Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 2 of 218
Found at i:465108 original size:17 final size:16
Alignment explanation
Indices: 465076--465109 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
465066 TTGGCTATTC
*
465076 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
465092 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
465109 T
1 T
465110 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:465157 original size:14 final size:14
Alignment explanation
Indices: 465098--465148 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
465088 CTTTTGTTTC
*
465098 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
465111 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
465126 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
465140 TTTTATTTC
1 TTTTATTTC
465149 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:465317 original size:14 final size:17
Alignment explanation
Indices: 465298--465334 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
465288 ATTTATTTCT
465298 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
465312 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
465329 TAATAT
1 TAATAT
465335 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:470308 original size:21 final size:21
Alignment explanation
Indices: 470266--470308 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
470256 TTCAGTATAC
*
470266 ATTCTTTCATCAGTATCATTT
1 ATTCTTTCATCAGCATCATTT
*
470287 ATTCTTTCTTCAGACATC-TTT
1 ATTCTTTCATCAG-CATCATTT
470308 A
1 A
470309 ATCTATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.23, C:0.21, G:0.05, T:0.51
Consensus pattern (21 bp):
ATTCTTTCATCAGCATCATTT
Found at i:471418 original size:39 final size:37
Alignment explanation
Indices: 471351--471443 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
471341 ACCAGAATGG
* *
471351 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
471390 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
471427 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
471444 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:471806 original size:3 final size:3
Alignment explanation
Indices: 471798--471841 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
471788 ATTCCCACTC
* * *
471798 ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA A-A TTA ATA CTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
471842 TTATACTTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 1 0.03
3 33 0.97
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:472133 original size:17 final size:16
Alignment explanation
Indices: 472101--472134 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
472091 TTGGCTATTC
*
472101 TGTTTCTTTCTTCTTT
1 TGTTTCTTTATTCTTT
472117 TGTTTCTTTTATTCTTT
1 TGTTTC-TTTATTCTTT
472134 T
1 T
472135 ATTTTAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.03, C:0.15, G:0.06, T:0.76
Consensus pattern (16 bp):
TGTTTCTTTATTCTTT
Found at i:472182 original size:14 final size:14
Alignment explanation
Indices: 472123--472173 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
472113 CTTTTGTTTC
*
472123 TTTTA-TTCTTTTA
1 TTTTATTTCCTTTA
* *
472136 TTTTAACTTACTTTA
1 TTTT-ATTTCCTTTA
*
472151 CTTTATTTCCTTTA
1 TTTTATTTCCTTTA
472165 TTTTATTTC
1 TTTTATTTC
472174 TTTTGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 4 0.13
14 17 0.57
15 9 0.30
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTTCCTTTA
Found at i:472342 original size:14 final size:17
Alignment explanation
Indices: 472323--472359 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
472313 ATTTATTTCT
472323 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
472337 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
472354 TAATAT
1 TAATAT
472360 CCTTTATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 8 0.40
15 1 0.05
16 4 0.20
17 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:483464 original size:30 final size:30
Alignment explanation
Indices: 483428--483489 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
483418 AGGGGGAGGC
*
483428 GGCATTCCAGGGCGTGGGGGTGGTGGAGCA
1 GGCATTCCAGGGCGTGGGGGTGGTGGACCA
*
483458 GGCATTCCAGGGCGTGGTGGTGGTGGACCA
1 GGCATTCCAGGGCGTGGGGGTGGTGGACCA
483488 GG
1 GG
483490 AGGTCCTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.18, G:0.52, T:0.18
Consensus pattern (30 bp):
GGCATTCCAGGGCGTGGGGGTGGTGGACCA
Found at i:485436 original size:49 final size:50
Alignment explanation
Indices: 485382--485483 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 50
485372 CACTAATTCG
** *
485382 ATAAAAAACAAAAATATAAGATATATATGAT-AAATTAATATAATTATAC
1 ATAAAAAACAAAAATATAAGATATATAAAATAAAATAAATATAATTATAC
* * * *
485431 ATAAAAGATAGAAATATAAGATATATAAAATAAAATAAATATAGTTATAC
1 ATAAAAAACAAAAATATAAGATATATAAAATAAAATAAATATAATTATAC
485481 ATA
1 ATA
485484 TGATGAATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
49 26 0.58
50 19 0.42
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (50 bp):
ATAAAAAACAAAAATATAAGATATATAAAATAAAATAAATATAATTATAC
Found at i:488596 original size:25 final size:27
Alignment explanation
Indices: 488553--488602 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
488543 AATGAGTAGA
* *
488553 TTTGAATACAAAAGAAGAGA-AAAAGC
1 TTTGAAGACAAAAAAAGAGAGAAAAGC
488579 TTTGAAGA-AAAAAAAGAGAGAAAA
1 TTTGAAGACAAAAAAAGAGAGAAAA
488603 AGAGGTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.62, C:0.04, G:0.20, T:0.14
Consensus pattern (27 bp):
TTTGAAGACAAAAAAAGAGAGAAAAGC
Found at i:495717 original size:15 final size:15
Alignment explanation
Indices: 495697--495726 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
495687 AGGACTAAAC
495697 AAATTTTTTTTTCAT
1 AAATTTTTTTTTCAT
495712 AAATTTTTTTTTCAT
1 AAATTTTTTTTTCAT
495727 TTTAAGGGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
AAATTTTTTTTTCAT
Found at i:497184 original size:18 final size:19
Alignment explanation
Indices: 497150--497191 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
497140 ATCACATGTT
*
497150 TAAAATGAAAAT-TAAAAA
1 TAAAATGAAAATGAAAAAA
497168 TAAAAT-AAAATCGAAAAAA
1 TAAAATGAAAAT-GAAAAAA
497187 TAAAA
1 TAAAA
497192 ATGCGCTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 6 0.29
19 10 0.48
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (19 bp):
TAAAATGAAAATGAAAAAA
Found at i:531764 original size:31 final size:32
Alignment explanation
Indices: 531721--531797 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 32
531711 TCAAAATTAG
*
531721 ACAT-AAACTTTGATTTAATGTACAATTGTAT
1 ACATGAAATTTTGATTTAATGTACAATTGTAT
* * *
531752 ACATG-AATTTTGA--TATTGTATAATTTTAT
1 ACATGAAATTTTGATTTAATGTACAATTGTAT
*
531781 ACATGAAATTTTTATTT
1 ACATGAAATTTTGATTT
531798 GATTAAATTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
29 18 0.49
30 7 0.19
31 11 0.30
32 1 0.03
ACGTcount: A:0.36, C:0.06, G:0.09, T:0.48
Consensus pattern (32 bp):
ACATGAAATTTTGATTTAATGTACAATTGTAT
Found at i:534000 original size:29 final size:28
Alignment explanation
Indices: 533963--534017 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
533953 TATATATTAA
** *
533963 TTTGATTGATTTGTTTTTATTTTTATTT
1 TTTGATTGATTAATTTTAATTTTTATTT
533991 TTTGTATTGATTAATTTTAATTTTTAT
1 TTTG-ATTGATTAATTTTAATTTTTAT
534018 AATTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.20, C:0.00, G:0.09, T:0.71
Consensus pattern (28 bp):
TTTGATTGATTAATTTTAATTTTTATTT
Found at i:537293 original size:36 final size:36
Alignment explanation
Indices: 537246--537333 Score: 140
Period size: 36 Copynumber: 2.4 Consensus size: 36
537236 ACCGTTTACG
537246 GTACTATTCACGTATATAGCACTATTCACATATACA
1 GTACTATTCACGTATATAGCACTATTCACATATACA
* * *
537282 GTACTATTCACGTATATGGCACTATTCACGTATACG
1 GTACTATTCACGTATATAGCACTATTCACATATACA
*
537318 GTACTGTTCACGTATA
1 GTACTATTCACGTATA
537334 CAGTAGTTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (36 bp):
GTACTATTCACGTATATAGCACTATTCACATATACA
Found at i:537327 original size:18 final size:18
Alignment explanation
Indices: 537242--537334 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
537232 TACGACCGTT
537242 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
** * *
537260 TATAGCACTATTCACATA
1 TACGGTACTATTCACGTA
*
537278 TACAGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
537296 TATGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
537314 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
537332 TAC
1 TAC
537335 AGTAGTTGGG
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:543448 original size:16 final size:17
Alignment explanation
Indices: 543423--543456 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
543413 GAAAATTTTG
543423 AATAAATAA-TTAATTC
1 AATAAATAATTTAATTC
*
543439 AATAATTAATTTAATTC
1 AATAAATAATTTAATTC
543456 A
1 A
543457 TGTGACAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
AATAAATAATTTAATTC
Found at i:545304 original size:16 final size:15
Alignment explanation
Indices: 545283--545330 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
545273 GATGTGAATA
545283 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
545299 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
545314 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
545330 A
1 A
545331 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:545306 original size:24 final size:24
Alignment explanation
Indices: 545279--545334 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
545269 TAATGATGTG
*
545279 AATAATAAAATATATAAAATA-TAA
1 AATAATAAAATAT-CAAAATATTAA
* *
545303 AATATTAAAATATCAAAATATTAG
1 AATAATAAAATATCAAAATATTAA
545327 AATAATAA
1 AATAATAA
545335 TAATTAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (24 bp):
AATAATAAAATATCAAAATATTAA
Found at i:545313 original size:8 final size:8
Alignment explanation
Indices: 545279--545330 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
545269 TAATGATGTG
*
545279 AATAATAA
1 AATATTAA
545287 AATATATAA
1 AATAT-TAA
545296 AATA-TAA
1 AATATTAA
545303 AATATTAA
1 AATATTAA
*
545311 AATATCAA
1 AATATTAA
*
545319 AATATTAG
1 AATATTAA
545327 AATA
1 AATA
545331 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:545498 original size:20 final size:20
Alignment explanation
Indices: 545446--545502 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
545436 ATACTACATC
*
545446 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
545467 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
545486 AATATGTACATAATATA
1 AATATGTACATAATATA
545503 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:545544 original size:22 final size:24
Alignment explanation
Indices: 545481--545545 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
545471 CGTGATAATA
*
545481 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
545506 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
545529 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
545546 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:545570 original size:30 final size:29
Alignment explanation
Indices: 545534--545593 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
545524 TATAGTTAAG
*
545534 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATAAATAAGATAACAT-TAAAAATAT
* * *
545564 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAAATAT
545593 A
1 A
545594 AACATAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 9 0.35
30 17 0.65
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.33
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAAATAT
Found at i:545592 original size:25 final size:25
Alignment explanation
Indices: 545564--545697 Score: 70
Period size: 25 Copynumber: 5.6 Consensus size: 25
545554 GTAAAAATAT
545564 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
545589 ATATA-AACATAAAATAGTATAAAAT
1 ATATATAA-ATAATATAATATTAAAG
* *
545614 ATATATATACGTAATATAGA-ATTTAA-
1 ATATATA-A-ATAATATA-ATATTAAAG
** *
545640 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
545662 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
545685 AAATAT-AATAATA
1 ATATATAAATAATA
545698 ACAAAAAAAG
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
21 4 0.05
22 12 0.14
23 18 0.22
24 7 0.08
25 28 0.34
26 2 0.02
27 12 0.14
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.34
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:546249 original size:30 final size:30
Alignment explanation
Indices: 546212--546387 Score: 253
Period size: 30 Copynumber: 5.8 Consensus size: 30
546202 TAGGTACAAG
* *
546212 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
546242 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
546272 TGGTGGTGGACAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
546302 TGATGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAGGAGTGGCTAGTGGAGT
*
546333 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
546363 TGGTGGTGGAAAAGGAGTAGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
546388 TGAGAAAAGT
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
30 102 0.80
31 26 0.20
ACGTcount: A:0.24, C:0.04, G:0.47, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:546342 original size:61 final size:61
Alignment explanation
Indices: 546212--546375 Score: 278
Period size: 61 Copynumber: 2.7 Consensus size: 61
546202 TAGGTACAAG
*
546212 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTT-AGTGGTGG-AAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGA-TGGTGGAAAAAAGAGTGGCTAGTGGAGT
*
546272 TGGTGGTGGACAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAAAGAGTGGCTAGTGGAGT
*
546333 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAA
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAA
546376 GGAGTAGCTA
Statistics
Matches: 99, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
60 36 0.36
61 63 0.64
ACGTcount: A:0.24, C:0.04, G:0.48, T:0.25
Consensus pattern (61 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGATGGTGGAAAAAAGAGTGGCTAGTGGAGT
Found at i:547180 original size:72 final size:74
Alignment explanation
Indices: 547099--547278 Score: 265
Period size: 76 Copynumber: 2.4 Consensus size: 74
547089 TGTGAACCCA
*
547099 AGGCTCAACTCACATCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATT-AAAATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
547162 CGTGTCCTG
66 CGTGTCCTG
* * * *
547171 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAATAGAAATTGAAATTACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAACAGAAATTGAAAATACCTC
547236 AGCGTGTCCTG
64 AGCGTGTCCTG
* *
547247 AGGCTCAACTCACCTCTAGCAATATGAATTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA
547279 AAAAAATACC
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 31 0.32
75 16 0.16
76 50 0.52
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (74 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAATACCTCAG
CGTGTCCTG
Found at i:547538 original size:71 final size:72
Alignment explanation
Indices: 547301--548080 Score: 782
Period size: 81 Copynumber: 10.7 Consensus size: 72
547291 AGTGTGTAAT
* *
547301 CTGA-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTGAAAATACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-GAAAACAGAAATTGAAATTACCTC
*
547365 AGCATGTGAAC
65 AGC--GTG-TC
*
547376 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCT
547440 CA-CGTGTC
64 CAGCGTGTC
*
547448 TTGAGGCTCAACTCA--TCTCGCAATATGAGTTGA-TTTTGAAAACAGAAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
547510 GCGTGTC
66 GCGTGTC
* **
547517 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAACAGAAATTGAAAACAGAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAA-A-ACA--G-AAATTGAAATT
547582 GAAAAACCTCAGCGTG-C
60 -----ACCTCAGCGTGTC
547599 C-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAACAGAAATTGAAATTACCTC
547663 AGCGTGTC
65 AGCGTGTC
547671 C-GAGGCTCAACTCACCTCTCGCAATATGAG-TG-TTTTTGAAAAACAGAAATTGAAAACAGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATT-------GAAA
** ** *
547733 TTGAAAATACCTCAGCGT-
58 TT--ACCT-CAGC-GTGTC
* * *
547751 GTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG--AACATAAATT-AAA-AACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAACAGAAATTGAAATTACCTC
547812 A--GTGT-
65 AGCGTGTC
547817 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACA-AAATTGAAATTACCTCA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
547881 GC--GT-
66 GCGTGTC
*
547885 CTGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTTTTGAAACAAAATAAAAAGAAATTGAAA
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-------A-AAACAGAAATTGAAA
547949 -TACCTCAGCGTGTC
58 TTACCTCAGCGTGTC
547963 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA------AAACACA-AAATTGAAATTACCTC
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ACAGAAATTGAAATTACCTC
548021 AGCGTG-C
65 AGCGTGTC
* *
548028 CTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATT
1 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATT
548081 AAAAGGCTTA
Statistics
Matches: 612, Mismatches: 28, Indels: 134
0.79 0.04 0.17
Matches are distributed among these distances:
65 52 0.08
66 57 0.09
67 32 0.05
68 51 0.08
69 21 0.03
70 22 0.04
71 58 0.09
72 32 0.05
73 26 0.04
74 4 0.01
75 47 0.08
76 42 0.07
77 15 0.02
78 24 0.04
79 23 0.04
80 10 0.02
81 75 0.12
82 4 0.01
83 11 0.02
84 6 0.01
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (72 bp):
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCA
GCGTGTC
Found at i:547577 original size:13 final size:13
Alignment explanation
Indices: 547559--547586 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
547549 TGATTTTTTG
547559 AACAGAAATTGAA
1 AACAGAAATTGAA
547572 AACAGAAATTGAA
1 AACAGAAATTGAA
547585 AA
1 AA
547587 ACCTCAGCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.64, C:0.07, G:0.14, T:0.14
Consensus pattern (13 bp):
AACAGAAATTGAA
Found at i:547717 original size:153 final size:153
Alignment explanation
Indices: 547415--547997 Score: 751
Period size: 153 Copynumber: 3.9 Consensus size: 153
547405 GTTGATTTTT
547415 TTGAAAACAGAAATTGAAAATACCTCA-CGTGTCTTGAGGCTCAACTCA-TCTCGCAATATGAGT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTG-C-TGAGGCTCAACTCACTCTCGCAATATGAGT
547478 TGA-TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
64 TGATTTTTGAAAACAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
547542 TATGAGTTGATTTTTTG--AACAGAAA
128 TATGAGTTGA-TTTTTGAAAACAGAAA
*
547567 TTGAAAACAGAAATTGAAAA-ACCTCAGCGTGCCGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGCTGAGGCTCAACTCA-CTCTCGCAATATGAGTT
547631 GATTTTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCC-GAGGCTCAACTCACCTCTCGCAA
65 GATTTTTGA-AAACAGAAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAA
547695 TATGAG-TG-TTTTTGAAAAACAGAAA
128 TATGAGTTGATTTTTG-AAAACAGAAA
547720 TTGAAAACAGAAATTGAAAATACCTCAGCGTG-TGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGCTGAGGCTCAACTCA-CTCTCGCAATATGAGTT
* *
547784 GATTTTTTG--AACATAAATT-AAAAACCTCA--GTGT-CTGAGGCTCAACTCACCTCTCGCAAT
65 GA-TTTTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
547843 ATGAGTTGATTTTTGAAAACA-AAA
129 ATGAGTTGATTTTTGAAAACAGAAA
547867 TT-------GAAA-T-----TACCTCAGCGT-CTGAGGCTCAACTCACTCTCGCAATATGAGTTG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGCTGAGGCTCAACTCACTCTCGCAATATGAGTTG
*
547918 ATTTTTGAAACAAAATAAAAAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
66 ATTTTTG-------A-AAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCT
547983 CGCAATATGAGTTGA
123 CGCAATATGAGTTGA
547998 AAACACAAAA
Statistics
Matches: 396, Mismatches: 7, Indels: 62
0.85 0.02 0.13
Matches are distributed among these distances:
132 6 0.02
133 19 0.05
134 25 0.06
139 1 0.00
140 4 0.01
142 8 0.02
143 9 0.02
145 4 0.01
146 36 0.09
147 38 0.10
148 8 0.02
149 12 0.03
150 22 0.06
151 16 0.04
152 44 0.11
153 96 0.24
154 48 0.12
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.27
Consensus pattern (153 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGCTGAGGCTCAACTCACTCTCGCAATATGAGTTG
ATTTTTGAAAACAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTTTTGAAAACAGAAA
Found at i:547725 original size:14 final size:14
Alignment explanation
Indices: 547706--547739 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
547696 ATGAGTGTTT
547706 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
547720 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
547733 TTGAAAA
1 TTGAAAA
547740 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.62, C:0.06, G:0.15, T:0.18
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:547847 original size:66 final size:66
Alignment explanation
Indices: 547724--548070 Score: 361
Period size: 66 Copynumber: 5.0 Consensus size: 66
547714 CAGAAATTGA
*
547724 AAACAGAAATTGAAAATACCTCAGCGTGTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAACA-AAATTGAAAA-ACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TT
547789 TTTG
63 TTTG
*
547793 -AACATAAATT-AAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAACA-AAATTGAAAAACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
547856 TG
65 TG
*
547858 AAAACAAAATTGAAATTACCTCAGCGTCTGAGGCTCAACTCA-CTCTCGCAATATGAGTTGATTT
1 -AAACAAAATTGAAA-AACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
547922 TTG
64 TTG
*
547925 AAACAAAATAAAAAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 AAAC---------A-AAATTGAAAAACCTCAGC--GT-CTGAGGCTCAACTCACCTCTCGCAATA
*
547990 TGAGTTGA-----A
53 TGAGTTGATTTTTG
* *
547999 AACACAAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-
1 AA-ACAAAATTGAAA-AACCTCAGCGT--CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
548063 TTTTG
62 TTTTG
548068 AAA
1 AAA
548071 AACAAAAATT
Statistics
Matches: 245, Mismatches: 8, Indels: 51
0.81 0.03 0.17
Matches are distributed among these distances:
64 2 0.01
65 50 0.20
66 62 0.25
67 36 0.15
68 34 0.14
69 2 0.01
74 2 0.01
75 12 0.05
76 9 0.04
77 2 0.01
78 15 0.06
79 19 0.08
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (66 bp):
AAACAAAATTGAAAAACCTCAGCGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
G
Found at i:547995 original size:146 final size:138
Alignment explanation
Indices: 547720--548070 Score: 417
Period size: 134 Copynumber: 2.6 Consensus size: 138
547710 AAAACAGAAA
* * * *
547720 TTGAAAACA-GAAATTGAAAATACCTCAGCGT-GTGAGGCTCAACTCACCTCTCGCAATATGAGT
1 TTGAAAACACAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
547783 TGATTTTTTG-AAC---AT------AAATTAAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTC
66 TGA--TTTTGAAACAAAATAAAAAGAAATTAAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTC
547838 GCAATATGAG
129 GCAATATGAG
*
547848 TTGATTTTTGAAA-ACAAAATTGAAATTACCTCAGCGT-CTGAGGCTCAACTCA-CTCTCGCAAT
1 TTGA------AAACACAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTCTAGCAAT
*
547910 ATGAGTTGATTTTTGAAACAAAATAAAAAGAAATTGAAATACCTCAGCGTGTCCTGAGGCTCAAC
60 ATGAGTTGA-TTTTGAAACAAAATAAAAAGAAATT-AAAAACCTCA--GTGT-CTGAGGCTCAAC
547975 TCACCTCTCGCAATATGAG
120 TCACCTCTCGCAATATGAG
547994 TTGAAAACACAAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTAGCAATATGAG
1 TTGAAAACACAAAATTGAAATTACCTCAGCGT-CCTGAGGCTCAACTCACCTCTAGCAATATGAG
548059 TTGATTTTGAAA
65 TTGATTTTGAAA
548071 AACAAAAATT
Statistics
Matches: 193, Mismatches: 5, Indels: 35
0.83 0.02 0.15
Matches are distributed among these distances:
128 4 0.02
132 6 0.03
133 23 0.12
134 37 0.19
136 2 0.01
140 3 0.02
141 24 0.12
142 5 0.03
143 32 0.17
144 18 0.09
145 4 0.02
146 35 0.18
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (138 bp):
TTGAAAACACAAAATTGAAATTACCTCAGCGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGT
TGATTTTGAAACAAAATAAAAAGAAATTAAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTCGC
AATATGAG
Found at i:548044 original size:65 final size:65
Alignment explanation
Indices: 547940--548062 Score: 221
Period size: 65 Copynumber: 1.9 Consensus size: 65
547930 AAATAAAAAG
*
547940 AAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAAACACA
1 AAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAAACACA
548005 AAATTGAAATTACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
1 AAATTGAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA
548063 TTTTGAAAAA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
65 44 0.79
66 12 0.21
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (65 bp):
AAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGAAAACACA
Found at i:548085 original size:146 final size:137
Alignment explanation
Indices: 547798--548070 Score: 397
Period size: 146 Copynumber: 1.9 Consensus size: 137
547788 TTTTGAACAT
547798 AAATTAAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAC
1 AAATTAAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----T-AAAAC
*
547863 AAAATTGAAATTACCTCAGCGTCTGAGGCTCAACTCACTCTCGCAATATGAGTTGATTTTTGAAA
61 AAAATTGAAATTACCTCAGCGTCTGAGGCTCAACTCACTCTAGCAATATGAGTTGATTTTTGAAA
547928 CAAAATAAAAAG
126 CAAAATAAAAAG
*
547940 AAATTGAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-AAACAC
1 AAATT-AAAAACCTCA--GTGT-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAA-AC
548004 AAAATTGAAATTACCTCAGCGTGCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTG
61 AAAATTGAAATTACCTCAGCGT--CTGAGGCTCAACTCA-CTCTAGCAATATGAGTTGATTTTTG
548068 AAA
123 AAA
548071 AACAAAAATT
Statistics
Matches: 121, Mismatches: 2, Indels: 15
0.88 0.01 0.11
Matches are distributed among these distances:
140 3 0.02
141 24 0.20
142 5 0.04
143 32 0.26
144 18 0.15
145 4 0.03
146 35 0.29
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (137 bp):
AAATTAAAAACCTCAGTGTCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAAACAAAAT
TGAAATTACCTCAGCGTCTGAGGCTCAACTCACTCTAGCAATATGAGTTGATTTTTGAAACAAAA
TAAAAAG
Found at i:548175 original size:122 final size:116
Alignment explanation
Indices: 547966--548204 Score: 318
Period size: 122 Copynumber: 2.0 Consensus size: 116
547956 GCGTGTCCTG
* * * *
547966 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAAACACAAAATTGAAATTACCTCAGCGTGCCTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAAACACAAAACTAAAAATACCTCAGCGTGCCCG
548031 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
66 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTG-AAAA-AAAAATTAAA
* * * *
548084 AGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACA-TAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACCTCTCGCAATATGAG----TTGAAAACACAAAACTAAAAATACCTCAGCGTG
* *
548148 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
62 -CCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
548204 A
1 A
548205 ATACCTCAAC
Statistics
Matches: 106, Mismatches: 10, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
118 27 0.25
120 11 0.10
121 22 0.21
122 46 0.43
ACGTcount: A:0.38, C:0.22, G:0.15, T:0.25
Consensus pattern (116 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAAACACAAAACTAAAAATACCTCAGCGTGCCCG
AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAAAAATTAAA
Found at i:548231 original size:70 final size:70
Alignment explanation
Indices: 548084--548258 Score: 212
Period size: 70 Copynumber: 2.5 Consensus size: 70
548074 AAAAATTAAA
* * * * * **
548084 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCGGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
548148 CCCCG
66 CCCCG
*
548153 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA-AAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
* **
548217 GTCTTG
65 GCCCCG
548223 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
548259 CCTTGGAAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
69 27 0.29
70 61 0.66
71 4 0.04
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:556314 original size:12 final size:12
Alignment explanation
Indices: 556294--556329 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
556284 TCGGATATGC
*
556294 AATGTATGAATG
1 AATGCATGAATG
556306 AATGCATGAATG
1 AATGCATGAATG
556318 AATGCATGAATG
1 AATGCATGAATG
556330 TCAAATGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.28
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:556990 original size:20 final size:20
Alignment explanation
Indices: 556938--556994 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
556928 ATACTACATC
*
556938 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
556959 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
556978 AATATGTACATAATATA
1 AATATGTACATAATATA
556995 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:557036 original size:22 final size:24
Alignment explanation
Indices: 556973--557037 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
556963 CGTGATAATA
*
556973 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
556998 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
557021 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
557038 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:557062 original size:30 final size:29
Alignment explanation
Indices: 557026--557093 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 29
557016 TATAGTTAAG
*
557026 ATATATACATAAGATAACATGTAAAAATAT
1 ATATATAAATAAGATAACAT-TAAAAATAT
* * *
557056 ATATATAAATAATATAATATTAAAGATAT
1 ATATATAAATAAGATAACATTAAAAATAT
*
557085 ATACATAAA
1 ATATATAAA
557094 ATAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
ATATATAAATAAGATAACATTAAAAATAT
Found at i:557186 original size:23 final size:25
Alignment explanation
Indices: 557143--557188 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
557133 TATACCTAAT
557143 ATATTAAAAGAATATATATAATATA
1 ATATTAAAAGAATATATATAATATA
*
557168 ATATTAAGA-AATATA-ATAATA
1 ATATTAAAAGAATATATATAATA
557189 ACAAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATTAAAAGAATATATATAATATA
Found at i:557740 original size:30 final size:30
Alignment explanation
Indices: 557703--557878 Score: 271
Period size: 30 Copynumber: 5.8 Consensus size: 30
557693 TAGGTACAAG
* *
557703 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
557733 TAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
557763 TGGTGGTGGACAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
557793 TGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGG-AAAAGGAGTGGCTAGTGGAGT
*
557824 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
557854 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
557879 TGAGAAAAGT
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
30 104 0.79
31 27 0.21
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:557839 original size:61 final size:60
Alignment explanation
Indices: 557703--557878 Score: 307
Period size: 61 Copynumber: 2.9 Consensus size: 60
557693 TAGGTACAAG
* *
557703 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTAGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
557763 TGGTGGTGGACAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGG-AAAAAGAGTGGCTAGTGGAGT
*
557824 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
557879 TGAGAAAAGT
Statistics
Matches: 111, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
60 52 0.47
61 59 0.53
ACGTcount: A:0.23, C:0.04, G:0.48, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:558446 original size:23 final size:22
Alignment explanation
Indices: 558411--558453 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
558401 TTCTAGTCTC
558411 TTAAAAATAATAAAATTATAAA
1 TTAAAAATAATAAAATTATAAA
*
558433 TTAATAAATGATAAAATTATA
1 TTAA-AAATAATAAAATTATA
558454 TTTTAGCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAAATAATAAAATTATAAA
Found at i:562635 original size:19 final size:20
Alignment explanation
Indices: 562608--562647 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
562598 TTTTTGAACA
* *
562608 ATTTAATTTTTTTTCTTTTT
1 ATTTAATTTATTTTCCTTTT
562628 ATTT-ATTTATTTTCCTTTT
1 ATTTAATTTATTTTCCTTTT
562647 A
1 A
562648 GTTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (20 bp):
ATTTAATTTATTTTCCTTTT
Found at i:571819 original size:3 final size:3
Alignment explanation
Indices: 571811--571858 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
571801 TTACTTTTCG
571811 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
571859 CCATTCAAAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:572492 original size:22 final size:23
Alignment explanation
Indices: 572467--572515 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
572457 AAATTTATAT
572467 ATTAATC-CTAAAAAATAAAAAA
1 ATTAATCTCTAAAAAATAAAAAA
* * *
572489 ATTAGTCTCTTAAAAATAATAAA
1 ATTAATCTCTAAAAAATAAAAAA
572512 ATTA
1 ATTA
572516 TAAATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (23 bp):
ATTAATCTCTAAAAAATAAAAAA
Found at i:572528 original size:23 final size:22
Alignment explanation
Indices: 572498--572540 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
572488 AATTAGTCTC
572498 TTAAAAATAATAAAATTATAAA
1 TTAAAAATAATAAAATTATAAA
* *
572520 TTAATAAATGATAATATTATA
1 TTAA-AAATAATAAAATTATA
572541 TTTTGGCCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TTAAAAATAATAAAATTATAAA
Found at i:579642 original size:6 final size:6
Alignment explanation
Indices: 579561--579640 Score: 142
Period size: 6 Copynumber: 13.3 Consensus size: 6
579551 CTATCTCTGC
*
579561 CCCTAT CTCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT
1 CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT
*
579609 CCCTAT CCCTAT CCCTAT CCCTAT CCTTAT CC
1 CCCTAT CCCTAT CCCTAT CCCTAT CCCTAT CC
579641 TTCCTATCTC
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.16, C:0.49, G:0.00, T:0.35
Consensus pattern (6 bp):
CCCTAT
Found at i:591530 original size:11 final size:11
Alignment explanation
Indices: 591510--591604 Score: 59
Period size: 11 Copynumber: 9.4 Consensus size: 11
591500 TAAAATTTAA
591510 AAAAAGTATTTT
1 AAAAA-TATTTT
591522 AAAAATATTTT
1 AAAAATATTTT
591533 --AAA-A-TTT
1 AAAAATATTTT
591540 AAAAA-A-TTT
1 AAAAATATTTT
591549 AAAAAGTATTTT
1 AAAAA-TATTTT
*
591561 --AAA-A-TTA
1 AAAAATATTTT
* *
591568 AAAAATA-ATA
1 AAAAATATTTT
591578 AAAAAGTATTTT
1 AAAAA-TATTTT
591590 AAAAATATTTT
1 AAAAATATTTT
591601 AAAA
1 AAAA
591605 TTAAAAAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 21
0.73 0.04 0.22
Matches are distributed among these distances:
7 5 0.07
8 2 0.03
9 18 0.26
10 11 0.16
11 19 0.28
12 14 0.20
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:591622 original size:18 final size:17
Alignment explanation
Indices: 591588--591621 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
591578 AAAAAGTATT
*
591588 TTAAAAATATTTTAAAA
1 TTAAAAAAATTTTAAAA
591605 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTTAAAA
591622 AATAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAAAATTTTAAAA
Found at i:591627 original size:18 final size:17
Alignment explanation
Indices: 591589--591627 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
591579 AAAAGTATTT
* *
591589 TAAAAATATTTTAAAAT
1 TAAAAAAATTTTAAAAA
591606 TAAAAAAATTTTAAAAAA
1 TAAAAAAATTTT-AAAAA
591624 TAAA
1 TAAA
591628 TATATTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAAAAATTTTAAAAA
Found at i:591634 original size:18 final size:17
Alignment explanation
Indices: 591589--591634 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
591579 AAAAGTATTT
*
591589 TAAAAATATTTTAAAAT
1 TAAAAATATTTTAAAAA
*
591606 TAAAAAAATTTTAAAAAA
1 TAAAAATATTTT-AAAAA
*
591624 TAAATATATTT
1 TAAAAATATTT
591635 ATTATATCAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAAAAATATTTTAAAAA
Found at i:595240 original size:2 final size:2
Alignment explanation
Indices: 595233--595267 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
595223 TAAATTTGGA
595233 AT AT AT 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 AT AT AT A
595268 GAAATATAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:596755 original size:15 final size:15
Alignment explanation
Indices: 596737--596768 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
596727 TAAATTGAAT
596737 ATATAAAAATAAAAA
1 ATATAAAAATAAAAA
*
596752 ATATGAAAATAAAAA
1 ATATAAAAATAAAAA
596767 AT
1 AT
596769 TACATTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (15 bp):
ATATAAAAATAAAAA
Found at i:596810 original size:28 final size:28
Alignment explanation
Indices: 596779--596842 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
596769 TACATTGTAA
**
596779 TTTACAATATTTTTTTATTTTTT-TAATG
1 TTTACAATATTTTTAAATTTTTTGT-ATG
* *
596807 TTTAAAATATTTTTAAATTTTTTGTATT
1 TTTACAATATTTTTAAATTTTTTGTATG
596835 TTTACAAT
1 TTTACAAT
596843 TTCTTGTAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 29 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (28 bp):
TTTACAATATTTTTAAATTTTTTGTATG
Found at i:596837 original size:18 final size:18
Alignment explanation
Indices: 596815--596860 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
596805 TGTTTAAAAT
*
596815 ATTTTTAAATTTTTTGT-
1 ATTTTTAAATTTCTTGTA
596832 ATTTTTACAATTTCTTGTA
1 ATTTTTA-AATTTCTTGTA
596851 ATTTTGTAAA
1 ATTTT-TAAA
596861 AAAAATTAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 7 0.28
18 9 0.36
19 7 0.28
20 2 0.08
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (18 bp):
ATTTTTAAATTTCTTGTA
Found at i:601189 original size:13 final size:14
Alignment explanation
Indices: 601165--601198 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
601155 AAACAGCATT
*
601165 AGAAGGTTTATGGA
1 AGAAGATTTATGGA
601179 A-AAGATTTATGGA
1 AGAAGATTTATGGA
601192 AGAAGAT
1 AGAAGAT
601199 ATTCCACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.44, C:0.00, G:0.29, T:0.26
Consensus pattern (14 bp):
AGAAGATTTATGGA
Found at i:602423 original size:48 final size:48
Alignment explanation
Indices: 602366--602461 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
602356 GATCTAACTG
602366 GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
1 GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
* *
602414 GTTTGATTTTTACATCATTGAAAAATATGAACTAAATCTCTTTCCTTT
1 GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
602462 CAATTTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (48 bp):
GTTTGATTTTTACAGCATTGAAAAATACGAACTAAATCTCTTTCCTTT
Found at i:609300 original size:84 final size:83
Alignment explanation
Indices: 609183--609531 Score: 372
Period size: 84 Copynumber: 4.2 Consensus size: 83
609173 ACTTTGGCCC
*
609183 CTTCAACAGCCTTCTT-AT--TTTCTTCTGCAATCTTCCTTTGC-TCTTCTACTTTAGCCATCTC
1 CTTCAACAGCCTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTTC-TCTGCTTTAGCCATCTC
** *
609244 AATATCAGCTTGTTTTCTTA
65 AA-ATCAGCACGTTTTCTTT
* * *
609264 CTTCAACAGCCTTCTTCAT-GTTTTCTTCCGCAATCTTCCTTTGCTTCACTGCTTCAGCCATCTC
1 CTTCAACAGCCTTCTTCATAG-TTTCTTCTGCAATCTTCCTTTGCTTCTCTGCTTTAGCCATCTC
609328 TAAATCAGCACGTTTTCTTT
65 -AAATCAGCACGTTTTCTTT
* *
609348 CTTCAACAGCCTTCTTCTTAGTTTCTT-TAGCAATCTTCCTCTGCTTCTCTGCTTTAGCCATCTC
1 CTTCAACAGCCTTCTTCATAGTTTCTTCT-GCAATCTTCCTTTGCTTCTCTGCTTTAGCCATCT-
*
609412 CAAATCAGCACATTTTCTTT
64 CAAATCAGCACGTTTTCTTT
* * * *** *
609432 CGTCAACAGCCTTTTTCTTAGTTTCTTCTGCAATCTTCCTCAAC-TCACTTGCTTTAGCCATCTC
1 CTTCAACAGCCTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTTCTC-TGCTTTAGCCATCT-
***
609496 CAAATC-GACAAACTTTCTTT
64 CAAATCAG-CACGTTTTCTTT
*
609516 CTTCAACTGCCTTCTT
1 CTTCAACAGCCTTCTT
609532 TTTCTCTTCT
Statistics
Matches: 234, Mismatches: 23, Indels: 19
0.85 0.08 0.07
Matches are distributed among these distances:
81 16 0.07
82 2 0.01
83 4 0.02
84 205 0.88
85 7 0.03
ACGTcount: A:0.18, C:0.31, G:0.08, T:0.43
Consensus pattern (83 bp):
CTTCAACAGCCTTCTTCATAGTTTCTTCTGCAATCTTCCTTTGCTTCTCTGCTTTAGCCATCTCA
AATCAGCACGTTTTCTTT
Found at i:615003 original size:21 final size:22
Alignment explanation
Indices: 614962--615004 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
614952 TTCATGCTAA
* *
614962 TTTTTTGAATTTTTATGTTTTT
1 TTTTTTAAATTTTTATATTTTT
614984 TTTTTTAAATTTTT-TATTTTT
1 TTTTTTAAATTTTTATATTTTT
615005 GAATATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (22 bp):
TTTTTTAAATTTTTATATTTTT
Found at i:619091 original size:22 final size:23
Alignment explanation
Indices: 619066--619109 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
619056 TAAAAAATTA
619066 TAAAATTATCA-TTAAATTATTT
1 TAAAATTATCATTTAAATTATTT
* *
619088 TAAAATTTTTATTTAAATTATT
1 TAAAATTATCATTTAAATTATT
619110 AAATTTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TAAAATTATCATTTAAATTATTT
Found at i:619127 original size:22 final size:22
Alignment explanation
Indices: 619077--619128 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
619067 AAAATTATCA
619077 TTAAATTATTTTAAAATTTTTAT
1 TTAAATTA-TTTAAAATTTTTAT
* *
619100 TTAAATTA-TTAAATTTTTCTTT
1 TTAAATTATTTAAAATTTT-TAT
619122 TTAAATT
1 TTAAATT
619129 TAATTAACGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 9 0.35
22 9 0.35
23 8 0.31
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTAAATTATTTAAAATTTTTAT
Found at i:619529 original size:7 final size:7
Alignment explanation
Indices: 619517--619543 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
619507 TATCTTTACT
619517 AATTTTA
1 AATTTTA
619524 AATTTTA
1 AATTTTA
619531 AATTTTA
1 AATTTTA
619538 AATTTT
1 AATTTT
619544 CCAAAGGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
AATTTTA
Found at i:620537 original size:92 final size:92
Alignment explanation
Indices: 620318--620537 Score: 264
Period size: 92 Copynumber: 2.4 Consensus size: 92
620308 TATAATATCA
* * * * *
620318 TATT-TGGTACCTATAC-TTCATAGAATATCTAATGTGGTACATGTACTTTGAAAATGTCTAATG
1 TATTATGGTACATTTACTTTCATAAAATGTCTAATGTGGTACATGTACTTTGAAAATATCTAATG
* * * *
620381 CAGTATTTTAATTATCAATATGTATTT
66 CAGTACTTAAACTATCAACATGTATTT
* * ** *
620408 TATTAAGATACATTTACTTTCATAAAATGTCCGATGTGGTACATGTACTTTGAAAATATCTTATG
1 TATTATGGTACATTTACTTTCATAAAATGTCTAATGTGGTACATGTACTTTGAAAATATCTAATG
** *
620473 TTGTACTTAAACTGTCAACATGTATTT
66 CAGTACTTAAACTATCAACATGTATTT
*
620500 TATTATGGTACGTTTACTTTCATAAAATGTCTAATGTG
1 TATTATGGTACATTTACTTTCATAAAATGTCTAATGTG
620538 ATACTTAAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
90 4 0.04
91 8 0.08
92 94 0.89
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.43
Consensus pattern (92 bp):
TATTATGGTACATTTACTTTCATAAAATGTCTAATGTGGTACATGTACTTTGAAAATATCTAATG
CAGTACTTAAACTATCAACATGTATTT
Found at i:638607 original size:4 final size:4
Alignment explanation
Indices: 638598--638624 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
638588 ATGATAGCCT
638598 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
638625 GAATAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:642982 original size:4 final size:4
Alignment explanation
Indices: 642973--642999 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
642963 TCAATACGTG
642973 CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CAT
643000 GTATGTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:643177 original size:27 final size:27
Alignment explanation
Indices: 643146--643201 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
643136 TTAATTCCTC
*
643146 TAATTCTATATGATCAGTAATTATGTT
1 TAATTCTATATGATCAGTAATTATATT
**
643173 TAATTCTATATGATCCTTAATTATATT
1 TAATTCTATATGATCAGTAATTATATT
643200 TA
1 TA
643202 GTTAGCATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (27 bp):
TAATTCTATATGATCAGTAATTATATT
Found at i:646369 original size:120 final size:122
Alignment explanation
Indices: 646153--646371 Score: 309
Period size: 120 Copynumber: 1.8 Consensus size: 122
646143 AGTGGAAACC
* * * *
646153 ATGCATGTTAAAAGGTATCATATTACCAACAATCCATGCTTAAAAGAACATGCTTTTTCTCTAAG
1 ATGCATGTTAAAAGCTAGCA-ATTACCAACAATCCATGCTTAAAAGAACATGCTATTTCTCAAAG
* *
646218 GAAAATCGATATCGGTTTGTTTACATACCCATCAATACGAAATTGAAATGGTGATCAT
65 GAAAATCAATATCAGTTTGTTTACATACCCATCAATACGAAATTGAAATGGTGATCAT
* *
646276 ATGCATGTTAAAAGCTAGC-ATTACCAACCATCCATGCTTAACA-AACA-GCCTATTTCTCAAAG
1 ATGCATGTTAAAAGCTAGCAATTACCAACAATCCATGCTTAAAAGAACATG-CTATTTCTCAAAG
* *
646338 GGAAATCAATATCAGTTTGTTTATATACCCATCA
65 GAAAATCAATATCAGTTTGTTTACATACCCATCA
646372 CTACAACAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 1 0.01
120 45 0.53
121 22 0.26
123 17 0.20
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (122 bp):
ATGCATGTTAAAAGCTAGCAATTACCAACAATCCATGCTTAAAAGAACATGCTATTTCTCAAAGG
AAAATCAATATCAGTTTGTTTACATACCCATCAATACGAAATTGAAATGGTGATCAT
Found at i:646931 original size:126 final size:126
Alignment explanation
Indices: 646701--646963 Score: 284
Period size: 126 Copynumber: 2.1 Consensus size: 126
646691 ATGAAGTCCT
* * * *
646701 ACCCGACTCGACTTTGAATTTAGTCACGACCCTTGTCACTTCATGATACCAAATGTCAAACAACA
1 ACCCGACTCGACTTTGAATTTAGTCAAGACCCTTATCACTTCAAGATACCAAAGGTCAAACAACA
* * * *
646766 CCCCCCCCCCAAAAAAAAAAGAACACTAAACTAAATAGCTAGATTC-CTGAAATGAGATTCG
66 CCCCACCCCCAAAAAAAAAAGAACACTAAACTAAATAGCTAAATTCTC-GAAATAAGATCCG
* * *
646827 ACCCAACTCGACTTTGAATTTAG-CTAAGACCCTTATGACTTCAAGATACCAAAGGTCAAA-GAC
1 ACCCGACTCGACTTTGAATTTAGTC-AAGACCCTTATCACTTCAAGATACCAAAGGTCAAACAAC
* * ** ** *
646890 -CCCCACTCCCAAATAAAACACTAA-ACTAAACTGATGGTAGCTAAATTCTCGAAATAAGGTCCG
65 ACCCCACCCCCAAA-AAAAAAAGAACACTAAACT-A-AATAGCTAAATTCTCGAAATAAGATCCG
646953 ACCCGACTCGA
1 ACCCGACTCGA
646964 ATCCAAATTA
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
124 19 0.17
125 11 0.10
126 82 0.73
127 1 0.01
ACGTcount: A:0.38, C:0.28, G:0.13, T:0.21
Consensus pattern (126 bp):
ACCCGACTCGACTTTGAATTTAGTCAAGACCCTTATCACTTCAAGATACCAAAGGTCAAACAACA
CCCCACCCCCAAAAAAAAAAGAACACTAAACTAAATAGCTAAATTCTCGAAATAAGATCCG
Found at i:647297 original size:6 final size:6
Alignment explanation
Indices: 647286--647311 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
647276 AGCGTCATCT
647286 TTAGGG TTAGGG TTAGGG TTAGGG TT
1 TTAGGG TTAGGG TTAGGG TTAGGG TT
647312 CGCCTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (6 bp):
TTAGGG
Found at i:650530 original size:18 final size:20
Alignment explanation
Indices: 650501--650537 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
650491 TCCGATACCC
650501 ATTTCTTTTTATT-TTTTTA
1 ATTTCTTTTTATTGTTTTTA
650520 ATTTC-TTTTATTGTTTTT
1 ATTTCTTTTTATTGTTTTT
650538 CATGCTCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (20 bp):
ATTTCTTTTTATTGTTTTTA
Found at i:651127 original size:63 final size:63
Alignment explanation
Indices: 650994--651175 Score: 241
Period size: 63 Copynumber: 3.0 Consensus size: 63
650984 GTCGCCGGCG
* * * * * * *
650994 AAACCCAAGGAACCGGAGAAGAAACCCGACAAA-CC-AA-AAGAAGCTGAGAAGAAGCCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
651054 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
* *
651117 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAGCCCAAAG-A-C-GGTGAGAAGAAACCGGA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGA
651176 GAAGCCTAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
60 44 0.40
61 3 0.03
62 3 0.03
63 60 0.55
ACGTcount: A:0.51, C:0.21, G:0.25, T:0.03
Consensus pattern (63 bp):
AAACCCAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
Found at i:651187 original size:30 final size:30
Alignment explanation
Indices: 650994--651175 Score: 247
Period size: 30 Copynumber: 6.0 Consensus size: 30
650984 GTCGCCGGCG
* * * * *
650994 AAACCCAAGGAACCGGAGAAGAAACCCGAC
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
* *
651024 AAACCAAAAGAAGCTGAGAAGAAGCCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
651054 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
651084 AAACCCAAAGAAGCAGCTGAGAAGAAACCGGAA
1 AAACCCAAAG-A--AGCTGAGAAGAAACCGGAA
651117 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGAA
* * *
651147 AAGCCCAAAGACGGTGAGAAGAAACCGGA
1 AAACCCAAAGAAGCTGAGAAGAAACCGGA
651176 GAAGCCTAAA
Statistics
Matches: 137, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
30 106 0.77
31 1 0.01
32 1 0.01
33 29 0.21
ACGTcount: A:0.51, C:0.21, G:0.25, T:0.03
Consensus pattern (30 bp):
AAACCCAAAGAAGCTGAGAAGAAACCGGAA
Found at i:651203 original size:93 final size:93
Alignment explanation
Indices: 651007--651175 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
650997 CCCAAGGAAC
* *
651007 CGGAGAAGAAACCCGACAAACCAAAAGAAGCTGAGAAGAAGCCGGAAAAACCCAAAGAAGCTGAG
1 CGGAGAAGAAACCCGAAAAACCAAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAG
651072 AAGAAACCGGAAAAACCCAAAGAAGCAG
66 AAGAAACCGGAAAAACCCAAAGAAGCAG
* * * * * *
651100 CTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAGAAGAAACCGGAAAAGCCCAAAGACGGTGAG
1 CGGAGAAGAAACCCGAAAAACCAAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAG
651165 AAGAAACCGGA
66 AAGAAACCGGA
651176 GAAGCCTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.50, C:0.21, G:0.26, T:0.03
Consensus pattern (93 bp):
CGGAGAAGAAACCCGAAAAACCAAAAGAAGCTGAGAAGAAACCGGAAAAACCCAAAGAAGCTGAG
AAGAAACCGGAAAAACCCAAAGAAGCAG
Found at i:669076 original size:57 final size:58
Alignment explanation
Indices: 668962--669088 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 58
668952 AAACGTTTGG
* *
668962 CAAGTACCAAATCGAACAAAAAAAAATTAGGTACCAAATTAGAAAAAAGAGTTAAATT
1 CAAGTACCAAATCGAACAAAAAAAAATTAAGTACCAAATTAGAAAAAAGAGTAAAATT
* ** * **
669020 CAAGTACCAAATCGAA-TAAAAAAGTTTAAGTACCAGATTAGAAAAAATTGTAAAATT
1 CAAGTACCAAATCGAACAAAAAAAAATTAAGTACCAAATTAGAAAAAAGAGTAAAATT
* *
669077 TATGTACCAAAT
1 CAAGTACCAAAT
669089 ATTATATTAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
57 43 0.73
58 16 0.27
ACGTcount: A:0.54, C:0.12, G:0.12, T:0.23
Consensus pattern (58 bp):
CAAGTACCAAATCGAACAAAAAAAAATTAAGTACCAAATTAGAAAAAAGAGTAAAATT
Found at i:691066 original size:37 final size:37
Alignment explanation
Indices: 691016--691091 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
691006 TCCTGCTCTT
691016 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
1 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
691053 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
1 AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
691090 AA
1 AA
691092 TATCATTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (37 bp):
AACAAAGTATTTATGTACTGAATCCCAGGATGGTATC
Found at i:697882 original size:30 final size:32
Alignment explanation
Indices: 697848--697936 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 32
697838 TTAATGAGAA
* *
697848 TTTCAAAAAAAA-TGAGGGAG-CTTATT-GAAT
1 TTTCAAAAAAAATTGA-GGAGCCTAATTAAAAT
697878 TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
1 TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
*
697910 TTTCAGAAAAAAAATT-AAGAGCCTAAT
1 TTTC--AAAAAAAATTGAGGAGCCTAAT
697937 GAGTTTATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
30 16 0.31
31 8 0.16
32 7 0.14
33 10 0.20
34 10 0.20
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
Found at i:697887 original size:31 final size:32
Alignment explanation
Indices: 697848--697936 Score: 94
Period size: 33 Copynumber: 2.8 Consensus size: 32
697838 TTAATGAGAA
* *
697848 TTTC-AAAAAAAATGAGGGAG-CTTATT-GAAT
1 TTTCAAAAAAAAATGA-GGAGCCTAATTAAAAT
*
697878 TTTCAAAAAAAATTGAGGAGCCTAATTAAAAT
1 TTTCAAAAAAAAATGAGGAGCCTAATTAAAAT
* *
697910 TTTCAGAAAAAAAATTAAGAGCCTAAT
1 TTTCA-AAAAAAAATGAGGAGCCTAAT
697937 GAGTTTATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
30 8 0.16
31 15 0.31
32 8 0.16
33 18 0.37
ACGTcount: A:0.48, C:0.09, G:0.15, T:0.28
Consensus pattern (32 bp):
TTTCAAAAAAAAATGAGGAGCCTAATTAAAAT
Found at i:698845 original size:22 final size:22
Alignment explanation
Indices: 698819--698863 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
698809 TTTTCTCTAG
698819 TTCTATAATATCGTTATTTAGT
1 TTCTATAATATCGTTATTTAGT
698841 TTCTATAATATCGTTATTTAGT
1 TTCTATAATATCGTTATTTAGT
698863 T
1 T
698864 CAAAATAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.09, G:0.09, T:0.56
Consensus pattern (22 bp):
TTCTATAATATCGTTATTTAGT
Found at i:704726 original size:139 final size:140
Alignment explanation
Indices: 704446--705068 Score: 391
Period size: 139 Copynumber: 4.4 Consensus size: 140
704436 AAAAAGGGGT
*
704446 AAAATGCAATCTTACACCTAATCTAAGGGCATCCATGGTACTTTTACCAATTAAAGGTATATATA
1 AAAATGCAATCCTACACCTAATCTAAGGGCATCCATGGTACTTTTACCAATTAAAGG-ATATATA
* *
704511 TATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATAACTAATTTGAACATTTTTTTG
65 TATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAAAAACTAATTTAAACATTTTTTTG
704576 ATAGATCGGCC
130 ATAGATCGGCC
* * * * * *
704587 ACAATGCAATCCTACTCCTACTCTAAGGGCATCTATGGTACTTTTACCAATTAGAGG-TATATGT
1 AAAATGCAATCCTACACCTAATCTAAGGGCATCCATGGTACTTTTACCAATTAAAGGATATATAT
* * *
704651 ATATTCACACACTTTTAATTGCTCTTTTG-TCTAA-G-ATACAAAGATTAATTTAAACATTTTTT
66 ATATTCACACACCTTTAATTACTC-TTTGATCTAATGTATA-AAA-ACTAATTTAAACATTTTTT
*
704713 T-AGTAGATTGGCC
128 TGA-TAGATCGGCC
* * * * * * * * **
704726 AAAATGCAATCATGCTCTTAGTTTAA-GG-AACAAT--T--TTTAATAGTAA--AAATGGATGA-
1 AAAATGCAATCCTACACCTAATCTAAGGGCATCCATGGTACTTT--TACCAATTAAA-GGAT-AT
* * * *** * * * * *** * **
704782 A-AT-TTTTAACAGAAGGATTAGCTTATTCTTTGATCTAATGCACATGGACTAATCT-GTC-TAT
62 ATATATATTCACA-CACCTTTA-ATTACTCTTTGATCTAATGTATAAAAACTAATTTAAACAT-T
* * * **
704843 TTTTTAAGTAAATGGGGT
124 TTTTTGA-TAGATCGGCC
* * *
704861 AAAATGCAATCGTACTCCTAATCTAAGGGCACCCATGGTACTTTTACCAATTAAAGGTATATATA
1 AAAATGCAATCCTACACCTAATCTAAGGGCATCCATGGTACTTTTACCAATTAAAGG--------
*
704926 TATATATATATATATATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAATAACTAATT
58 -------ATATATATATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAAAAACTAATT
*
704991 TGAACATTTTTTTGATAGATCGGCC
116 TAAACATTTTTTTGATAGATCGGCC
* * * *
705016 ACAATGCAATCCTACTCCTACTCTAAGGGCATCTATGGTACTTTTACCAATTA
1 AAAATGCAATCCTACACCTAATCTAAGGGCATCCATGGTACTTTTACCAATTA
705069 GATTGGCCAA
Statistics
Matches: 357, Mismatches: 81, Indels: 74
0.70 0.16 0.14
Matches are distributed among these distances:
133 12 0.03
134 18 0.05
135 51 0.14
136 4 0.01
137 13 0.04
138 6 0.02
139 85 0.24
140 6 0.02
141 57 0.16
154 1 0.00
155 83 0.23
156 14 0.04
157 7 0.02
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (140 bp):
AAAATGCAATCCTACACCTAATCTAAGGGCATCCATGGTACTTTTACCAATTAAAGGATATATAT
ATATTCACACACCTTTAATTACTCTTTGATCTAATGTATAAAAACTAATTTAAACATTTTTTTGA
TAGATCGGCC
Found at i:704925 original size:2 final size:2
Alignment explanation
Indices: 704918--704944 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
704908 CAATTAAAGG
704918 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
704945 TCACACACCT
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:705104 original size:61 final size:61
Alignment explanation
Indices: 705006--705129 Score: 158
Period size: 61 Copynumber: 2.0 Consensus size: 61
704996 ATTTTTTTGA
* * * *
705006 TAGATCGGCCACAATGCAATCCTACTCCTACTCTAAGGGCATCTATGGTACTTTTACCAAT
1 TAGATCGGCCAAAATGCAATCATACTCCTACTCTAAGGACAGCTATGGTACTTTTACCAAT
* * * * * *
705067 TAGATTGGCCAAAATGCAATCATGCTCTTAGTTTAAGGATAGCTATGGTACTTTTACCAAT
1 TAGATCGGCCAAAATGCAATCATACTCCTACTCTAAGGACAGCTATGGTACTTTTACCAAT
705128 TA
1 TA
705130 AACGTGTGTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (61 bp):
TAGATCGGCCAAAATGCAATCATACTCCTACTCTAAGGACAGCTATGGTACTTTTACCAAT
Found at i:714778 original size:182 final size:181
Alignment explanation
Indices: 714153--714846 Score: 816
Period size: 182 Copynumber: 3.9 Consensus size: 181
714143 ACGCAAACAA
* * * * *
714153 ATACATAAATAGATTACTTTCATCAACTTAACCTGATTTTTAACACTCCATTAAGCTTAATATTA
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTTTAACACTCCATTAAGCTTAATATTA
* * * *
714218 GCTGCAATTCACAGCTTCTTGATTAATTGCAGTTTGCTTCTAAAAAAGAAACTTAACTGACTGAA
66 GCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACCGAA
* *
714283 GCCTGATTATAACATGTAATACTTCAACTTTCTCCTTTTCTGAGACAAATAT
131 GCCTGATTACAACATGTGATACTTCAACTTTCTCC-TTTCTGAGACAAATAT
* *
714335 ATACATGAATGGACTATTTTCATCAATTTAACCTGACA-TTTAACCCTCCATTAAGCTTAATA-T
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGA-ATTTTAACACTCCATTAAGCTTAATATT
** * * *
714398 AGCTGCAATTCACAGCTTCTTGATTAATAACAA-TTGGTCACT-GGAAAAGAAACTAAACTGACC
65 AGCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCT-TCTAAG-AAAGAAACTAAACTGACC
* * * * * *
714461 CAAGCCTGGTTACAACATTTGATACTTGAA--TCCT-C-TTCTGAGACAAATACG
128 GAAGCCTGATTACAACATGTGATACTTCAACTTTCTCCTTTCTGAGACAAATA-T
* *
714512 A-ACATAAATGGACTATTTTCATCAATTTAATCTGACTTTTAACACTCCATTAAGCTTAATATTA
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTTTAACACTCCATTAAGCTTAATATTA
* * *
714576 GCTGTAATTCACAGCTTCTTGATTGATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACTGAA
66 GCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACCGAA
* *
714641 GCCTGATTACAACATGTGATACATCAACTTTCTCCTTTCCTAAGACAAATAT
131 GCCTGATTACAACATGTGATACTTCAACTTTCTCCTTT-CTGAGACAAATAT
* * ** * * * *
714693 ATACATAAACGGATTATTTTTGTCAATGTAA-CTCAATTTCTAACACTCCGTCAAGCTTAATATT
1 ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTT-TAACACTCCATTAAGCTTAATATT
** * * * * *
714757 AGCTGCAATTTGCATCTTCTTGATGAATTTCAAATTGCTTCCTAA-AAAGAAACTAAACTAACCG
65 AGCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTT-CTAAGAAAGAAACTAAACTGACCG
*
714821 AAGCCTGATTACAACACGTGATACTT
129 AAGCCTGATTACAACATGTGATACTT
714847 AATCCATAAT
Statistics
Matches: 431, Mismatches: 65, Indels: 32
0.82 0.12 0.06
Matches are distributed among these distances:
176 69 0.16
177 75 0.17
178 6 0.01
179 6 0.01
180 5 0.01
181 82 0.19
182 184 0.43
183 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (181 bp):
ATACATAAATGGACTATTTTCATCAATTTAACCTGAATTTTAACACTCCATTAAGCTTAATATTA
GCTGCAATTCACAGCTTCTTGATTAATTGCAATTTGCTTCTAAGAAAGAAACTAAACTGACCGAA
GCCTGATTACAACATGTGATACTTCAACTTTCTCCTTTCTGAGACAAATAT
Found at i:720799 original size:4 final size:4
Alignment explanation
Indices: 720765--720821 Score: 50
Period size: 4 Copynumber: 14.5 Consensus size: 4
720755 TGAACTGAAA
*
720765 AACT AACT CAAC- AACT AATT CAACT --CT AACT AACT ATACT AAC- AACT
1 AACT AACT -AACT AACT AACT -AACT AACT AACT AACT A-ACT AACT AACT
720812 AACT AACT AA
1 AACT AACT AA
720822 AACAAATATG
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
2 2 0.05
3 6 0.14
4 26 0.59
5 10 0.23
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (4 bp):
AACT
Found at i:720813 original size:16 final size:15
Alignment explanation
Indices: 720765--720821 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
720755 TGAACTGAAA
720765 AACTAACTCAACAACT
1 AACTAACT-AACAACT
*
720781 AATTCAACT--CTAACT
1 AACT-AACTAAC-AACT
720796 AACTATACTAACAACT
1 AACTA-ACTAACAACT
720812 AACTAACTAA
1 AACTAACTAA
720822 AACAAATATG
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
14 2 0.06
15 15 0.44
16 12 0.35
17 5 0.15
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (15 bp):
AACTAACTAACAACT
Found at i:723723 original size:18 final size:18
Alignment explanation
Indices: 723700--723737 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
723690 GATTACTACG
723700 TTAGGCTGATGAGAACAT
1 TTAGGCTGATGAGAACAT
723718 TTAGGCTGATGAGAACAT
1 TTAGGCTGATGAGAACAT
723736 TT
1 TT
723738 GATTGACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (18 bp):
TTAGGCTGATGAGAACAT
Found at i:723989 original size:24 final size:24
Alignment explanation
Indices: 723955--724016 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
723945 TCTAATTAAT
*
723955 TTTTTTATTAAAAATTTCATCAAA
1 TTTTTTGTTAAAAATTTCATCAAA
* *
723979 TTTTTTGTTAATAATTTCATCAAT
1 TTTTTTGTTAAAAATTTCATCAAA
*
724003 TTTTTTGATAAAAA
1 TTTTTTGTTAAAAA
724017 AACAGAGACA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTTTTGTTAAAAATTTCATCAAA
Found at i:724410 original size:23 final size:23
Alignment explanation
Indices: 724384--724428 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
724374 ATTATATATT
* *
724384 AAATATATATTTTATTTTTAATC
1 AAATATATATTATATATTTAATC
724407 AAATATATATTATATATTTAAT
1 AAATATATATTATATATTTAAT
724429 ATGGGTCGGG
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:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
AAATATATATTATATATTTAATC
Found at i:726520 original size:17 final size:17
Alignment explanation
Indices: 726494--726542 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
726484 ATAGTTAAAT
* * *
726494 ATATGAGTATCAGAAAG
1 ATATGGGTATCAAAAAA
726511 ATATGGGTATCAAAAAA
1 ATATGGGTATCAAAAAA
726528 ATATGGGTATCAAAA
1 ATATGGGTATCAAAA
726543 TTTGAGATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.49, C:0.06, G:0.20, T:0.24
Consensus pattern (17 bp):
ATATGGGTATCAAAAAA
Found at i:738495 original size:15 final size:15
Alignment explanation
Indices: 738472--738501 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
738462 AGTTTTGTAT
738472 TAAAAAATAATTAAA
1 TAAAAAATAATTAAA
*
738487 TAAATAATAATTAAA
1 TAAAAAATAATTAAA
738502 CCATAAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAAAATAATTAAA
Found at i:741556 original size:10 final size:12
Alignment explanation
Indices: 741530--741558 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
741520 AATAGTGTTT
741530 TATTTATAAATA
1 TATTTATAAATA
741542 TATTTATAAATA
1 TATTTATAAATA
741554 T-TTTA
1 TATTTA
741559 ATATTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTTATAAATA
Found at i:742386 original size:20 final size:20
Alignment explanation
Indices: 742350--742389 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
742340 TTAATATATA
*
742350 TAATGAATTTAATTTTAAAT
1 TAATGAATTTAAGTTTAAAT
742370 TAATCGAATTT-AGTTTAAAT
1 TAAT-GAATTTAAGTTTAAAT
742390 AGTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (20 bp):
TAATGAATTTAAGTTTAAAT
Found at i:742416 original size:19 final size:19
Alignment explanation
Indices: 742338--742417 Score: 56
Period size: 19 Copynumber: 4.2 Consensus size: 19
742328 TCATTGTTTC
*
742338 TTTTAATATATATAATGAA
1 TTTTAATATAAATAATGAA
*
742357 -TTTAATTTTAAATTAATCGAA
1 TTTTAA-TATAAA-TAAT-GAA
* * * *
742378 -TTTAGTTTAAATAGTTAA
1 TTTTAATATAAATAATGAA
*
742396 TTTTAATATATATAATGAA
1 TTTTAATATAAATAATGAA
742415 TTT
1 TTT
742418 CGGAATTTGG
Statistics
Matches: 47, Mismatches: 10, Indels: 8
0.72 0.15 0.12
Matches are distributed among these distances:
18 7 0.15
19 23 0.49
20 10 0.21
21 7 0.15
ACGTcount: A:0.42, C:0.01, G:0.06, T:0.50
Consensus pattern (19 bp):
TTTTAATATAAATAATGAA
Found at i:744180 original size:9 final size:9
Alignment explanation
Indices: 744162--744201 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
744152 GTTTCCCACG
744162 TTAGGATTT
1 TTAGGATTT
*
744171 TTAGGGTTT
1 TTAGGATTT
744180 TTAGGATTT
1 TTAGGATTT
744189 TTA-GAGTTT
1 TTAGGA-TTT
744198 TTAG
1 TTAG
744202 AGAAAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 2 0.07
9 25 0.93
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (9 bp):
TTAGGATTT
Found at i:744185 original size:18 final size:18
Alignment explanation
Indices: 744162--744201 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
744152 GTTTCCCACG
*
744162 TTAGGATTTTTAGGGTTT
1 TTAGGATTTTTAGAGTTT
744180 TTAGGATTTTTAGAGTTT
1 TTAGGATTTTTAGAGTTT
744198 TTAG
1 TTAG
744202 AGAAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (18 bp):
TTAGGATTTTTAGAGTTT
Found at i:744600 original size:126 final size:124
Alignment explanation
Indices: 744315--744756 Score: 600
Period size: 124 Copynumber: 3.5 Consensus size: 124
744305 GATAAAATCA
* * * * * * * * *
744315 AAGCAGAATGATTTATTAGAAGGATTTTTTAAGTCGCGCTCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
744380 AGGTCCTGGAAAAATAATTTCGAGTTGACATTTATGAGCAAATAGTTTTAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAG-TATAAAAACGCTTC
* *
744440 AAGCAGGATGCTTTATGAGAAGAATTTTTGAAATCGCG-CCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * *
744504 TGGTCCTGGAAGAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTACAAAACAACGCTGC
66 AGGTCCTGGAA-AAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTA-TAAA-AACGCTTC
* * *
744566 AAGCAGGATTCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
744630 TAGGTCCTGTAAAAATAATTTTGACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
*
744690 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
744755 AG
66 AG
744757 CATGTTTGGG
Statistics
Matches: 282, Mismatches: 29, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
123 2 0.01
124 100 0.35
125 69 0.24
126 75 0.27
127 36 0.13
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (124 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:745513 original size:21 final size:21
Alignment explanation
Indices: 745424--745655 Score: 162
Period size: 21 Copynumber: 10.6 Consensus size: 21
745414 CATCCAATTA
*
745424 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGG-TTACGGTTTTT
* * *
745446 AATTTAAGGGTTACGATTTTA
1 AAGTTAAGGGTTACGGTTTTT
* * *
745467 AAATGAAGGGTTTATGGTTTTT
1 AAGTTAAGGG-TTACGGTTTTT
* *
745489 AAGTTAAGGGTTACGATTTTA
1 AAGTTAAGGGTTACGGTTTTT
* *
745510 AAGTTAAGGGCTATGGTTTTT
1 AAGTTAAGGGTTACGGTTTTT
* *
745531 AGGTTAAGGGGTTAGGGTTTTT
1 AAGTTAA-GGGTTACGGTTTTT
*
745553 AAGTTAAGGGTTAGGGTTAGGGTTTT
1 AAGTTAAGGGTTACGG-T----TTTT
* *
745579 AGGTTAATGGG-TAAGGTTTTT
1 AAGTTAA-GGGTTACGGTTTTT
*
745600 AAGTTAAGGGTTTA-GGGTTTT
1 AAGTTAAGGG-TTACGGTTTTT
* * *
745621 AGGTTAAGGGGCTAGGGTTTTT
1 AAGTTAA-GGGTTACGGTTTTT
*
745643 AAGTTAACGGTTA
1 AAGTTAAGGGTTA
745656 GGGCTGGGGT
Statistics
Matches: 166, Mismatches: 32, Indels: 25
0.74 0.14 0.11
Matches are distributed among these distances:
20 3 0.02
21 84 0.51
22 61 0.37
25 1 0.01
26 14 0.08
27 3 0.02
ACGTcount: A:0.25, C:0.02, G:0.31, T:0.41
Consensus pattern (21 bp):
AAGTTAAGGGTTACGGTTTTT
Found at i:745543 original size:43 final size:43
Alignment explanation
Indices: 745421--745564 Score: 191
Period size: 43 Copynumber: 3.3 Consensus size: 43
745411 CTACATCCAA
* *
745421 TTAAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTACGATT
1 TTAAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATT
* *
745464 TTAAAATGAAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATT
1 TTAAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATT
* * * *
745507 TTAAAGTTAAGGG-CTATGGTTTTTAGGTTAAGGGGTTAGGGTT
1 TTAAAGTTAAGGGTTTATGGTTTTTAAGTTAA-GGGTTACGATT
*
745550 TTTAAGTTAAGGGTT
1 TTAAAGTTAAGGGTT
745565 AGGGTTAGGG
Statistics
Matches: 87, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 16 0.18
43 71 0.82
ACGTcount: A:0.27, C:0.02, G:0.28, T:0.42
Consensus pattern (43 bp):
TTAAAGTTAAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATT
Found at i:745573 original size:27 final size:27
Alignment explanation
Indices: 745539--746081 Score: 341
Period size: 27 Copynumber: 22.0 Consensus size: 27
745529 TTAGGTTAAG
745539 GGGTTAGGGTTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*
745566 GGGTTAGGG-TTTTAGGTTAA----T-
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*
745587 GGG-TAAGGTTTTTAAGTTAAGGG-T-
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* *
745611 ---TTAGGG-TTTTAGGTTAAGGGG--
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* *
745632 ---CTAGGGTTTTTAAGTTAACGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* * *
745656 GGGCTGGGGTTTTTAGGTTAAGGTGTTA
1 GGGTTAGGGTTTTTAAGTTAAGG-GTTA
*
745684 GGGTTAGGGTTTTTAAGTTAATGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
** *
745711 GGGTTAATGTTTTTAGGTTAA--G---
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
745733 GGGTTAGGGTTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*
745760 GGGTT-GGAGTTTTTAGGTTAA-GG-T-
1 GGGTTAGG-GTTTTTAAGTTAAGGGTTA
745784 --GTTAGGGTTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
745809 GGGTTAGGGTTTTTAAGTTAA--G---
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* * *
745831 GGGTTAGAGTCTTTAAGTTAACGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* *
745858 GGGTTGGGGTTTTTAGGTTAA--G---
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*
745880 GGGTTAGGATTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*
745907 GGGTTAGGGTTTTTAGGTTAA----T-
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* ** *
745929 GTGTTAATGTTTTTAAGTTTAGGGTTTA
1 GGGTTAGGGTTTTTAAGTTAAGGG-TTA
* *
745957 GGGTTTTA-AGTTTTTAGGTTAA--G---
1 GGG--TTAGGGTTTTTAAGTTAAGGGTTA
*
745980 GGGTTAGGGTTTTTAAGTTAATGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*
746007 GGGTTAGGGTTTTTAGGTTAA----T-
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
* *
746029 GTGTTAGGATTTTTAAGTTAAGGGTTA
1 GGGTTAGGGTTTTTAAGTTAAGGGTTA
*** *
746056 GGGTTAAAATTTTTAGGTTAAGGGTT
1 GGGTTAGGGTTTTTAAGTTAAGGGTT
746082 TAAGGTTTTT
Statistics
Matches: 408, Mismatches: 54, Indels: 108
0.72 0.09 0.19
Matches are distributed among these distances:
20 4 0.01
21 34 0.08
22 133 0.33
23 9 0.02
24 6 0.01
25 4 0.01
26 15 0.04
27 164 0.40
28 25 0.06
29 11 0.03
30 3 0.01
ACGTcount: A:0.22, C:0.01, G:0.35, T:0.43
Consensus pattern (27 bp):
GGGTTAGGGTTTTTAAGTTAAGGGTTA
Found at i:745577 original size:49 final size:49
Alignment explanation
Indices: 745524--746110 Score: 708
Period size: 49 Copynumber: 12.0 Consensus size: 49
745514 TAAGGGCTAT
745524 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
* *
745573 GG-TTTTAGGTTAATGGG-TAAGGTTTTTAAGTTAAGGG-T----TTAG
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
* * * *
745615 GG-TTTTAGGTTAAGGGGCTAGGGTTTTTAAGTTAACGGTTAGGGCTGG
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
* *
745663 GGTTTTTAGGTTAAGGTGTTAGGGTTAGGGTTTTTAAGTTAATGGTTAGGGTTAA
1 GGTTTTTAGGTTAA---G---GGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
*
745718 TGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTT-G
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
*
745766 GAGTTTTTAGGTTAAGGTGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
1 G-GTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
* * * * *
745816 GGTTTTTAAGTTAAGGGGTTAGAGTCTTTAAGTTAACGGTTAGGGTTGG
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
*
745865 GGTTTTTAGGTTAAGGGGTTAGGATTTTTAAGTTAAGGGTTAGGGTTAG
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
* * ** *
745914 GGTTTTTAGGTTAATGTGTTAATGTTTTTAAGTTTAGGGTTTAGGGTTTTA-
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGG--TTAG
* *
745965 AGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAATGGTTAGGGTTAG
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
* * * *
746014 GGTTTTTAGGTTAATGTGTTAGGATTTTTAAGTTAAGGGTTAGGGTTAA
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
** * * * *
746063 AATTTTTAGGTTAAGGGTTTAAGGTTTTTAGGTTAAAGGTTTAGGGTT
1 GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTT-AAGGGTTAGGGTT
746111 TGTCAATTAA
Statistics
Matches: 461, Mismatches: 57, Indels: 39
0.83 0.10 0.07
Matches are distributed among these distances:
42 20 0.04
43 18 0.04
44 1 0.00
46 1 0.00
47 19 0.04
48 21 0.05
49 276 0.60
50 26 0.06
51 32 0.07
52 5 0.01
55 42 0.09
ACGTcount: A:0.22, C:0.01, G:0.34, T:0.43
Consensus pattern (49 bp):
GGTTTTTAGGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTAG
Found at i:745615 original size:42 final size:42
Alignment explanation
Indices: 745424--746111 Score: 211
Period size: 49 Copynumber: 14.5 Consensus size: 42
745414 CATCCAATTA
** * *
745424 AAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTACGATTTTA
1 AAGTTAAGGGTTTAGGG-TTTTAGGTTAAGGGTTACGGTTTTT
* * * * * *
745467 AAATGAAGGGTTTATGGTTTTTAAGTTAAGGGTTACGATTTTA
1 AAGTTAAGGGTTTA-GGGTTTTAGGTTAAGGGTTACGGTTTTT
* * *
745510 AAGTTAAGGG-CTATGGTTTTTAGGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAGGGTTTA-GGGTTTTAGGTTAA-GGGTTACGGTTTTT
*
745553 AAGTTAAGGGTTAGGGTTAGGGTTTTAGGTTAATGGG-TAAGGTTTTT
1 AAGTTAAGGG-T----TTAGGGTTTTAGGTTAA-GGGTTACGGTTTTT
* *
745600 AAGTTAAGGGTTTAGGGTTTTAGGTTAAGGGGCTAGGGTTTTT
1 AAGTTAAGGGTTTAGGGTTTTAGGTTAA-GGGTTACGGTTTTT
* * *
745643 AAGTTAACGGTTAGGGCTGGGGTTTTTAGGTTAAGGTGTTAGGGTTAGGGTTTTT
1 AAGTTAAGGGTT-----TAGGG-TTTTAGGTT-A------AGGGTTACGGTTTTT
* *
745698 AAGTTAATGG-TTAGGGTTAATGTTTTTAGGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAGGGTTTA-GG-----G-TTTTAGGTTAA-GGGTTACGGTTTTT
* *
745747 AAGTTAAGGGTTAGGGTTGGAGTTTTTAGGTTAAGGTGTTAGGGTTTTT
1 AAGTTAAGGGTT----TAGG-G-TTTTAGGTTAAGG-GTTACGGTTTTT
* *
745796 AAGTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGGGGTTA-GAGTCTTT
1 AAGTTAAGGG-T----TTAGGG-TTTTAGGTTAA-GGGTTACG-GTTTTT
* *
745845 AAGTTAACGGTTAGGGTTGGGGTTTTTAGGTTAAGGGGTTA-GGATTTTT
1 AAGTTAA--G---GGTTTAGGG-TTTTAGGTTAA-GGGTTACGG-TTTTT
* **
745894 AAGTTAAGGGTTAGGGTTAGGGTTTTTAGGTTAATGTGTTAATGTTTTT
1 AAGTTAAGGG-T----TTAGGG-TTTTAGGTTAA-GGGTTACGGTTTTT
* *
745943 AAGTTTAGGGTTTAGGGTTTTAAGTTTTTAGGTTAAGGGGTTAGGGTTTTT
1 AAGTTAAGGGTTTA-GG------G-TTTTAGGTTAA-GGGTTACGGTTTTT
* *
745994 AAGTTAATGGTTAGGGTTAGGGTTTTTAGGTTAATGTGTTA-GGATTTTT
1 AAGTTAA--G---GGTTTAGGG-TTTTAGGTTAA-GGGTTACGG-TTTTT
*
746043 AAGTTAAGGG-TTAGGGTTAAAATTTTTAGGTTAAGGGTTTAAGGTTTTT
1 AAGTTAAGGGTTTAGGG-------TTTTAGGTTAAGGG-TTACGGTTTTT
* *
746092 AGGTTAAAGGTTTAGGGTTT
1 AAGTTAAGGGTTTAGGGTTT
746112 GTCAATTAAA
Statistics
Matches: 520, Mismatches: 49, Indels: 152
0.72 0.07 0.21
Matches are distributed among these distances:
42 36 0.07
43 94 0.18
44 9 0.02
45 2 0.00
46 1 0.00
47 21 0.04
48 30 0.06
49 227 0.44
50 19 0.04
51 31 0.06
53 3 0.01
54 6 0.01
55 35 0.07
56 6 0.01
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (42 bp):
AAGTTAAGGGTTTAGGGTTTTAGGTTAAGGGTTACGGTTTTT
Found at i:745657 original size:21 final size:21
Alignment explanation
Indices: 745424--745911 Score: 251
Period size: 22 Copynumber: 20.9 Consensus size: 21
745414 CATCCAATTA
745424 AAGTTAAGGGTTTAGGGTTTTT
1 AAGTTAAGGG-TTAGGGTTTTT
* * * *
745446 AATTTAAGGGTTACGATTTTA
1 AAGTTAAGGGTTAGGGTTTTT
* * *
745467 AAATGAAGGGTTTATGGTTTTT
1 AAGTTAAGGG-TTAGGGTTTTT
* * *
745489 AAGTTAAGGGTTACGATTTTA
1 AAGTTAAGGGTTAGGGTTTTT
* *
745510 AAGTTAAGGGCTATGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTT
*
745531 AGGTTAAGGGGTTAGGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTT
745553 AAGTTAAGGGTTAGGGTTAGGGTTTT
1 AAGTTAAGGGTTAGGG-T----TTTT
* *
745579 AGGTTAATGGG-TAAGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTT
745600 AAGTTAAGGGTTTAGGG-TTTT
1 AAGTTAAGGG-TTAGGGTTTTT
* *
745621 AGGTTAAGGGGCTAGGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTT
*
745643 AAGTTAACGGTTAGGGCTGGGGTTTTTAGGTT
1 AAGTTAAGGGTTA------GGG-TTT----TT
*
745675 AAGGTGTTAGGGTTAGGGTTTTT
1 AA-GT-TAAGGGTTAGGGTTTTT
*
745698 AAGTTAATGGTTAGGGTTAATGTTTTT
1 AAGTTAAGGGTTA-GG-----GTTTTT
*
745725 AGGTTAAGGGGTTAGGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTT
745747 AAGTTAAGGGTTAGGGTTGGAGTTTTT
1 AAGTTAAGGGTTA-----GG-GTTTTT
*
745774 AGGTTAAGGTGTTAGGGTTTTT
1 AAGTTAAGG-GTTAGGGTTTTT
745796 AAGTTAAGGGTTAGGGTTAGGGTTTTT
1 AAGTT-A-----AGGGTTAGGGTTTTT
* *
745823 AAGTTAAGGGGTTAGAGTCTTT
1 AAGTTAA-GGGTTAGGGTTTTT
*
745845 AAGTTAACGGTTAGGGTTGGGGTTTTT
1 AAGTT-A-----AGGGTTAGGGTTTTT
* *
745872 AGGTTAAGGGGTTAGGATTTTT
1 AAGTTAA-GGGTTAGGGTTTTT
745894 AAGTTAAGGGTTAGGGTT
1 AAGTTAAGGGTTAGGGTT
745912 AGGGTTTTTA
Statistics
Matches: 363, Mismatches: 50, Indels: 107
0.70 0.10 0.21
Matches are distributed among these distances:
20 3 0.01
21 110 0.30
22 122 0.34
23 8 0.02
25 1 0.00
26 18 0.05
27 69 0.19
28 19 0.05
32 4 0.01
33 2 0.01
34 7 0.02
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.41
Consensus pattern (21 bp):
AAGTTAAGGGTTAGGGTTTTT
Found at i:745969 original size:29 final size:30
Alignment explanation
Indices: 745932--745998 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
745922 GGTTAATGTG
* *
745932 TTAATGTTTTTAAGTTTAGGGTTTAGGG-TT
1 TTAA-GTTTTTAAGTTAAGGGGTTAGGGTTT
*
745962 TTAAGTTTTTAGGTTAAGGGGTTAGGGTTT
1 TTAAGTTTTTAAGTTAAGGGGTTAGGGTTT
745992 TTAAGTT
1 TTAAGTT
745999 AATGGTTAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 20 0.61
30 13 0.39
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.51
Consensus pattern (30 bp):
TTAAGTTTTTAAGTTAAGGGGTTAGGGTTT
Found at i:745991 original size:22 final size:22
Alignment explanation
Indices: 745966--746111 Score: 105
Period size: 22 Copynumber: 6.2 Consensus size: 22
745956 AGGGTTTTAA
745966 GTTTTTAGGTTAAGGGGTTAGG
1 GTTTTTAGGTTAAGGGGTTAGG
*
745988 GTTTTTAAGTTAATGGTTAGGGTTAGG
1 GTTTTTAGGTTAA--G---GGGTTAGG
* *
746015 GTTTTTAGGTTAATGTGTTAGG
1 GTTTTTAGGTTAAGGGGTTAGG
* *
746037 ATTTTTAAGTTAA-GGGTTAGG
1 GTTTTTAGGTTAAGGGGTTAGG
* *
746058 GTTAAAATTTTTAGGTTAAGGGTTTAAG
1 G------TTTTTAGGTTAAGGGGTTAGG
* *
746086 GTTTTTAGGTTAAAGGTTTAGG
1 GTTTTTAGGTTAAGGGGTTAGG
746108 GTTT
1 GTTT
746112 GTCAATTAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 24
0.73 0.10 0.18
Matches are distributed among these distances:
21 7 0.07
22 53 0.54
24 1 0.01
27 31 0.31
28 7 0.07
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (22 bp):
GTTTTTAGGTTAAGGGGTTAGG
Found at i:747353 original size:414 final size:414
Alignment explanation
Indices: 746583--747403 Score: 1322
Period size: 414 Copynumber: 2.0 Consensus size: 414
746573 TACATCAGCA
*
746583 GTCCACTCGGCGTTACAGGAAATGGATCTGAACCGGGCCATTGGCTCCAACCTGCCATAAGACTC
1 GTCCACTCGGCGTTACAGGAAATGGATCTGAACCAGGCCATTGGCTCCAACCTGCCATAAGACTC
*
746648 GGAAATGGAAACATATAAGGGTTAGGATACATAAAAAGGCTAGAAAACGCACCTGGCATCATCTG
66 GGAAAAGGAAACATATAAGGGTTAGGATACATAAAAAGGCTAGAAAACGCACCTGGCATCATCTG
* *
746713 AAAAGGCGGTTGCGTGGGTATCATCGGTTGAACTGCTGGGTCGGGTGACTGTGTCGATGCTATCG
131 AAAAGGCGGTAGCGTGGGTATAATCGGTTGAACTGCTGGGTCGGGTGACTGTGTCGATGCTATCG
* ** *
746778 TTGGGCCTGGTAATTGAATGGTTGCTGATGATGAGCTAGATAATTGTCTGGGCCTCGTTGAGGGG
196 TTGGGCCTGGTAATTAAATGGCCGCTGATGATGAGCCAGATAATTGTCTGGGCCTCGTTGAGGGG
* * *
746843 CCAGCGTCGTCGTCTTGTCGTCTTGGATTTAAAGGCCCGCGTCTTTCCCTTTGGACACGTAATTG
261 CCAGCGTCGTCGTCCTGTCGTCTTGGATTTAAAGACCCACGTCTTTCCCTTTGGACACGTAATTG
* * * *
746908 CGGTTGCCTCTCCTCTGGCTACAGTAAATACGGC-TAGCCATGGATCCTAAACCATGGCATGTAT
326 CCGCTGCCTCTCATCTGGCGACAGTAAATACGGCTTA-CCATGGATCCTAAACCATGGCATGTAT
*
746972 TCCGGCACGCACGCTAACATTGGCG
390 TCCGACACGCACGCTAACATTGGCG
*
746997 GTCCACTCGGCGTTACAGGAAATGGAGT-TGAACCAGGCCATTGGCTCCAACCTGCCATAGGACT
1 GTCCACTCGGCGTTACAGGAAATGGA-TCTGAACCAGGCCATTGGCTCCAACCTGCCATAAGACT
** * * *
747061 CGGAAAAGGAAACATATAAGGGTTAGGATACATAAATGGGCTAGGAAACGCACTTGTCATCATCT
65 CGGAAAAGGAAACATATAAGGGTTAGGATACATAAAAAGGCTAGAAAACGCACCTGGCATCATCT
*
747126 GAAAAGGCGGTAGCGTGGGTATAATCGGTTGAACTGCTGGGTCGGGTGACTGTGTCGGTGCTATC
130 GAAAAGGCGGTAGCGTGGGTATAATCGGTTGAACTGCTGGGTCGGGTGACTGTGTCGATGCTATC
* * * * * * *
747191 GTTGGGTCTGGTGATTAAATGGCCGCTGATGATGGGCCGGGTGATTGTTTGGGCCTCGTTGAGGG
195 GTTGGGCCTGGTAATTAAATGGCCGCTGATGATGAGCCAGATAATTGTCTGGGCCTCGTTGAGGG
*
747256 GCCAGTGTCGTCGTCCTGTCGTCTTGGATTTAAAGACCCACGTCTTTCCCTTTGGACACGTAATT
260 GCCAGCGTCGTCGTCCTGTCGTCTTGGATTTAAAGACCCACGTCTTTCCCTTTGGACACGTAATT
747321 GCCGCTGCCTCTCATCTGGCGACAGTAAATACGGCTTACCATGGATCCTAAACCATGGCATGTAT
325 GCCGCTGCCTCTCATCTGGCGACAGTAAATACGGCTTACCATGGATCCTAAACCATGGCATGTAT
*
747386 TCTGACACGCACGCTAAC
390 TCCGACACGCACGCTAAC
747404 TCCGGAACGA
Statistics
Matches: 373, Mismatches: 32, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
414 370 0.99
415 3 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (414 bp):
GTCCACTCGGCGTTACAGGAAATGGATCTGAACCAGGCCATTGGCTCCAACCTGCCATAAGACTC
GGAAAAGGAAACATATAAGGGTTAGGATACATAAAAAGGCTAGAAAACGCACCTGGCATCATCTG
AAAAGGCGGTAGCGTGGGTATAATCGGTTGAACTGCTGGGTCGGGTGACTGTGTCGATGCTATCG
TTGGGCCTGGTAATTAAATGGCCGCTGATGATGAGCCAGATAATTGTCTGGGCCTCGTTGAGGGG
CCAGCGTCGTCGTCCTGTCGTCTTGGATTTAAAGACCCACGTCTTTCCCTTTGGACACGTAATTG
CCGCTGCCTCTCATCTGGCGACAGTAAATACGGCTTACCATGGATCCTAAACCATGGCATGTATT
CCGACACGCACGCTAACATTGGCG
Found at i:747980 original size:20 final size:20
Alignment explanation
Indices: 747943--747980 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
747933 TTTATTTTTA
*
747943 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
747963 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
747981 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:748979 original size:51 final size:52
Alignment explanation
Indices: 748918--749018 Score: 127
Period size: 51 Copynumber: 2.0 Consensus size: 52
748908 AAATATTTAA
* *
748918 AAATAGGAATTTAAGAGAAA-TTT-AAGAGGAAATTGAGAGCAAA-TTGAGATT
1 AAATAGGAATTCAAGAGAAATTTTGAAGA--AAATTGAGAGAAAATTTGAGATT
* *
748969 AAATATGAATTCGAGAGAAATTTTGAAGAAAATTGAGAGAAAATTTGAGA
1 AAATAGGAATTCAAGAGAAATTTTGAAGAAAATTGAGAGAAAATTTGAGA
749019 GAGAATTAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
51 30 0.70
52 9 0.21
53 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.23, T:0.26
Consensus pattern (52 bp):
AAATAGGAATTCAAGAGAAATTTTGAAGAAAATTGAGAGAAAATTTGAGATT
Found at i:749002 original size:23 final size:23
Alignment explanation
Indices: 748976--749025 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
748966 ATTAAATATG
*
748976 AATTCGAGAGAAATTTTGA-AGAA
1 AATT-GAGAGAAAATTTGAGAGAA
*
748999 AATTGAGAGAAAATTTGAGAGAG
1 AATTGAGAGAAAATTTGAGAGAA
749022 AATT
1 AATT
749026 AGTTTGTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (23 bp):
AATTGAGAGAAAATTTGAGAGAA
Found at i:749016 original size:12 final size:12
Alignment explanation
Indices: 748976--749025 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
748966 ATTAAATATG
*
748976 AATTCGAGAGAA
1 AATTTGAGAGAA
*
748988 ATTTTGA-AGAA
1 AATTTGAGAGAA
748999 AA-TTGAGAGAA
1 AATTTGAGAGAA
*
749010 AATTTGAGAGAG
1 AATTTGAGAGAA
749022 AATT
1 AATT
749026 AGTTTGTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 4 0.12
11 11 0.34
12 17 0.53
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (12 bp):
AATTTGAGAGAA
Found at i:754280 original size:25 final size:26
Alignment explanation
Indices: 754243--754297 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
754233 AGACTATAAA
*
754243 AAAATATATAAATGTATG-A-ATTAT
1 AAAATATAGAAATGTATGAATATTAT
754267 AAAATATAGGAAATGTATGAATATTAT
1 AAAATATA-GAAATGTATGAATATTAT
754294 AAAA
1 AAAA
754298 CATAAACGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 8 0.30
25 9 0.33
26 1 0.04
27 9 0.33
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (26 bp):
AAAATATAGAAATGTATGAATATTAT
Found at i:766592 original size:102 final size:99
Alignment explanation
Indices: 766416--766596 Score: 227
Period size: 102 Copynumber: 1.8 Consensus size: 99
766406 GCATAATATA
* * ** * * ****
766416 ACTTACCATTACAGTCAATTGCATGTCTGTTTTATTGTTCATGAAGAGTAATCTTTTGGGGGTTA
1 ACTTACCATTACACTCAATTGCATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAGTTA
766481 TGATCGGTTCTCTCGATAATATCGTTGTAGTCTG
66 TGATCGGTTCTCTCGATAATATCGTTGTAGTCTG
*
766515 ACTTACTATTACACTCAATTGCTTTATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAG
1 ACTTACCATTACACTCAATTGC---ATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAG
*
766580 TTATGATTGGTTCTCTC
63 TTATGATCGGTTCTCTC
766597 TACAATATTA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
99 20 0.30
102 47 0.70
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (99 bp):
ACTTACCATTACACTCAATTGCATGTCCGTTTTACGGTCCACGAAGAGTAATCTTTTCAAAGTTA
TGATCGGTTCTCTCGATAATATCGTTGTAGTCTG
Found at i:767090 original size:36 final size:36
Alignment explanation
Indices: 767043--767117 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
767033 TATGATTTGC
* *
767043 GATTATAGTACTTGTTGTCAATGCATCATACCTTGT
1 GATTATAGTACTTATTGTCAATGCATCATACCATGT
767079 GATTATAGTACTTATTGTCAATGCATCATACCATGT
1 GATTATAGTACTTATTGTCAATGCATCATACCATGT
767115 GAT
1 GAT
767118 CTCTCATATG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (36 bp):
GATTATAGTACTTATTGTCAATGCATCATACCATGT
Found at i:769231 original size:23 final size:22
Alignment explanation
Indices: 769204--769253 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
769194 TTTTTTAATT
769204 ATATTCACTATTTTAAAT-ATAAA
1 ATATTCAC--TTTTAAATCATAAA
* *
769227 ATATTTACTTTTATATCATAAA
1 ATATTCACTTTTAAATCATAAA
769249 ATATT
1 ATATT
769254 AAAATTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 10 0.42
23 7 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATTCACTTTTAAATCATAAA
Found at i:770174 original size:50 final size:51
Alignment explanation
Indices: 770083--770182 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 51
770073 TGATTGTATC
770083 TTTAGTCAAACACTATACTTTTTTAATTTTGAAATTTTAGTTTTGATATAA
1 TTTAGTCAAACACTATACTTTTTTAATTTTGAAATTTTAGTTTTGATATAA
770134 TTTAGTCAAACACTATAC-TTTTTAATTTTGAAATTTTAGTTTTGATATA
1 TTTAGTCAAACACTATACTTTTTTAATTTTGAAATTTTAGTTTTGATATA
770183 GATAACAATT
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 31 0.63
51 18 0.37
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (51 bp):
TTTAGTCAAACACTATACTTTTTTAATTTTGAAATTTTAGTTTTGATATAA
Found at i:773182 original size:14 final size:14
Alignment explanation
Indices: 773163--773196 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
773153 AAATTTAAAC
773163 ATTAACCATTAGAG
1 ATTAACCATTAGAG
773177 ATTAACCATTAGAG
1 ATTAACCATTAGAG
773191 ATTAAC
1 ATTAAC
773197 AAAATTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (14 bp):
ATTAACCATTAGAG
Found at i:773525 original size:13 final size:14
Alignment explanation
Indices: 773507--773553 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
773497 TTACTACTGG
*
773507 AAAAAGAAAAT-AC
1 AAAAAGAAAATAAA
*
773520 AAAAAGAAGATAAA
1 AAAAAGAAAATAAA
773534 AAAAAGAAAA-AGAA
1 AAAAAGAAAATA-AA
773548 AAAAAG
1 AAAAAG
773554 GAAACCTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.81, C:0.02, G:0.13, T:0.04
Consensus pattern (14 bp):
AAAAAGAAAATAAA
Done.