATCAGGTTTTTCTTTACATAGGAATATATGCCGAACAACTCGAAATGTCGTC
*
1511890 CATCGCTTTTGCTGCCGACAACGACAAAGGAATGCTCTACATGTTGAATGGCTAGAAGAAACCCT
196 CATCGCTTTT-CTGCCGACAACGACAAAGGAATGCACTACATGTTGAATGGCTAGAAGAAACCCT
*
1511955 GCAAGCTAGAGAAATA
260 ACAAGCTAGAGAAATA
* ** * *
1511971 TATATATTTTTACTGATCAAATTGTGGATTGAGGACCCCTGAAAAACCTGACCCTGTAACCAATC
1 TATATATTTTTAATGATCAAATTGTCAATCGAGGACCCC-GAAAAACCTGACCATGTAACCAATC
* * * *
1512036 AGCCATTAGATGAAGGTTTTAGGGCAATTGCTCAGTCATTCAAGTGACTCAAGAGGTTATCACTC
65 AGCCATTAGATGAAGGTATTAGGGCAATTGCTCAGTCATGCAAGCGACTC--GAGGTTATCAATC
* * * **
1512101 TCCAGC-CTTTGGACCGATCAGGTTTTTCTTTACATAGGAATATATGCCGAGCTGCTCGAAATGT
128 TCCAGCGCTGT-GACCAATCAGGTTTTTCTTTACATAGGAATATATGCCGAACAACTCGAAATGT
*
1512165 CGTCCATCGC-TTT-TGCCGACGACGACAAAGGAATGCACTACATGTTGAATGGCT-GCAAGAAA
192 CGTCCATCGCTTTTCTGCCGACAACGACAAAGGAATGCACTACATGTTGAATGGCTAG-AAGAAA
1512227 CTCC-ACAAGCTAGAGA
256 C-CCTACAAGCTAGAGA
1512243 TCAGTGACTG
Statistics
Matches: 239, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
275 1 0.00
276 90 0.38
277 70 0.29
278 6 0.03
279 72 0.30
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (275 bp):
TATATATTTTTAATGATCAAATTGTCAATCGAGGACCCCGAAAAACCTGACCATGTAACCAATCA
GCCATTAGATGAAGGTATTAGGGCAATTGCTCAGTCATGCAAGCGACTCGAGGTTATCAATCTCC
AGCGCTGTGACCAATCAGGTTTTTCTTTACATAGGAATATATGCCGAACAACTCGAAATGTCGTC
CATCGCTTTTCTGCCGACAACGACAAAGGAATGCACTACATGTTGAATGGCTAGAAGAAACCCTA
CAAGCTAGAGAAATA
Found at i:1513110 original size:23 final size:24
Alignment explanation
Indices: 1513084--1513133 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1513074 TTAATTTTTG
1513084 TTTGGT-TGTTA-TTTGTGTAAAAA
1 TTTGGTGTGTTAGTTT-TGTAAAAA
*
1513107 TTTGGTGTGTTAGTTTTGTAAATA
1 TTTGGTGTGTTAGTTTTGTAAAAA
1513131 TTT
1 TTT
1513134 TTAGAAGGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 15 0.62
25 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (24 bp):
TTTGGTGTGTTAGTTTTGTAAAAA
Found at i:1517864 original size:17 final size:17
Alignment explanation
Indices: 1517838--1517878 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1517828 AAAATCAAGG
* *
1517838 AACCAACACTGTTCATC
1 AACCAGCACTGCTCATC
1517855 AACCAGCACTGCTCATC
1 AACCAGCACTGCTCATC
1517872 AACCAGC
1 AACCAGC
1517879 TCGGCAGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.34, C:0.39, G:0.10, T:0.17
Consensus pattern (17 bp):
AACCAGCACTGCTCATC
Found at i:1522874 original size:14 final size:15
Alignment explanation
Indices: 1522855--1522889 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
1522845 CCCACTTTGT
1522855 AAAAAAAAG-AAAAG
1 AAAAAAAAGAAAAAG
1522869 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
1522884 AAAAAA
1 AAAAAA
1522890 TGAAGCTGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:1523529 original size:20 final size:20
Alignment explanation
Indices: 1523504--1523546 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1523494 TCTAAAAGCC
*
1523504 CATTTAGGATCATATAGATG
1 CATTTAGGAGCATATAGATG
*
1523524 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
1523544 CAT
1 CAT
1523547 GTGGTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:1526220 original size:79 final size:78
Alignment explanation
Indices: 1526089--1526352 Score: 341
Period size: 79 Copynumber: 3.3 Consensus size: 78
1526079 AGTCCTTAAG
* * *
1526089 GATCTAAGGATAT-CATGGGTAGGCCCAAGGCATATCCTTAGGTTGGTTTCCTTTGTTGTGTGCA
1 GATCTAAGGATATCCTTGGGTAGG-CCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTGTGCT
1526153 TAAGGTAACCCTAC
65 TAAGGTAACCCTAC
*
1526167 AGATCTAAGGATGTCCTTGGGTAGGCCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTGTGCT
1 -GATCTAAGGATATCCTTGGGTAGGCCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTGTGCT
1526232 TAAGGTAACCCTAC
65 TAAGGTAACCCTAC
* * * * * * * * *
1526246 GAACAAAAGATATCCTTGGGTAGACTCAACGTATATCTTTAGGTTGGTTGCTTTTTGCTGTGTGC
1 GATCTAAGGATATCCTTGGGTAGGC-CAAGGCATATCCTTAGGTTGGTTTC-CTTTGCTGTGTGC
*
1526311 TTAAGGTAACCTTAC
64 TTAAGGTAACCCTAC
*
1526326 GGATCTAAGGATATCCTTGAGTAGGCC
1 -GATCTAAGGATATCCTTGGGTAGGCC
1526353 CATAGACCCC
Statistics
Matches: 161, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
78 20 0.12
79 85 0.53
80 36 0.22
81 20 0.12
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (78 bp):
GATCTAAGGATATCCTTGGGTAGGCCAAGGCATATCCTTAGGTTGGTTTCCTTTGCTGTGTGCTT
AAGGTAACCCTAC
Found at i:1529762 original size:13 final size:13
Alignment explanation
Indices: 1529739--1529773 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1529729 TGAATGGTAG
1529739 GGTGTTTAAAATTC
1 GGTG-TTAAAATTC
1529753 GGTGTTAAAATTC
1 GGTGTTAAAATTC
1529766 GGT-TTAAA
1 GGTGTTAAA
1529774 TCGAATTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 5 0.24
13 12 0.57
14 4 0.19
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.40
Consensus pattern (13 bp):
GGTGTTAAAATTC
Found at i:1530225 original size:185 final size:184
Alignment explanation
Indices: 1529911--1530299 Score: 658
Period size: 185 Copynumber: 2.1 Consensus size: 184
1529901 ATAAAATTGT
1529911 AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAA
* *
1529976 TTTAAGATTCAATAACTTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAATTTT
66 TTTAAGATCCAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAATTTT
*
1530041 TATTTTATAATTATATATTATTTAAATTAATTGTAAA-TTGTTTTTCTGAATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACTT-TTTTT-TGAATTAAA
*
1530096 AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCTTTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAA
*
1530161 TTTAAGATCCAATAAATTTTAAACTTAAATCAATATTAATTAATTAAAAAA-TTATATAAAATTT
66 TTTAAGATCCAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATAT-AAATTT
*
1530225 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTATA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
* *
1530280 AAATATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
1530300 AATTAGAAAA
Statistics
Matches: 194, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
183 8 0.04
184 24 0.12
185 160 0.82
186 2 0.01
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAAATTTTAAACATAAATCAATATTAATTAATTAAAAAATTTATATAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
Found at i:1532464 original size:2 final size:2
Alignment explanation
Indices: 1532457--1532554 Score: 58
Period size: 2 Copynumber: 55.0 Consensus size: 2
1532447 GAAAATATTT
* *
1532457 TA TA TA TA -A T- TA -A TA TA -A AA TA TA TA -A AA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1532493 AA TA T- TA TA TA TA TA TA -A T- TA -A TA TA AA AA TA TA -A AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1532530 TA T- TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1532555 ATTGGGGCGG
Statistics
Matches: 78, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
1 12 0.15
2 66 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1532508 original size:45 final size:43
Alignment explanation
Indices: 1532448--1532557 Score: 161
Period size: 45 Copynumber: 2.5 Consensus size: 43
1532438 CCTGAACCCG
1532448 AAAATATT-T-TATATATAATTAATATAAAATATATAAAATATAT
1 AAAATATTATATATATATAATTAATATAAAA-ATATAAAATAT-T
1532491 AAAATATTATATATATATAATTAATATAAAAATATAAAATATT
1 AAAATATTATATATATATAATTAATATAAAAATATAAAATATT
*
1532534 ATATATATATATATATATATAATT
1 A-AAATAT-TATATATATATAATT
1532558 GGGGCGGGGC
Statistics
Matches: 62, Mismatches: 1, Indels: 6
0.90 0.01 0.09
Matches are distributed among these distances:
43 10 0.16
44 17 0.27
45 35 0.56
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (43 bp):
AAAATATTATATATATATAATTAATATAAAAATATAAAATATT
Found at i:1536052 original size:6 final size:6
Alignment explanation
Indices: 1536041--1536071 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1536031 TCGTCTCATC
*
1536041 TCGTGG TCGTGG TCGTGG TCGTGC TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1536072 AATACGTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.00, C:0.19, G:0.45, T:0.35
Consensus pattern (6 bp):
TCGTGG
Found at i:1536213 original size:21 final size:21
Alignment explanation
Indices: 1536189--1536257 Score: 111
Period size: 21 Copynumber: 3.3 Consensus size: 21
1536179 TTTGGAATAA
*
1536189 ATCGCAACGTGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
* *
1536210 ATCGCAATGCGAACTTGGACT
1 ATCGCAACGCGAACTTCGACT
1536231 ATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTCGACT
1536252 ATCGCA
1 ATCGCA
1536258 TTGCGATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGAACTTCGACT
Found at i:1536235 original size:42 final size:43
Alignment explanation
Indices: 1536164--1536263 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 43
1536154 TGCGATTTTG
* *
1536164 GACTATCGCAA--CGAATTTGGAATAAATCGCAACGTGAACTTC
1 GACTATCGCAATGCGAACTTGGAAT-AATCGCAACGCGAACTTC
*
1536206 GACTATCGCAATGCGAACTTGGACT-ATCGCAACGCGAACTTC
1 GACTATCGCAATGCGAACTTGGAATAATCGCAACGCGAACTTC
*
1536248 GACTATCGCATTGCGA
1 GACTATCGCAATGCGA
1536264 TTTACATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
42 42 0.81
44 10 0.19
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (43 bp):
GACTATCGCAATGCGAACTTGGAATAATCGCAACGCGAACTTC
Found at i:1536324 original size:21 final size:21
Alignment explanation
Indices: 1536298--1536437 Score: 194
Period size: 21 Copynumber: 6.7 Consensus size: 21
1536288 CCAAGTTCGC
1536298 AAGTTCGCATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
* *
1536319 AAGTTCGCGTTGCGATAGTCC
1 AAGTTCGCATTGCGATAGTCG
* **
1536340 AAGTTCGCATTGCGAT-TTAT
1 AAGTTCGCATTGCGATAGTCG
*
1536360 ATA-TTCGCATTGCGATAGTCC
1 A-AGTTCGCATTGCGATAGTCG
1536381 AAGTTCGCATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
1536402 AAGTTCGCATTGCGATAGTCG
1 AAGTTCGCATTGCGATAGTCG
*
1536423 AAGTTCGCGTTGCGA
1 AAGTTCGCATTGCGA
1536438 ATCTGAAAAC
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
20 16 0.15
21 89 0.85
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (21 bp):
AAGTTCGCATTGCGATAGTCG
Found at i:1536398 original size:62 final size:62
Alignment explanation
Indices: 1536301--1536417 Score: 207
Period size: 62 Copynumber: 1.9 Consensus size: 62
1536291 AGTTCGCAAG
* *
1536301 TTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAGTTCGCATTGCGATTTATATA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTATATA
*
1536363 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGCGAT
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGAT
1536418 AGTCGAAGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (62 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTATATA
Found at i:1541601 original size:2 final size:2
Alignment explanation
Indices: 1541589--1541619 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1541579 AGGTAACATA
1541589 AT AT A- 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
1541620 GTATTCCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1542182 original size:21 final size:21
Alignment explanation
Indices: 1542156--1542208 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
1542146 ATCTAAATGA
* *
1542156 ATAAAATTTAAAATTTTAATT
1 ATAAAATTAAAAAATTTAATT
1542177 ATAAAATTAAAAAATTTAAATT
1 ATAAAATTAAAAAATTT-AATT
*
1542199 -TTAAATTAAA
1 ATAAAATTAAA
1542209 TGATCTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 24 0.86
22 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATAAAATTAAAAAATTTAATT
Found at i:1547297 original size:30 final size:30
Alignment explanation
Indices: 1547254--1547456 Score: 203
Period size: 30 Copynumber: 6.8 Consensus size: 30
1547244 ACAGCAACGA
* * *
1547254 CAGCAACAACAGTTGGAGA-TTCAGCTGCTG
1 CAGCAGCAGCAGTTGGA-ACTTCAGCTGCGG
*
1547284 CAGCAGCAGCAGTTGGAGA-TTCAGCTGCTG
1 CAGCAGCAGCAGTTGGA-ACTTCAGCTGCGG
* *
1547314 CAGCAGCAACAGTTGGAACTTCAGTTGCGG
1 CAGCAGCAGCAGTTGGAACTTCAGCTGCGG
* * *
1547344 CAGCAGCAGCAGCTGGAACTTCAGCGGCGA
1 CAGCAGCAGCAGTTGGAACTTCAGCTGCGG
* * * **
1547374 CACCAGCAGCAGTTGGAATTTCAGCAGAAG
1 CAGCAGCAGCAGTTGGAACTTCAGCTGCGG
* * * * *
1547404 CACCAGAAGCAGTTGGAACTTGAACGGCGG
1 CAGCAGCAGCAGTTGGAACTTCAGCTGCGG
1547434 CAGCAGCAGCAGTTGGAACTTCA
1 CAGCAGCAGCAGTTGGAACTTCA
1547457 ACGGCAACAG
Statistics
Matches: 145, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
29 1 0.01
30 144 0.99
ACGTcount: A:0.29, C:0.25, G:0.30, T:0.17
Consensus pattern (30 bp):
CAGCAGCAGCAGTTGGAACTTCAGCTGCGG
Found at i:1547417 original size:90 final size:90
Alignment explanation
Indices: 1547287--1547473 Score: 234
Period size: 90 Copynumber: 2.1 Consensus size: 90
1547277 GCTGCTGCAG
* ** * ***
1547287 CAGCAGCAGTTGGAGATTCAGCTGCTGCAGCAGCAACAGTTGGAACTTCAGTTGCGGCAGCAGCA
1 CAGCAGCAGTTGGAGATTCAGCAGAAGCACCAGCAACAGTTGGAACTTCAACGGCGGCAGCAGCA
* *
1547352 GCAGCTGGAACTTCAGCGGCGACAC
66 GCAGCTGGAACTTCAACGGCAACAC
*
1547377 CAGCAGCAGTTGGA-ATTTCAGCAGAAGCACCAG-AAGCAGTTGGAACTTGAACGGCGGCAGCAG
1 CAGCAGCAGTTGGAGA-TTCAGCAGAAGCACCAGCAA-CAGTTGGAACTTCAACGGCGGCAGCAG
* *
1547440 CAGCAGTTGGAACTTCAACGGCAACAG
64 CAGCAGCTGGAACTTCAACGGCAACAC
1547467 CAGCAGC
1 CAGCAGC
1547474 TTCGTCACCA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 3 0.04
90 80 0.96
ACGTcount: A:0.29, C:0.26, G:0.30, T:0.15
Consensus pattern (90 bp):
CAGCAGCAGTTGGAGATTCAGCAGAAGCACCAGCAACAGTTGGAACTTCAACGGCGGCAGCAGCA
GCAGCTGGAACTTCAACGGCAACAC
Found at i:1550106 original size:2 final size:2
Alignment explanation
Indices: 1550099--1550126 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1550089 TGTAGAAGTA
1550099 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
1550127 TATTTCATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1555809 original size:27 final size:27
Alignment explanation
Indices: 1555779--1555855 Score: 127
Period size: 27 Copynumber: 2.9 Consensus size: 27
1555769 CTTCAATTTG
*
1555779 AACAGCATCGGCAATTGGAACTTGAGC
1 AACAGCATCGGCAGTTGGAACTTGAGC
1555806 AACAGCATCGGCAGTTGGAACTTGAGC
1 AACAGCATCGGCAGTTGGAACTTGAGC
* *
1555833 AACAGCAGCTGCAGTTGGAACTT
1 AACAGCATCGGCAGTTGGAACTT
1555856 CAGCGGCGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.19
Consensus pattern (27 bp):
AACAGCATCGGCAGTTGGAACTTGAGC
Done.