Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold381
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: 1193157
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 8
Found at i:742559 original size:195 final size:196
Alignment explanation
Indices: 742182--742625 Score: 766
Period size: 195 Copynumber: 2.3 Consensus size: 196
742172 AAAATAATAA
*
742182 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAGAAAAAGCATGAATA
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATA
*
742247 ATAAAATGTACCATGATGGAATAAAAAAAAAAAAAAAGCATGAATAATAAAATGTAGCATGATGG
66 ATAAAATGTACCATGATGGAAT---AAAAAAAAAAAAGCATGAATAATAAAATGTAACATGATGG
*
742312 AATGAAATAATGAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAA
128 AATGAAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAA
742377 AAAG
193 AAAG
742381 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATA
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATA
* * *
742446 ATAAAATGTAGCATGATGGAAT-GAAATAAAAAAGCATGAATAATAAAATGTAACATGATGGAAT
66 ATAAAATGTACCATGATGGAATAAAAAAAAAAAAGCATGAATAATAAAATGTAACATGATGGAAT
742510 GAAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAA
131 GAAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAA
742575 G
196 G
* *
742576 AAAAAGCATGAATAATAAAAGGGAGCATGATGGAAT-AAATAAAGAAAAAA
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAAA-AAAAAA
742626 AGAAGATGAT
Statistics
Matches: 236, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
194 7 0.03
195 144 0.61
199 85 0.36
ACGTcount: A:0.59, C:0.04, G:0.18, T:0.19
Consensus pattern (196 bp):
AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAGAAAAAGCATGAATA
ATAAAATGTACCATGATGGAATAAAAAAAAAAAAGCATGAATAATAAAATGTAACATGATGGAAT
GAAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAA
G
Found at i:742625 original size:51 final size:51
Alignment explanation
Indices: 742182--742617 Score: 713
Period size: 51 Copynumber: 8.8 Consensus size: 51
742172 AAAATAATAA
742182 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
*
742233 AAAAAGCATGAATAATAAAATGTACCATGATGGAAT--AA-AA-AAAAAA-
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
*
742279 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATGAAAAAG
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
742330 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
*
742381 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAAAAAAAAAG
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
742432 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATG--A-AAT-----A-
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
*
742474 AAAAAGCATGAATAATAAAATGTAACATGATGGAATGAAATAATAAAAAAG
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
742525 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
* *
742576 AAAAAGCATGAATAATAAAAGGGAGCATGATGGAAT-AAATAA
1 AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAA
742618 AGAAAAAAAG
Statistics
Matches: 361, Mismatches: 10, Indels: 29
0.90 0.03 0.07
Matches are distributed among these distances:
42 36 0.10
43 1 0.00
44 1 0.00
45 3 0.01
46 35 0.10
47 6 0.02
48 6 0.02
49 5 0.01
50 12 0.03
51 256 0.71
ACGTcount: A:0.59, C:0.04, G:0.18, T:0.19
Consensus pattern (51 bp):
AAAAAGCATGAATAATAAAATGTAGCATGATGGAATGAAATAATAAAAAAG
Found at i:748290 original size:52 final size:52
Alignment explanation
Indices: 748212--748340 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
748202 CGAAATATGA
748212 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
* *
748264 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
748316 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
748341 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
Found at i:748351 original size:52 final size:51
Alignment explanation
Indices: 748212--748360 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
748202 CGAAATATGA
*
748212 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
748264 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
748316 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
748361 ATGTATCGAT
Statistics
Matches: 91, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 2 0.02
52 89 0.98
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:748367 original size:13 final size:13
Alignment explanation
Indices: 748349--748373 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
748339 CAAAGATCAG
748349 TGTATCGATACAA
1 TGTATCGATACAA
748362 TGTATCGATACA
1 TGTATCGATACA
748374 TTTGGGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:748440 original size:19 final size:18
Alignment explanation
Indices: 748416--748513 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
748406 TAGCTTATAT
748416 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
748435 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
748448 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
748467 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
748480 TGTATTGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
748500 TGTATCGATACAAA
1 TGTATCGATACAAA
748514 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.38
20 12 0.19
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:748453 original size:13 final size:13
Alignment explanation
Indices: 748435--748491 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
748425 ACAAAACTTA
748435 TGTATCGATACAT
1 TGTATCGATACAT
748448 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
748466 ATGTATCGATACAT
1 -TGTATCGATACAT
*
748480 TGTATTGATACA
1 TGTATCGATACA
748492 ACACTTTATG
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 20 0.54
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:748455 original size:32 final size:32
Alignment explanation
Indices: 748414--748511 Score: 169
Period size: 32 Copynumber: 3.0 Consensus size: 32
748404 AGTAGCTTAT
*
748414 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
748446 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
*
748478 ATTGTATTGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
748511 A
1 A
748512 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 48 0.76
33 15 0.24
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:760919 original size:42 final size:43
Alignment explanation
Indices: 760163--760923 Score: 613
Period size: 42 Copynumber: 18.0 Consensus size: 43
760153 GCCTGCCTGT
* * * * *
760163 ACCCTAGAGACTTTCCTTTCCCTCAGTCTGCCTATCGACTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* ** * *
760206 ACCCTAGAGAC-TGCCTTAT---TTAAAGTCTGCCTGTCAG-TTTA
1 ACCCTGGAGACTTTTCTT-TCCCTT--AGTCTGCCTGTCGGCTTTG
* * *
760247 ACCCTAGAGAC-TTTCGTTTGCCTCAGTCTGCCTGTCGGCTTTG
1 ACCCTGGAGACTTTTC-TTTCCCTTAGTCTGCCTGTCGGCTTTG
** ** *
760290 ACCCTGGAGACTACCTCATTT---AAAGTCTGTCTGTCGGCTTTG
1 ACCCTGGAGACT-TTTC-TTTCCCTTAGTCTGCCTGTCGGCTTTG
* *
760332 ACCCTGGAGACTTTTCTATCCCTTAGTCTGCCTGTCGGTTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* * *
760375 ACCCTGGAGACTTTTC-TTCCTTTAGTCTGCTTGTCAGCTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* * * *
760417 ACCTTGGAGAC--TGC-TTCATCTAAAGTCTGCCTGTCGGCTTTG
1 ACCCTGGAGACTTTTCTTTC-CCT-TAGTCTGCCTGTCGGCTTTG
* * * * * *
760459 ACCTTGGAGAC-TTTCCTACCCTTCAGTCTACATGTCGGC-TTC
1 ACCCTGGAGACTTTTCTTTCCCTT-AGTCTGCCTGTCGGCTTTG
** ** * *
760501 ATCCCTGGAGACTGCCTCATTT---AAAGTCTGTCTGTTGGCTTTG
1 A-CCCTGGAGACT-TTTC-TTTCCCTTAGTCTGCCTGTCGGCTTTG
*
760544 ACCCTGGAGACTTTT-TTTCCCTTAGTCTACCTGTCGGCTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* *
760586 ATCCTGGAGACTTTT-TTACCCTTAGTCTGCCTGTCGGCTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* *
760628 ACCCTGGAGACTTTTC-TTCCCTCAGTCTGCCTGTCAGCTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* * * * *
760670 ACCTTGGAGACTTTT-TTTTCCTCAGTCTGCCTGTCGACTTTA
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* ** * * * *
760712 ACCCTAGAGACTTTTC-AACCCTCAGTCTGCCTATC-GATTTA
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* * *
760753 ACCCTGGAGACTTTTCTATCCCTTAGTCTGCTTGTCGGTTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
*
760796 ACCCTGGAGACTTTTC-TTCCCTTAGTCTACCTGTCGGCTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* * * *
760838 ATCCTGGAGACTTTTC-ATCCCTTAGTCTACCTGTCGG-TTTC
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
* * * *
760879 ACCCTAGAGACTTTTCTTTCCCTAAGTCTGCCTGTTGGTTTTG
1 ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
760922 AC
1 AC
760924 TCGGGAGAAT
Statistics
Matches: 581, Mismatches: 104, Indels: 66
0.77 0.14 0.09
Matches are distributed among these distances:
39 3 0.01
40 8 0.01
41 57 0.10
42 390 0.67
43 112 0.19
44 3 0.01
45 7 0.01
46 1 0.00
ACGTcount: A:0.15, C:0.28, G:0.19, T:0.37
Consensus pattern (43 bp):
ACCCTGGAGACTTTTCTTTCCCTTAGTCTGCCTGTCGGCTTTG
Found at i:761469 original size:23 final size:23
Alignment explanation
Indices: 761443--761568 Score: 66
Period size: 23 Copynumber: 5.4 Consensus size: 23
761433 CAATCAAAAA
761443 AATAATAAAAAAGAAAAAGCATG
1 AATAATAAAAAAGAAAAAGCATG
* *
761466 AATAAT-AAAATG---TAGCATG
1 AATAATAAAAAAGAAAAAGCATG
* *
761485 -ATGGAATGAAATA-AAAAAGCATG
1 AAT--AATAAAAAAGAAAAAGCATG
* * ** *
761508 AATAATAAAATGTAGCATGATGGAATG
1 AATAATAAAA--AAG-A-AAAAGCATG
761535 AAATAATAAAAAAGAAAAAGCATG
1 A-ATAATAAAAAAGAAAAAGCATG
761559 AATAATAAAA
1 AATAATAAAA
761569 GGGAGCATGA
Statistics
Matches: 75, Mismatches: 15, Indels: 26
0.65 0.13 0.22
Matches are distributed among these distances:
18 2 0.03
19 6 0.08
20 3 0.04
21 3 0.04
22 11 0.15
23 21 0.28
24 10 0.13
25 1 0.01
26 3 0.04
27 6 0.08
28 9 0.12
ACGTcount: A:0.61, C:0.04, G:0.16, T:0.19
Consensus pattern (23 bp):
AATAATAAAAAAGAAAAAGCATG
Found at i:761484 original size:19 final size:19
Alignment explanation
Indices: 761460--761527 Score: 59
Period size: 19 Copynumber: 3.4 Consensus size: 19
761450 AAAAAGAAAA
761460 AGCATGAATAATAAAATGT
1 AGCATGAATAATAAAATGT
*
761479 AGCATGATGGAATGAAATAAAA--A
1 AGC---AT-GAAT--AATAAAATGT
761502 AGCATGAATAATAAAATGT
1 AGCATGAATAATAAAATGT
761521 AGCATGA
1 AGCATGA
761528 TGGAATGAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 16
0.68 0.04 0.28
Matches are distributed among these distances:
17 7 0.18
19 14 0.36
20 2 0.05
22 2 0.05
23 7 0.18
25 7 0.18
ACGTcount: A:0.53, C:0.06, G:0.19, T:0.22
Consensus pattern (19 bp):
AGCATGAATAATAAAATGT
Found at i:761498 original size:51 final size:51
Alignment explanation
Indices: 761442--761589 Score: 206
Period size: 42 Copynumber: 3.1 Consensus size: 51
761432 TCAATCAAAA
761442 AAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATG
1 AAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATG
761493 --A-AAT-----A-AAAAAGCATGAATAATAAAATGTAGCATGATGGAATG
1 AAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATG
* *
761535 AAATAATAAAAAAGAAAAAGCATGAATAATAAAAGGGAGCATGATGGAATTG
1 AAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAA-TG
761587 AAA
1 AAA
761590 GCTCAAGGAA
Statistics
Matches: 85, Mismatches: 2, Indels: 19
0.80 0.02 0.18
Matches are distributed among these distances:
42 37 0.44
43 1 0.01
44 1 0.01
45 3 0.04
48 3 0.04
49 1 0.01
50 1 0.01
51 33 0.39
52 5 0.06
ACGTcount: A:0.58, C:0.04, G:0.19, T:0.19
Consensus pattern (51 bp):
AAATAATAAAAAAGAAAAAGCATGAATAATAAAATGTAGCATGATGGAATG
Found at i:762389 original size:32 final size:33
Alignment explanation
Indices: 762329--762392 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
762319 ACAAGCTAAT
*
762329 GTATCGATACATTTTGGGATGTATCGATACAAC
1 GTATCGATACATATTGGGATGTATCGATACAAC
*
762362 GTATCGATACATATTGTG-TGTATCGATACAA
1 GTATCGATACATATTGGGATGTATCGATACAA
762393 ATTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (33 bp):
GTATCGATACATATTGGGATGTATCGATACAAC
Found at i:762464 original size:20 final size:21
Alignment explanation
Indices: 762414--762466 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
762404 GCCAATGACC
**
762414 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
762435 AGTATTGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
762455 TGTATCGATACA
1 TGTATCGATACA
762467 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:762472 original size:13 final size:13
Alignment explanation
Indices: 762454--762478 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
762444 ACATTTGGTC
762454 ATGTATCGATACA
1 ATGTATCGATACA
762467 ATGTATCGATAC
1 ATGTATCGATAC
762479 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:764954 original size:13 final size:13
Alignment explanation
Indices: 764936--764960 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
764926 ATAAACCCTT
764936 TGTATCGATACAC
1 TGTATCGATACAC
764949 TGTATCGATACA
1 TGTATCGATACA
764961 GGGAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:768498 original size:13 final size:13
Alignment explanation
Indices: 768480--768505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
768470 CAATTTTTTG
768480 TGTATCGATACAT
1 TGTATCGATACAT
768493 TGTATCGATACAT
1 TGTATCGATACAT
768506 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:769253 original size:21 final size:21
Alignment explanation
Indices: 769212--769255 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
769202 CTCCTCTTTA
* *
769212 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
769233 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
769254 TC
1 TC
769256 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:771079 original size:13 final size:13
Alignment explanation
Indices: 771061--771086 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
771051 ATAATCACCC
771061 TGTATCGATACAA
1 TGTATCGATACAA
771074 TGTATCGATACAA
1 TGTATCGATACAA
771087 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:773187 original size:15 final size:15
Alignment explanation
Indices: 773167--773197 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
773157 ATTTCGTTTG
*
773167 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
773182 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
773197 G
1 G
773198 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:775030 original size:21 final size:21
Alignment explanation
Indices: 775001--775045 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
774991 AAGTTTTCAT
*
775001 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
775021 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
775043 TTT
1 TTT
775046 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:777279 original size:13 final size:13
Alignment explanation
Indices: 777261--777286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
777251 CAATTTTTTG
777261 TGTATCGATACAT
1 TGTATCGATACAT
777274 TGTATCGATACAT
1 TGTATCGATACAT
777287 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:781034 original size:13 final size:13
Alignment explanation
Indices: 781016--781041 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
781006 ACATTTTGGG
781016 ATGTATCGATACA
1 ATGTATCGATACA
781029 ATGTATCGATACA
1 ATGTATCGATACA
781042 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:781036 original size:33 final size:32
Alignment explanation
Indices: 780994--781061 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
780984 CGTTACAAGC
*
780994 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
781027 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
781059 CAA
1 CAA
781062 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:781141 original size:20 final size:21
Alignment explanation
Indices: 781094--781147 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
781084 GCTAATGACC
**
781094 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
*
781115 AGTATCGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
781135 TGTATCGATACAT
1 TGTATCGATACAT
781148 GTATCGATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.41
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:781150 original size:12 final size:12
Alignment explanation
Indices: 781133--781157 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
781123 TACATTTGGT
781133 CATGTATCGATA
1 CATGTATCGATA
781145 CATGTATCGATA
1 CATGTATCGATA
781157 C
1 C
781158 TGTGCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (12 bp):
CATGTATCGATA
Found at i:781753 original size:21 final size:23
Alignment explanation
Indices: 781716--781759 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
781706 TTTTTTTTCA
781716 CTCCCCCTTAATCAAAA-AATTT
1 CTCCCCCTTAATCAAAATAATTT
*
781738 CTCCCCCTTAGT-AAAATAATTT
1 CTCCCCCTTAATCAAAATAATTT
781760 AACACTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (23 bp):
CTCCCCCTTAATCAAAATAATTT
Found at i:783474 original size:20 final size:21
Alignment explanation
Indices: 783445--783485 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
783435 TGTTTTTGTT
783445 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
783464 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
783486 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:783844 original size:8 final size:8
Alignment explanation
Indices: 783831--783856 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
783821 AACATCATTC
783831 ATCACAAA
1 ATCACAAA
783839 ATCACAAA
1 ATCACAAA
783847 ATCACAAA
1 ATCACAAA
783855 AT
1 AT
783857 TTAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (8 bp):
ATCACAAA
Found at i:789811 original size:13 final size:13
Alignment explanation
Indices: 789793--789818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
789783 ACATTTTGGG
789793 ATGTATCGATACA
1 ATGTATCGATACA
789806 ATGTATCGATACA
1 ATGTATCGATACA
789819 TATTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:789811 original size:33 final size:32
Alignment explanation
Indices: 789771--789838 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
789761 CCGTTACAAG
*
789771 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATATTGGG-TGTATCGATA
*
789804 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCGATA
789836 CAA
1 CAA
789839 ATTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCGATA
Found at i:789921 original size:20 final size:21
Alignment explanation
Indices: 789871--789923 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
789861 GCTAATGACC
**
789871 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGGTCA
* *
789892 AGTATTGATACATT-TGGTCA
1 TGTATCGATACATTCTGGTCA
789912 TGTATCGATACA
1 TGTATCGATACA
789924 ATGTATCGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGGTCA
Found at i:789929 original size:13 final size:13
Alignment explanation
Indices: 789911--789935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
789901 ACATTTGGTC
789911 ATGTATCGATACA
1 ATGTATCGATACA
789924 ATGTATCGATAC
1 ATGTATCGATAC
789936 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:790710 original size:6 final size:7
Alignment explanation
Indices: 790692--790719 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
790682 ATTTAAATGT
790692 TAAAAAA
1 TAAAAAA
790699 TAAAAAA
1 TAAAAAA
790706 TAAAAAA
1 TAAAAAA
790713 TAAAAAA
1 TAAAAAA
790720 CTTTGGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:791361 original size:16 final size:15
Alignment explanation
Indices: 791330--791370 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 15
791320 AAAGTAAAAT
791330 TAAAAAATAAAAAATAA
1 TAAAAAAT--AAAATAA
791347 TAACAAAATAAAATAA
1 TAA-AAAATAAAATAA
791363 TAAAAAAT
1 TAAAAAAT
791371 TCTTTTATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
17 3 0.13
18 5 0.22
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAAAAATAAAATAA
Found at i:797832 original size:14 final size:13
Alignment explanation
Indices: 797807--797836 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
797797 CCATGTATAT
797807 ATACATTGCATAC
1 ATACATTGCATAC
797820 ATACATATGCATAC
1 ATACAT-TGCATAC
797834 ATA
1 ATA
797837 AGTATTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (13 bp):
ATACATTGCATAC
Found at i:801360 original size:15 final size:14
Alignment explanation
Indices: 801323--801374 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
801313 ATCTAAAATG
*
801323 AAAAGAAACAAACAA
1 AAAAAAAACAAA-AA
* *
801338 AGAAAAAATAAAAA
1 AAAAAAAACAAAAA
801352 ATAAAAAAACAAAAA
1 A-AAAAAAACAAAAA
801367 AAAAAAAA
1 AAAAAAAA
801375 AAACTTAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
14 10 0.32
15 21 0.68
ACGTcount: A:0.87, C:0.06, G:0.04, T:0.04
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:801361 original size:26 final size:25
Alignment explanation
Indices: 801323--801377 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
801313 ATCTAAAATG
* *
801323 AAAAGAAACAAACAAAGAAAAAATAA
1 AAAAGAAAAAAACAAA-AAAAAAAAA
*
801349 AAAATAAAAAAACAAAAAAAAAAAA
1 AAAAGAAAAAAACAAAAAAAAAAAA
801374 AAAA
1 AAAA
801378 CTTAGATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 12 0.46
26 14 0.54
ACGTcount: A:0.87, C:0.05, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAAACAAAAAAAAAAAA
Found at i:802765 original size:66 final size:66
Alignment explanation
Indices: 802655--802829 Score: 208
Period size: 66 Copynumber: 2.7 Consensus size: 66
802645 CCTTTTCATA
* * * * *
802655 AACTCCTTTTTGAGTTAGTTTTTGCCCTGGTCACCCTTTT-TTGGTTCATATAATGTCGTCTTGA
1 AACTCCTTTTCGACTTAGGTTCTGCCCTGGTCA-CCTTTTGTTGGTACATATAATGTCGTCTTGA
802719 CC
65 CC
* * ** * *
802721 AACTCCTTTTCGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGGTACTTATGGTTTTGTCTTGAC
1 AACTCCTTTTCGACTTAGGTTCTGCCCTGGTCACCTTTTGTTGGTACATATAATGTCGTCTTGAC
802786 C
66 C
* * *
802787 AACTCATTTTCAACTTAGGTTCTGCCCTGGTCACCCTTTGTTG
1 AACTCCTTTTCGACTTAGGTTCTGCCCTGGTCACCTTTTGTTG
802830 ATACCTATGG
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
65 6 0.06
66 87 0.94
ACGTcount: A:0.15, C:0.25, G:0.17, T:0.43
Consensus pattern (66 bp):
AACTCCTTTTCGACTTAGGTTCTGCCCTGGTCACCTTTTGTTGGTACATATAATGTCGTCTTGAC
C
Found at i:802839 original size:66 final size:65
Alignment explanation
Indices: 802712--802867 Score: 231
Period size: 66 Copynumber: 2.4 Consensus size: 65
802702 ATATAATGTC
* * *
802712 GTCTTGACCAACTCCTTTTCGACTTAGGTTCTGCCCTAGTCACCTTTTGTTGGTACTTATGGTTT
1 GTCTTGACCAACT-CTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTGTTGATACCTATGGTTT
802777 T
65 T
* *
802778 GTCTTGACCAACTCATTTTCAACTTAGGTTCTGCCCTGGTCACCCTTTGTTGATACCTATGGTTT
1 GTCTTGACCAACTC-TTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTGTTGATACCTATGGTTT
802843 T
65 T
**
802844 GTCTTGATGAACTCTTTTCGACTT
1 GTCTTGACCAACTCTTTTCGACTT
802868 TGAAAAATTA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
65 10 0.12
66 71 0.88
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.43
Consensus pattern (65 bp):
GTCTTGACCAACTCTTTTCGACTTAGGTTCTGCCCTAGTCACCCTTTGTTGATACCTATGGTTTT
Found at i:802900 original size:25 final size:25
Alignment explanation
Indices: 802866--802933 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
802856 TCTTTTCGAC
**
802866 TTTGAAAAATTATTTTTAGGAATTT
1 TTTGAAAAATTATTTTTAGGAAGAT
* **
802891 TTTGAAAAATTATTTTGAGTTAGAT
1 TTTGAAAAATTATTTTTAGGAAGAT
*
802916 TTTGAAACATTATTTTTA
1 TTTGAAAAATTATTTTTA
802934 TAGATAATAT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (25 bp):
TTTGAAAAATTATTTTTAGGAAGAT
Found at i:802906 original size:13 final size:13
Alignment explanation
Indices: 802866--802908 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
802856 TCTTTTCGAC
802866 TTTGAAAAATTAT
1 TTTGAAAAATTAT
* **
802879 TTTTAGGAATT-T
1 TTTGAAAAATTAT
802891 TTTGAAAAATTAT
1 TTTGAAAAATTAT
802904 TTTGA
1 TTTGA
802909 GTTAGATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (13 bp):
TTTGAAAAATTAT
Found at i:803404 original size:22 final size:19
Alignment explanation
Indices: 803364--803405 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
803354 TTTTTTAAGT
803364 TTAAAATTTTTAAAATTCA
1 TTAAAATTTTTAAAATTCA
803383 TTAAATATTTTTATTAAATTCA
1 TTAAA-ATTTTTA--AAATTCA
803405 T
1 T
803406 GTTAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
22 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTTAAAATTCA
Found at i:808937 original size:13 final size:13
Alignment explanation
Indices: 808919--808944 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
808909 ACATTTGGTC
808919 ATGTATCGATACA
1 ATGTATCGATACA
808932 ATGTATCGATACA
1 ATGTATCGATACA
808945 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:808939 original size:33 final size:32
Alignment explanation
Indices: 808897--808963 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
808887 CGTTACAAGC
808897 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
808930 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
808962 CA
1 CA
808964 TCTGAAGGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:808977 original size:20 final size:19
Alignment explanation
Indices: 808931--808988 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
808921 GTATCGATAC
808931 AATGTATCGATACATCTTG
1 AATGTATCGATACATCTTG
*
808950 TATGTATCGATACATC-TG
1 AATGTATCGATACATCTTG
*
808968 AAGGTGTATCAATACAT-TTG
1 AA--TGTATCGATACATCTTG
808988 A
1 A
808989 GGGTTTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
18 3 0.09
19 15 0.45
20 15 0.45
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (19 bp):
AATGTATCGATACATCTTG
Found at i:811461 original size:13 final size:13
Alignment explanation
Indices: 811443--811480 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
811433 ATAAACCATT
* *
811443 TGTATCGTTACAC
1 TGTATCGATACAA
811456 TGTATCGATACAA
1 TGTATCGATACAA
811469 TGTATCGATACA
1 TGTATCGATACA
811481 GAGAGTACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:817652 original size:13 final size:13
Alignment explanation
Indices: 817634--817659 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
817624 ACATTTGGTC
817634 ATGTATCGATACA
1 ATGTATCGATACA
817647 ATGTATCGATACA
1 ATGTATCGATACA
817660 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:817654 original size:33 final size:32
Alignment explanation
Indices: 817612--817679 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
817602 CGTTATAAGC
817612 CAATGTATCGATACAT-TTGGTCATGTATCGATA
1 CAATGTATCGATACATCTT-GT-ATGTATCGATA
817645 CAATGTATCGATACATCTTGTATGTATCGATA
1 CAATGTATCGATACATCTTGTATGTATCGATA
817677 CAA
1 CAA
817680 ACAGTTAAGG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 18 0.53
34 2 0.06
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGTATGTATCGATA
Found at i:818281 original size:32 final size:32
Alignment explanation
Indices: 818245--818322 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
818235 TACATTGAAT
*
818245 AATGTATCGATATATCTAGGTCAAAAACCAAG
1 AATGTATCGATATATCTAGGTCAAAAACCAAA
** * *
818277 AATGTATTAATATATTTGGGTCAAAAACCAAA
1 AATGTATCGATATATCTAGGTCAAAAACCAAA
818309 AATGTATCGATATA
1 AATGTATCGATATA
818323 ATGAGAAATG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (32 bp):
AATGTATCGATATATCTAGGTCAAAAACCAAA
Found at i:819896 original size:57 final size:57
Alignment explanation
Indices: 819815--819965 Score: 171
Period size: 58 Copynumber: 2.6 Consensus size: 57
819805 TCAGATCATG
* *
819815 AAATAACCTAAATAACCTTAAAATGTATGAAATTA-TAAAATAATCCCT-AATAAGTACA
1 AAATAACCTAAATGACC-TAAAATGCATGAAATTACTAAAATAA-CCCTAAATAA-TACA
* * * * * * *
819873 AAATAACTTAAAGGACCTAAAATGCATGAAAATACTCAAATGACCCTAAATTATATA
1 AAATAACCTAAATGACCTAAAATGCATGAAATTACTAAAATAACCCTAAATAATACA
819930 AAATAACCTAAATGACCCTAAAATGCATGAAATTAC
1 AAATAACCTAAATGA-CCTAAAATGCATGAAATTAC
819966 AAATGGTCCC
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
57 35 0.45
58 43 0.55
ACGTcount: A:0.52, C:0.16, G:0.07, T:0.25
Consensus pattern (57 bp):
AAATAACCTAAATGACCTAAAATGCATGAAATTACTAAAATAACCCTAAATAATACA
Found at i:819904 original size:29 final size:30
Alignment explanation
Indices: 819872--819961 Score: 105
Period size: 29 Copynumber: 3.1 Consensus size: 30
819862 TAATAAGTAC
*
819872 AAAATAACTTAAAGGA-CCTAAAATGCATG
1 AAAATAACTTAAATGACCCTAAAATGCATG
* * **
819901 AAAAT-ACTCAAATGACCCTAAATTATAT-
1 AAAATAACTTAAATGACCCTAAAATGCATG
*
819929 AAAATAACCTAAATGACCCTAAAATGCATG
1 AAAATAACTTAAATGACCCTAAAATGCATG
819959 AAA
1 AAA
819962 TTACAAATGG
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
28 13 0.27
29 32 0.67
30 3 0.06
ACGTcount: A:0.52, C:0.17, G:0.09, T:0.22
Consensus pattern (30 bp):
AAAATAACTTAAATGACCCTAAAATGCATG
Found at i:819962 original size:29 final size:29
Alignment explanation
Indices: 819811--819962 Score: 93
Period size: 29 Copynumber: 5.3 Consensus size: 29
819801 ATGGTCAGAT
* *
819811 CATGAAATAACCTAAATAACCTTAAAATG
1 CATGAAATAACCTAAATGACCCTAAAATG
* * * *
819840 TATGAAATTA--TAAAATAATCCCTAATAAGTA
1 CATGAAATAACCT-AAATGA-CCCTAA-AA-TG
* *
819871 CA--AAATAACTTAAAGGA-CCTAAAATG
1 CATGAAATAACCTAAATGACCCTAAAATG
* *
819897 CATGAAA-ATA-CTCAAATGACCCTAAATTA
1 CATGAAATA-ACCT-AAATGACCCTAAAATG
* *
819926 TATAAAATAACCTAAATGACCCTAAAATG
1 CATGAAATAACCTAAATGACCCTAAAATG
819955 CATGAAAT
1 CATGAAAT
819963 TACAAATGGT
Statistics
Matches: 91, Mismatches: 19, Indels: 26
0.67 0.14 0.19
Matches are distributed among these distances:
26 3 0.03
27 5 0.05
28 20 0.22
29 51 0.56
30 9 0.10
31 3 0.03
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (29 bp):
CATGAAATAACCTAAATGACCCTAAAATG
Found at i:819977 original size:57 final size:58
Alignment explanation
Indices: 819815--819978 Score: 174
Period size: 57 Copynumber: 2.8 Consensus size: 58
819805 TCAGATCATG
* * * * *
819815 AAATAACCTAAATAACCTTAAAATGTATGAAATTATAAAATAATCCCT-AATAAGTACA
1 AAATAACCTAAATGACCCTAAAATGCATGAAATTATCAAAT-GTCCCTAAATAAGTACA
* * * * * *
819873 AAATAACTTAAAGGA-CCTAAAATGCATGAAAATACTCAAATGACCCTAAATTA-TATA
1 AAATAACCTAAATGACCCTAAAATGCATGAAATTA-TCAAATGTCCCTAAATAAGTACA
819930 AAATAACCTAAATGACCCTAAAATGCATGAAATTA-CAAATGGTCCCTAA
1 AAATAACCTAAATGACCCTAAAATGCATGAAATTATCAAAT-GTCCCTAA
819979 GTCATGGAAA
Statistics
Matches: 87, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
56 5 0.06
57 43 0.49
58 39 0.45
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (58 bp):
AAATAACCTAAATGACCCTAAAATGCATGAAATTATCAAATGTCCCTAAATAAGTACA
Found at i:820150 original size:57 final size:59
Alignment explanation
Indices: 820025--820251 Score: 232
Period size: 57 Copynumber: 3.9 Consensus size: 59
820015 AAAGTGATCA
* * * * * **
820025 TAAAATGTATGAAATTGCATAAATAGTTCCTAAATCATGGAAGATTACTAGAATGACTT
1 TAAAATGCATGAAATTACATAAATAGGTCCTAAATCATGGAAAATTACTAAAATGACCC
* * * * *
820084 TAAAGTGCATGAAAATGCATAAA-AGGTCTTAAATCAT-AAAAATTACTAAAATGACCC
1 TAAAATGCATGAAATTACATAAATAGGTCCTAAATCATGGAAAATTACTAAAATGACCC
* * * *
820141 TAAAATGCATGAAATTACATAAATA-GTCCTAAATCATGGCAAATGACTGAAATGAACC
1 TAAAATGCATGAAATTACATAAATAGGTCCTAAATCATGGAAAATTACTAAAATGACCC
** *
820199 T-AAATGCATGAAATTACAT-AA-AGGTCCCTAAATCATGTTAAATGACTAAAATG
1 TAAAATGCATGAAATTACATAAATAGGT-CCTAAATCATGGAAAATTACTAAAATG
820252 GTCTTAAGAT
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
55 1 0.01
56 4 0.03
57 88 0.62
58 29 0.20
59 20 0.14
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (59 bp):
TAAAATGCATGAAATTACATAAATAGGTCCTAAATCATGGAAAATTACTAAAATGACCC
Found at i:820155 original size:29 final size:28
Alignment explanation
Indices: 820123--820220 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 28
820113 TAAATCATAA
*
820123 AAATTACTAAAATGACCCTAAAATGCATG
1 AAATTACTAAAATGAACCT-AAATGCATG
*
820152 AAATTAC-ATAAAT-AGTCCTAAAT-CATGG
1 AAATTACTA-AAATGA-ACCTAAATGCAT-G
* *
820180 CAAATGACTGAAATGAACCTAAATGCATG
1 -AAATTACTAAAATGAACCTAAATGCATG
820209 AAATTACATAAA
1 AAATTAC-TAAA
820221 GGTCCCTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
27 3 0.05
28 13 0.24
29 35 0.64
30 4 0.07
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.24
Consensus pattern (28 bp):
AAATTACTAAAATGAACCTAAATGCATG
Found at i:820270 original size:115 final size:115
Alignment explanation
Indices: 820007--820251 Score: 257
Period size: 116 Copynumber: 2.1 Consensus size: 115
819997 AGATCATAGG
* * * * * * * *
820007 AAATGATTAAAGTGATCATAAAATGTATGAAATTGCATAAATAGTTCCTAAATCATGGAAGATTA
1 AAATGACTAAAATGACCCTAAAATGCACGAAATTACATAAATAG-TCCTAAATCATGGAAGATGA
* * *
820072 CTAGAATGACTTTAAAGTGCATGAAAATGCATAAAAGGTCTTAAATCATAA
65 CTAGAATGACTCTAAAGTGCATGAAAATACATAAAAGGTCCTAAATCATAA
* *
820123 AAATTACTAAAATGACCCTAAAATGCATGAAATTACATAAATAGTCCTAAATCATGGCAA-ATGA
1 AAATGACTAAAATGACCCTAAAATGCACGAAATTACATAAATAGTCCTAAATCATGG-AAGATGA
* **
820187 CT-GAAATGAAC-CTAAA-TGCATGAAATTACAT-AAAGGTCCCTAAATCATGTT
65 CTAG-AATG-ACTCTAAAGTGCATGAAAATACATAAAAGGT-CCTAAATCAT-AA
820238 AAATGACTAAAATG
1 AAATGACTAAAATG
820252 GTCTTAAGAT
Statistics
Matches: 109, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
113 6 0.06
114 23 0.21
115 39 0.36
116 41 0.38
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.27
Consensus pattern (115 bp):
AAATGACTAAAATGACCCTAAAATGCACGAAATTACATAAATAGTCCTAAATCATGGAAGATGAC
TAGAATGACTCTAAAGTGCATGAAAATACATAAAAGGTCCTAAATCATAA
Found at i:820276 original size:115 final size:115
Alignment explanation
Indices: 820007--820281 Score: 249
Period size: 115 Copynumber: 2.4 Consensus size: 115
819997 AGATCATAGG
* * * * * * *
820007 AAATGATTAAAGTGATCATAAAATGTATGAAATTG-CATAAATAGTTCCTAAATCATGGAAGATT
1 AAATGACTAAAATGACCCTAAAATGCACGAAA-TGACATAAATAG-TCCTAAATCATGGAAGATG
* * *
820071 ACTAGAATGACTTTAAAGTGCATGAAAATGCATAAAAGGTCTTAAATCATAA
64 ACTAGAATGACTCTAAAGTGCATGAAAATACATAAAAGGTCCTAAATCATAA
* * *
820123 AAATTACTAAAATGACCCTAAAATGCATGAAATTACATAAATAGTCCTAAATCATGGCAA-ATGA
1 AAATGACTAAAATGACCCTAAAATGCACGAAATGACATAAATAGTCCTAAATCATGG-AAGATGA
* **
820187 CT-GAAATGAAC-CTAAA-TGCATGAAATTACAT-AAAGGTCCCTAAATCATGTT
65 CTAG-AATG-ACTCTAAAGTGCATGAAAATACATAAAAGGT-CCTAAATCAT-AA
** * * *
820238 AAATGACTAAAATGGTCTTAAGATGCGCGAAATGACAT-AATAGT
1 AAATGACTAAAATGACCCTAAAATGCACGAAATGACATAAATAGT
820282 ATTTAATATG
Statistics
Matches: 131, Mismatches: 22, Indels: 14
0.78 0.13 0.08
Matches are distributed among these distances:
113 6 0.05
114 29 0.22
115 57 0.44
116 39 0.30
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (115 bp):
AAATGACTAAAATGACCCTAAAATGCACGAAATGACATAAATAGTCCTAAATCATGGAAGATGAC
TAGAATGACTCTAAAGTGCATGAAAATACATAAAAGGTCCTAAATCATAA
Found at i:822646 original size:11 final size:10
Alignment explanation
Indices: 822615--822658 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
822605 TGAAGAAACC
*
822615 CTTTATTTTT
1 CTTTCTTTTT
*
822625 -TTTGTTTTT
1 CTTTCTTTTT
822634 CTTTCTCTTTT
1 CTTTCT-TTTT
822645 CTTTCTTTTT
1 CTTTCTTTTT
822655 CTTT
1 CTTT
822659 TCTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 8 0.27
10 12 0.40
11 10 0.33
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (10 bp):
CTTTCTTTTT
Found at i:822668 original size:15 final size:15
Alignment explanation
Indices: 822631--822670 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
822621 TTTTTTTGTT
*
822631 TTTCTTTCTCTTTTC
1 TTTCTTTTTCTTTTC
822646 TTTCTTTTTCTTTTC
1 TTTCTTTTTCTTTTC
822661 TATT-TTTTTC
1 T-TTCTTTTTC
822671 AGTTGAGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 21 0.91
16 2 0.09
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.78
Consensus pattern (15 bp):
TTTCTTTTTCTTTTC
Found at i:822670 original size:21 final size:21
Alignment explanation
Indices: 822620--822670 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
822610 AAACCCTTTA
*
822620 TTTTTTTTGTTTTTCTTTCTC
1 TTTTTTTTCTTTTTCTTTCTC
*
822641 TTTTCTTTCTTTTTCTTT-TC
1 TTTTTTTTCTTTTTCTTTCTC
822661 TATTTTTTTC
1 T-TTTTTTTC
822671 AGTTGAGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCTTTTTCTTTCTC
Found at i:823613 original size:33 final size:33
Alignment explanation
Indices: 823576--823641 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
823566 TACACATTTA
* *
823576 ATTGTATCGATACATGTTGTACAGTATCGATAC
1 ATTGTATCGATACACGTTGCACAGTATCGATAC
**
823609 ATTGTATCGATACACGTTGCATTGTATCGATAC
1 ATTGTATCGATACACGTTGCACAGTATCGATAC
823642 TTGAAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACACGTTGCACAGTATCGATAC
Found at i:823617 original size:13 final size:12
Alignment explanation
Indices: 823578--823622 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 12
823568 CACATTTAAT
823578 TGTATCGATACA
1 TGTATCGATACA
823590 TGT-T-G-TACA
1 TGTATCGATACA
823599 -GTATCGATACA
1 TGTATCGATACA
823610 TTGTATCGATACA
1 -TGTATCGATACA
823623 CGTTGCATTG
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
8 2 0.07
9 5 0.18
10 2 0.07
11 5 0.18
12 3 0.11
13 11 0.39
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.36
Consensus pattern (12 bp):
TGTATCGATACA
Found at i:823720 original size:19 final size:20
Alignment explanation
Indices: 823696--823746 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
823686 TAGCCAAACT
*
823696 TGTATCGATACA-CA-AAGTA
1 TGTATCGATACACCATAA-AA
823715 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
823735 TGTATCGATACA
1 TGTATCGATACA
823747 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 12 0.41
20 15 0.52
21 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:824824 original size:21 final size:20
Alignment explanation
Indices: 824786--824842 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
824776 AAACACATTT
* * *
824786 TATCGATATATTTGTAATTG
1 TATCGATACAATTGTAATTA
824806 TATCGATACAATGTGTAATTA
1 TATCGATACAAT-TGTAATTA
*
824827 TATTGATACAATTGTA
1 TATCGATACAATTGTA
824843 TTCATAAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.44
21 18 0.56
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (20 bp):
TATCGATACAATTGTAATTA
Found at i:825696 original size:34 final size:34
Alignment explanation
Indices: 825653--825723 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
825643 TTCACCTATG
825653 ATTGATAAATTTATGTCATATTCCTTTTAAATTA
1 ATTGATAAATTTATGTCATATTCCTTTTAAATTA
*
825687 ATTGGTAAATTTATGTCATATTCCTTTTAAATTA
1 ATTGATAAATTTATGTCATATTCCTTTTAAATTA
825721 ATT
1 ATT
825724 AAGTATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (34 bp):
ATTGATAAATTTATGTCATATTCCTTTTAAATTA
Found at i:825738 original size:30 final size:33
Alignment explanation
Indices: 825653--825739 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 33
825643 TTCACCTATG
* *
825653 ATTGATAAATTTATGTCATATTCCTTTTAAATTA
1 ATTG-TAAATATATGTAATATTCCTTTTAAATTA
* *
825687 ATTGGTAAATTTATGTCATATTCCTTTTAAATTA
1 ATT-GTAAATATATGTAATATTCCTTTTAAATTA
*
825721 A-T-TAAGTATAT-TAATATTC
1 ATTGTAAATATATGTAATATTC
825740 TATTTGTTTA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
30 7 0.14
31 7 0.14
33 1 0.02
34 33 0.67
35 1 0.02
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (33 bp):
ATTGTAAATATATGTAATATTCCTTTTAAATTA
Found at i:827930 original size:24 final size:24
Alignment explanation
Indices: 827879--827926 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
827869 ATAGTTGTAA
* *
827879 TAATATTTTAATTTTAATCGAATT
1 TAATATTATAACTTTAATCGAATT
*
827903 TAATATTATAACTTTTAT-GAATT
1 TAATATTATAACTTTAATCGAATT
827926 T
1 T
827927 TAATTCATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
TAATATTATAACTTTAATCGAATT
Found at i:834543 original size:21 final size:21
Alignment explanation
Indices: 834464--834542 Score: 104
Period size: 21 Copynumber: 3.8 Consensus size: 21
834454 TTGTAGCACT
*
834464 AATGTATCGATACATTACCAA
1 AATGTATCAATACATTACCAA
* *
834485 AATGTATTAATATATTACCAA
1 AATGTATCAATACATTACCAA
* *
834506 AATGTATCGATACATTGCCAA
1 AATGTATCAATACATTACCAA
*
834527 AATATATCAATACATT
1 AATGTATCAATACATT
834543 GGGTCAAGGT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (21 bp):
AATGTATCAATACATTACCAA
Found at i:835205 original size:31 final size:28
Alignment explanation
Indices: 835156--835217 Score: 88
Period size: 31 Copynumber: 2.1 Consensus size: 28
835146 TTCTAGCAAA
*
835156 GGAAAAAAGAAAAGGCTAAAGAAAAGCTT
1 GGAAAAAAGAAAAAGCTAAAGAAAA-CTT
835185 GGAAAAATAGGAAAAAGCTAAAGAAAACTT
1 GGAAAAA-A-GAAAAAGCTAAAGAAAACTT
835215 GGA
1 GGA
835218 GGTTTAAAGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 7 0.23
30 7 0.23
31 16 0.53
ACGTcount: A:0.58, C:0.06, G:0.24, T:0.11
Consensus pattern (28 bp):
GGAAAAAAGAAAAAGCTAAAGAAAACTT
Found at i:837220 original size:297 final size:297
Alignment explanation
Indices: 836855--837441 Score: 1156
Period size: 297 Copynumber: 2.0 Consensus size: 297
836845 TCATATATCT
836855 TGGAATAGGTAAGAGCATGGTTTAGTGTGTACTTTTAACACTTTCCATATTAGTCCCACAACTTT
1 TGGAATAGGTAAGAGCATGGTTTAGTGTGTACTTTTAACACTTTCCATATTAGTCCCACAACTTT
836920 TATATGTTGACTCCATAATCAATATTGCCTTGGCCAAAGACTTTGAGTCAACACGAGCTCGGAAT
66 TATATGTTGACTCCATAATCAATATTGCCTTGGCCAAAGACTTTGAGTCAACACGAGCTCGGAAT
836985 GAATCCTCTTTGAACCATTCATCTACCTTTATTATGCTTCATGTTATACCTAAAACTACCTTTCC
131 GAATCCTCTTTGAACCATTCATCTACCTTTATTATGCTTCATGTTATACCTAAAACTACCTTTCC
*
837050 TTTTAGCATCCATCTTATGGACCTGCTCATGATGATTTTCGAGTATAAAAATCCACGTACAAGGT
196 TTTTAGCATCCATCTTATGGACCTGCTCATGATGATTTTCGAGTATAAAAATCCACGAACAAGGT
837115 GACCTAGCATCACATGTTTAAGGATCACTTTGAGTCA
261 GACCTAGCATCACATGTTTAAGGATCACTTTGAGTCA
837152 TGGAATAGGTAAGAGCATGGTTTAGTGTGTACTTTTAACACTTTCCATATTAGTCCCACAACTTT
1 TGGAATAGGTAAGAGCATGGTTTAGTGTGTACTTTTAACACTTTCCATATTAGTCCCACAACTTT
837217 TATATGTTGACTCCATAATCAATATTGCCTTGGCCAAAGACTTTGAGTCAACACGAGCTCGGAAT
66 TATATGTTGACTCCATAATCAATATTGCCTTGGCCAAAGACTTTGAGTCAACACGAGCTCGGAAT
837282 GAATCCTCTTTGAACCATTCATCTACCTTTATTATGCTTCATGTTATACCTAAAACTACCTTTCC
131 GAATCCTCTTTGAACCATTCATCTACCTTTATTATGCTTCATGTTATACCTAAAACTACCTTTCC
*
837347 TTTTAGCATCCATCTTATGGACCTGCTCATGATGATTTTCGAGTATAAAAATCGACGAACAAGGT
196 TTTTAGCATCCATCTTATGGACCTGCTCATGATGATTTTCGAGTATAAAAATCCACGAACAAGGT
837412 GACCTAGCATCACATGTTTAAGGATCACTT
261 GACCTAGCATCACATGTTTAAGGATCACTT
837442 ACATTATTGA
Statistics
Matches: 288, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
297 288 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (297 bp):
TGGAATAGGTAAGAGCATGGTTTAGTGTGTACTTTTAACACTTTCCATATTAGTCCCACAACTTT
TATATGTTGACTCCATAATCAATATTGCCTTGGCCAAAGACTTTGAGTCAACACGAGCTCGGAAT
GAATCCTCTTTGAACCATTCATCTACCTTTATTATGCTTCATGTTATACCTAAAACTACCTTTCC
TTTTAGCATCCATCTTATGGACCTGCTCATGATGATTTTCGAGTATAAAAATCCACGAACAAGGT
GACCTAGCATCACATGTTTAAGGATCACTTTGAGTCA
Found at i:840389 original size:17 final size:18
Alignment explanation
Indices: 840369--840418 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
840359 TTTATATATT
840369 AAAATTAATTTGTT-CAC
1 AAAATTAATTTGTTACAC
*
840386 AAAATTAATGTT-TTACAT
1 AAAATTAAT-TTGTTACAC
*
840404 AAAATCAATTTGTTA
1 AAAATTAATTTGTTA
840419 AATAATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
AAAATTAATTTGTTACAC
Found at i:842166 original size:13 final size:13
Alignment explanation
Indices: 842148--842173 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
842138 ATATTTTTTG
842148 TGTATCGATACAT
1 TGTATCGATACAT
842161 TGTATCGATACAT
1 TGTATCGATACAT
842174 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:842188 original size:32 final size:33
Alignment explanation
Indices: 842127--842191 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
842117 TACAAGCCAA
* *
842127 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TCTTGGTGTATCGATACAT
842161 TGTATCGATACATA-CTTGGTGTATCGATACA
1 TGTATCGATACATATCTTGGTGTATCGATACA
842192 ATTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 15 0.52
34 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATCTTGGTGTATCGATACAT
Found at i:842268 original size:20 final size:20
Alignment explanation
Indices: 842222--842295 Score: 69
Period size: 20 Copynumber: 3.6 Consensus size: 20
842212 TTCCCAATGA
***
842222 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGAAT
842243 CATGTATCGATACATTGCAA-
1 CATGTATCGATACATTG-AAT
* *
842263 CATGTATTGATACTTTGAAT
1 CATGTATCGATACATTGAAT
*
842283 TATGTATCGATAC
1 CATGTATCGATAC
842296 TTTTAAGGGT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.05
20 27 0.61
21 15 0.34
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (20 bp):
CATGTATCGATACATTGAAT
Found at i:850865 original size:13 final size:13
Alignment explanation
Indices: 850847--850872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
850837 ATATTTTTTG
850847 TGTATCGATACAT
1 TGTATCGATACAT
850860 TGTATCGATACAT
1 TGTATCGATACAT
850873 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:850887 original size:32 final size:33
Alignment explanation
Indices: 850826--850890 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
850816 TACAAGCCAA
* *
850826 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TCTTGGTGTATCGATACAT
850860 TGTATCGATACATA-CTTGGTGTATCGATACA
1 TGTATCGATACATATCTTGGTGTATCGATACA
850891 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 15 0.52
34 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATATCTTGGTGTATCGATACAT
Found at i:851914 original size:33 final size:32
Alignment explanation
Indices: 851871--851934 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
851861 TACAAGTCAA
* *
851871 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATAGATACATATTGGG-TGTATCGATACAT
*
851904 TGTATAGATACATATTGTGTGTATCGATACA
1 TGTATAGATACATATTGGGTGTATCGATACA
851935 AATAGTTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 12 0.43
33 16 0.57
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATAGATACATATTGGGTGTATCGATACAT
Found at i:852073 original size:20 final size:20
Alignment explanation
Indices: 852050--852090 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
852040 CTGTGCATTA
*
852050 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTTCAAGG
*
852070 TGTATCGATACTTTTCAAGG
1 TGTATCGATACATTTCAAGG
852090 T
1 T
852091 TTTGACCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.39
Consensus pattern (20 bp):
TGTATCGATACATTTCAAGG
Found at i:852625 original size:22 final size:22
Alignment explanation
Indices: 852598--852642 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
852588 TTTTCTTTTC
852598 TCTCCCCCTTAATCAAAA-AATT
1 TCTCCCCCTTAAT-AAAATAATT
852620 TCTCCCCCTTAATAAAATAATT
1 TCTCCCCCTTAATAAAATAATT
852642 T
1 T
852643 ATCAATTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.29, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATAAAATAATT
Found at i:854521 original size:13 final size:13
Alignment explanation
Indices: 854503--854527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
854493 ATAAACCCTT
854503 TGTATTGATACAA
1 TGTATTGATACAA
854516 TGTATTGATACA
1 TGTATTGATACA
854528 GAGAATGCTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TGTATTGATACAA
Found at i:860705 original size:19 final size:20
Alignment explanation
Indices: 860660--860711 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
860650 TTACAAGCCA
*
860660 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATATTGGG
*
860680 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGGG
860700 -TGTATCGATACA
1 ATGTATCGATACA
860712 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATATTGGG
Found at i:860800 original size:20 final size:21
Alignment explanation
Indices: 860753--860805 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
860743 GCCAATGACC
*
860753 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
860774 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
860794 TGTATCGATACA
1 TGTATCGATACA
860806 ATGTATTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:865733 original size:20 final size:20
Alignment explanation
Indices: 865695--865732 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
865685 ATTGATACAT
* *
865695 AATTAAATGATTTACTTTTC
1 AATTAAATAAGTTACTTTTC
865715 AATTAAATAAGTTA-TTTT
1 AATTAAATAAGTTACTTTT
865733 TTAACTTTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTAAATAAGTTACTTTTC
Found at i:865824 original size:49 final size:49
Alignment explanation
Indices: 865754--865879 Score: 164
Period size: 49 Copynumber: 2.6 Consensus size: 49
865744 TTCACATATA
* * *
865754 TAATTAAATAATTTACCTTTTAATTCAATAATTTAGT-CTTTTACATTAT
1 TAATTAAATAATTTACCTTTTAATTAAATAATTTA-TCCTTTCAAATTAT
* * *
865803 TAATTAAATAATTCACATTTTAATTAAATTATTTATCCTTTCAAATTAT
1 TAATTAAATAATTTACCTTTTAATTAAATAATTTATCCTTTCAAATTAT
* *
865852 TAATTACATAATTTACCTTTTAAATAAA
1 TAATTAAATAATTTACCTTTTAATTAAA
865880 GATTAATAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
48 1 0.02
49 65 0.98
ACGTcount: A:0.40, C:0.10, G:0.01, T:0.48
Consensus pattern (49 bp):
TAATTAAATAATTTACCTTTTAATTAAATAATTTATCCTTTCAAATTAT
Found at i:865845 original size:28 final size:28
Alignment explanation
Indices: 865814--865897 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
865804 AATTAAATAA
* *
865814 TTCACATT-TTAATTAAATTATTTATCCT
1 TTCAAATTATTAATTAAATAATTTA-CCT
*
865842 TTCAAATTATTAATTACATAATTTACCT
1 TTCAAATTATTAATTAAATAATTTACCT
* *
865870 TTTAAA-TA-AAGATT-AATAATTTACCT
1 TTCAAATTATTA-ATTAAATAATTTACCT
865896 TT
1 TT
865898 TAATTAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
26 14 0.29
27 5 0.10
28 15 0.31
29 14 0.29
ACGTcount: A:0.38, C:0.12, G:0.01, T:0.49
Consensus pattern (28 bp):
TTCAAATTATTAATTAAATAATTTACCT
Found at i:865893 original size:26 final size:27
Alignment explanation
Indices: 865854--865905 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
865844 CAAATTATTA
865854 ATTACATAATTTACCTTTTAAATAAAG
1 ATTACATAATTTACCTTTTAAATAAAG
*
865881 ATTA-ATAATTTACCTTTTAATTAAA
1 ATTACATAATTTACCTTTTAAATAAA
865906 TAATCACTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 20 0.83
27 4 0.17
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (27 bp):
ATTACATAATTTACCTTTTAAATAAAG
Found at i:872062 original size:30 final size:31
Alignment explanation
Indices: 872022--872097 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 31
872012 CATTTTTTAT
*
872022 TGTATCGATACATTCTGAG-TTTGATCCAAA
1 TGTATCGATACATTCTGAGTTTTGACCCAAA
* *
872052 TGTATTGATACATTCTGGGTTTTTGACCCAAA
1 TGTATCGATACATTCTGAG-TTTTGACCCAAA
*
872084 TGTGTCGATACATT
1 TGTATCGATACATT
872098 ATTCATTGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 17 0.44
32 22 0.56
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (31 bp):
TGTATCGATACATTCTGAGTTTTGACCCAAA
Found at i:872114 original size:52 final size:50
Alignment explanation
Indices: 872050--872166 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 50
872040 GTTTGATCCA
* *
872050 AATGTATTGATACATTCTGGGTTTTTGACCCAAATGTGTCGATACATTATTC
1 AATGTATCGATACATTCTGGG-TTTTGACCCAAATGTATCGATACATT-TTC
* *
872102 ATTGTATCGATACATTCTGGGTTTTGACCCAAATGTATCGATATATTTTC
1 AATGTATCGATACATTCTGGGTTTTGACCCAAATGTATCGATACATTTTC
872152 AATGTATCGATACAT
1 AATGTATCGATACAT
872167 CCAGTTAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
50 17 0.28
51 24 0.40
52 19 0.32
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.40
Consensus pattern (50 bp):
AATGTATCGATACATTCTGGGTTTTGACCCAAATGTATCGATACATTTTC
Found at i:876696 original size:21 final size:20
Alignment explanation
Indices: 876645--876698 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 20
876635 TATTTCAAAC
876645 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCACTT
876665 ATGTATCGATACATT-ACCTT
1 ATGTATCGATACATTCA-CTT
*
876685 ATTGTATAGATACA
1 A-TGTATCGATACA
876699 ATTTGTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 1 0.03
20 19 0.61
21 11 0.35
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:877216 original size:2 final size:2
Alignment explanation
Indices: 877209--877233 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
877199 AATAAATCAC
877209 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 A
877234 CTTGCATGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:886533 original size:19 final size:19
Alignment explanation
Indices: 886490--886562 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
886480 CACACCCAGA
*
886490 TGTATCGATACAT-TATACTT
1 TGTATCGATACATGT-T-CAT
886510 TGTATCGATACATGTTCAT
1 TGTATCGATACATGTTCAT
**
886529 TGTATCGATACATGGACAAT
1 TGTATCGATACATGTTC-AT
*
886549 TGTATAGATACATG
1 TGTATCGATACATG
886563 AAACTGGCAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 17 0.36
20 29 0.62
21 1 0.02
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATGTTCAT
Found at i:886647 original size:33 final size:33
Alignment explanation
Indices: 886591--886658 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
886581 CTACCACTGT
886591 TTGTATCGATACATGGCACATTGTGTT-GATACA
1 TTGTATCGATACATGGCACATTGT-TTCGATACA
886624 TTGTATCGATACATGATG-A-ATTGTTTCGATACA
1 TTGTATCGATACATG--GCACATTGTTTCGATACA
886657 TT
1 TT
886659 ACTTCAAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
32 2 0.06
33 28 0.88
34 1 0.03
35 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATGGCACATTGTTTCGATACA
Found at i:892582 original size:13 final size:13
Alignment explanation
Indices: 892544--892582 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
892534 GCAATATTCT
892544 TTGTATCGATACA
1 TTGTATCGATACA
* *
892557 TTATATCCATACA
1 TTGTATCGATACA
*
892570 TTGTATCGGTACA
1 TTGTATCGATACA
892583 AGGGTTAGTA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:892979 original size:20 final size:19
Alignment explanation
Indices: 892933--892985 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
892923 ATGTATCGCT
*
892933 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
892952 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
892971 ACAATTGTATCGATA
1 AC-ATTGTATCGATA
892986 TATGAAACTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:893043 original size:20 final size:20
Alignment explanation
Indices: 893018--893071 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
893008 CTATCACTGT
*
893018 TTGTATCGATACATGGT-AC
1 TTGTATCGATACATGATGAC
893037 ATTGTATCGATACATGATGAC
1 -TTGTATCGATACATGATGAC
893058 TTGTATCGATACAT
1 TTGTATCGATACAT
893072 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAC
Found at i:900960 original size:13 final size:13
Alignment explanation
Indices: 900942--900999 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
900932 CACACCCAGA
900942 TGTATCGATACAT
1 TGTATCGATACAT
900955 TGTATCGATACA-
1 TGTATCGATACAT
900967 TG--T---T-CAT
1 TGTATCGATACAT
900974 TGTATCGATACAT
1 TGTATCGATACAT
*
900987 TGTATTGATACAT
1 TGTATCGATACAT
901000 GTTATTGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
6 2 0.05
7 3 0.08
9 1 0.03
10 1 0.03
12 3 0.08
13 27 0.73
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:900983 original size:32 final size:31
Alignment explanation
Indices: 900942--901017 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 31
900932 CACACCCAGA
900942 TGTATCGATACATTGTATCGATACATGTTCAT
1 TGTATCGATACATTGTATCGATACATGTT-AT
*
900974 TGTATCGATACATTGTATTGATACATGTTAT
1 TGTATCGATACATTGTATCGATACATGTTAT
901005 TGTATCGATACAT
1 TGTATCGATACAT
901018 GGACAATTGT
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
31 15 0.35
32 28 0.65
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (31 bp):
TGTATCGATACATTGTATCGATACATGTTAT
Found at i:901092 original size:20 final size:20
Alignment explanation
Indices: 901067--901120 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
901057 CTACCACTAT
*
901067 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
*
901087 TTGTATCTATACATGATGAA
1 TTGTATCGATACATGATGAA
*
901107 TTATATCGATACAT
1 TTGTATCGATACAT
901121 TACTTCTAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:901787 original size:19 final size:19
Alignment explanation
Indices: 901763--901830 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
901753 AATTCAACGA
901763 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
901782 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
901797 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
901814 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
901831 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:901801 original size:32 final size:32
Alignment explanation
Indices: 901765--901827 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
901755 TTCAACGATT
*
901765 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
901797 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
901828 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:901802 original size:13 final size:13
Alignment explanation
Indices: 901784--901808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
901774 ACATAAGTTT
901784 TGTATCGATACAA
1 TGTATCGATACAA
901797 TGTATCGATACA
1 TGTATCGATACA
901809 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:901888 original size:13 final size:13
Alignment explanation
Indices: 901870--901895 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
901860 CATTTTTCTG
901870 TGTATCGATACAT
1 TGTATCGATACAT
901883 TGTATCGATACAT
1 TGTATCGATACAT
901896 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:901892 original size:33 final size:33
Alignment explanation
Indices: 901850--901916 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
901840 GCCAAGGAAA
***
901850 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
901883 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
901916 T
1 T
901917 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:904397 original size:28 final size:28
Alignment explanation
Indices: 904361--904436 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
904351 ATTTTTCACA
* * *
904361 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
904389 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
904417 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
904437 AGCTTTATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.24, C:0.34, G:0.18, T:0.24
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:904504 original size:107 final size:107
Alignment explanation
Indices: 904312--904516 Score: 243
Period size: 107 Copynumber: 1.9 Consensus size: 107
904302 TCCTTTAATC
* * *
904312 GGGGATACTCCAACTCCAATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
* *
904377 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGCTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
904420 GGGGATACTCCAACCCCAGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
904484 CCCCGCTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGCTATTTATCG--GGGATACTCCAACCCCG
904517 ATTTTTTTTT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
105 3 0.04
107 57 0.70
108 21 0.26
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (107 bp):
GGGGATACTCCAACCCCAACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGCTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:904622 original size:80 final size:76
Alignment explanation
Indices: 904389--904625 Score: 222
Period size: 80 Copynumber: 3.0 Consensus size: 76
904379 TCGTTATTTC
* * * * *
904389 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAGCTTTATTCCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTC-AAGGGATACTCCAACCCCA-TTTTATT-CCAAAAC
*
904454 ATTGATTTCTCATA
63 ATTGATTTCTCACA
* * * * * * *
904468 ATTGGGGATACTCCAACCCCGCTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTTCTAAT
1 ATCGGGGATACTCCAACCCCGTTATTTTC-AAGGGATACTCCAA-CCCCA--TTTTATTCCAAAA
*
904533 CATCGATTTCTCACA
62 CATTGATTTCTCACA
* *
904548 ATCGGGGATACTCCAGCCCCGTTATTTTCAAGGGAACACTCCAACCCCATTATTATCTCCAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTTCAAGGG-ATACTCCAACCCCATT-TTAT-TCCAAAAC
*
904613 ATTAAATTTCTCA
63 ATT-GATTTCTCA
904626 TCGGGAAATA
Statistics
Matches: 126, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
77 2 0.02
78 3 0.02
79 55 0.44
80 61 0.48
81 5 0.04
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (76 bp):
ATCGGGGATACTCCAACCCCGTTATTTTCAAGGGATACTCCAACCCCATTTTATTCCAAAACATT
GATTTCTCACA
Found at i:927097 original size:58 final size:57
Alignment explanation
Indices: 926960--927097 Score: 136
Period size: 58 Copynumber: 2.4 Consensus size: 57
926950 TTGGGTAATC
* * * *
926960 TCATGCATTTTTATGTCAATTTAGTCATTTTCCATGTTCTAGATACTATTATGTAATT
1 TCATG-ATTTTTATGTCATTTTAGTCATTTTCCATGTTCTAGAGACCATTATGAAATT
* * * * *
927018 TTATTCA-TTTTAGGATAATTTTAGTCATTTTCCATGATT-TAGGGACCATTATGCAAATT
1 TCA-TGATTTTTATG-TCATTTTAGTCATTTTCCATG-TTCTAGAGACCATTATG-AAATT
927077 TCATGATTTTTATGTCATTTT
1 TCATGATTTTTATGTCATTTT
927098 TCATAACTTA
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
57 6 0.10
58 41 0.66
59 15 0.24
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.50
Consensus pattern (57 bp):
TCATGATTTTTATGTCATTTTAGTCATTTTCCATGTTCTAGAGACCATTATGAAATT
Found at i:927109 original size:49 final size:49
Alignment explanation
Indices: 927036--927146 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 49
927026 TTTAGGATAA
* *
927036 TTTTA-GTCATTTTCCATGATTTAGGGACCATT-ATG-CAAATTTCATG-AT
1 TTTTATGTCATTTTCCATAACTTAGGGA-CATTGATGTC--ATTTCATGCAT
* *
927084 TTTTATGTCATTTTTCATAACTTAGGGACTTTGATGTCATTTCATGCAT
1 TTTTATGTCATTTTCCATAACTTAGGGACATTGATGTCATTTCATGCAT
*
927133 TTTAATGTCATTTT
1 TTTTATGTCATTTT
927147 ACTAAATTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
48 16 0.30
49 37 0.69
50 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (49 bp):
TTTTATGTCATTTTCCATAACTTAGGGACATTGATGTCATTTCATGCAT
Found at i:927201 original size:29 final size:29
Alignment explanation
Indices: 927151--927364 Score: 128
Period size: 29 Copynumber: 7.5 Consensus size: 29
927141 CATTTTACTA
**
927151 AATTTCATG-A-TTTAGGGCCATTTATAC
1 AATTTCATGTATTTTAGGATCATTTATAC
*
927178 AATTTCATGTATTTTAGGATCATTT-TAGT
1 AATTTCATGTATTTTAGGATCATTTATA-C
*
927207 AATTTGCCATGT-TTTT-GGA-CTATTTATGC
1 AATTT--CATGTATTTTAGGATC-ATTTATAC
* * * * *
927236 AACTTCATGCATTTTAGGGTCATTTAAAG
1 AATTTCATGTATTTTAGGATCATTTATAC
**
927265 AATTTACATG-A-TTTAGGATCATTTATGT
1 AATTT-CATGTATTTTAGGATCATTTATAC
* * *
927293 AATTTCATGCATTTTAGGGTCATTT-TAGT
1 AATTTCATGTATTTTAGGATCATTTATA-C
*
927322 AATTT-A-GCATATTTTAGGA-CTATTTATTC
1 AATTTCATG--TATTTTAGGATC-ATTTATAC
927351 AATTTCATGTATTT
1 AATTTCATGTATTT
927365 CAGGGTTATT
Statistics
Matches: 145, Mismatches: 22, Indels: 38
0.71 0.11 0.19
Matches are distributed among these distances:
27 18 0.12
28 30 0.21
29 79 0.54
30 12 0.08
31 6 0.04
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (29 bp):
AATTTCATGTATTTTAGGATCATTTATAC
Found at i:927250 original size:58 final size:58
Alignment explanation
Indices: 927122--927508 Score: 349
Period size: 58 Copynumber: 6.7 Consensus size: 58
927112 CTTTGATGTC
** * * * * *
927122 ATTTCATGCATTTTAATGTCATTTTACTAAATTT--CATGATTTAGGGCCATTTATACA
1 ATTTCATGCATTTTAGGGTCATTTTAGT-AATTTGCCATGTTTTAGGACTATTTATGCA
* * *
927179 ATTTCATGTATTTTAGGATCATTTTAGTAATTTGCCATGTTTTTGGACTATTTATGCA
1 ATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATGCA
* * * * *
927237 ACTTCATGCATTTTAGGGTCATTTAAAG-AATTT-ACATGATTTAGGA-TCATTTATGTA
1 ATTTCATGCATTTTAGGGTCATTT-TAGTAATTTGCCATGTTTTAGGACT-ATTTATGCA
* *
927294 ATTTCATGCATTTTAGGGTCATTTTAGTAATTTAG-CATATTTTAGGACTATTTATTCA
1 ATTTCATGCATTTTAGGGTCATTTTAGTAATTT-GCCATGTTTTAGGACTATTTATGCA
* * * * * * *
927352 ATTTCATGTATTTCAGGGTTATTTTAGTAATTTGTCATGTTTTATGACCATTTATGTA
1 ATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATGCA
* ** * * * ** *
927410 ATTTCATACA-TTTACGCATCATTTTAGTTATTTGCTATGATTTAGGACCCTTTATACA
1 ATTTCATGCATTTTA-GGGTCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATGCA
* *
927468 ATTTCAT-CTATTTTAGGCTCATTTTAGTAATTTGCTATGTT
1 ATTTCATGC-ATTTTAGGGTCATTTTAGTAATTTGCCATGTT
927509 CTAAGTACTT
Statistics
Matches: 268, Mismatches: 50, Indels: 23
0.79 0.15 0.07
Matches are distributed among these distances:
56 8 0.03
57 74 0.28
58 179 0.67
59 7 0.03
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (58 bp):
ATTTCATGCATTTTAGGGTCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATGCA
Found at i:927258 original size:115 final size:114
Alignment explanation
Indices: 927122--927493 Score: 392
Period size: 115 Copynumber: 3.2 Consensus size: 114
927112 CTTTGATGTC
** * **
927122 ATTTCATGCATTTTAATGTCATTTTACTAAATTTCATGATTTAGGGCCATTTATACAATTTCATG
1 ATTTCATGCATTTTAGGGTCATTTTA-TAAATTTCATGATTTAGGACCATTTATGTAATTTCATG
* * *
927187 TATTTTAGGATCATTTTAGTAATTTGCCATGTTTTTGGACTATTTATGCA
65 CATTTTAGGATCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATACA
* * *
927237 ACTTCATGCATTTTAGGGTCA-TTTAAAGAATTTACATGATTTAGGATCATTTATGTAATTTCAT
1 ATTTCATGCATTTTAGGGTCATTTTATA-AATTT-CATGATTTAGGACCATTTATGTAATTTCAT
* * *
927301 GCATTTTAGGGTCATTTTAGTAATTTAG-CATATTTTAGGACTATTTATTCA
64 GCATTTTAGGATCATTTTAGTAATTT-GCCATGTTTTAGGACTATTTATACA
* * * * * *
927352 ATTTCATGTATTTCAGGGTTATTTTAGTAATTTGTCATGTTTTATGACCATTTATGTAATTTCAT
1 ATTTCATGCATTTTAGGGTCATTTTA-TAAATT-TCATGATTTAGGACCATTTATGTAATTTCAT
* * * * * **
927417 ACA-TTTACGCATCATTTTAGTTATTTGCTATGATTTAGGACCCTTTATACA
64 GCATTTTA-GGATCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATACA
*
927468 ATTTCAT-CTATTTTAGGCTCATTTTA
1 ATTTCATGC-ATTTTAGGGTCATTTTA
927494 GTAATTTGCT
Statistics
Matches: 212, Mismatches: 36, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
113 1 0.00
114 9 0.04
115 110 0.52
116 90 0.42
117 2 0.01
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.48
Consensus pattern (114 bp):
ATTTCATGCATTTTAGGGTCATTTTATAAATTTCATGATTTAGGACCATTTATGTAATTTCATGC
ATTTTAGGATCATTTTAGTAATTTGCCATGTTTTAGGACTATTTATACA
Found at i:927383 original size:29 final size:29
Alignment explanation
Indices: 927122--927384 Score: 111
Period size: 29 Copynumber: 9.1 Consensus size: 29
927112 CTTTGATGTC
* ** * *
927122 ATTTCATGCATTTTAATGTCATTTTACTAA
1 ATTTCATGTATTTTAGGGTTATTTTAGT-A
** *
927152 ATTTCATG-A-TTTAGGGCCATTTATA-CA
1 ATTTCATGTATTTTAGGGTTATTT-TAGTA
* *
927179 ATTTCATGTATTTTAGGATCATTTTAGTA
1 ATTTCATGTATTTTAGGGTTATTTTAGTA
** *
927208 ATTTGCCATGT-TTTT-GGACTA-TTTATGCA
1 ATTT--CATGTATTTTAGGGTTATTTTA-GTA
* * * *
927237 ACTTCATGCATTTTAGGGTCATTTAAAG-A
1 ATTTCATGTATTTTAGGGTTATTT-TAGTA
* *
927266 ATTTACATG-A-TTTAGGATCA-TTTATGTA
1 ATTT-CATGTATTTTAGGGTTATTTTA-GTA
* *
927294 ATTTCATGCATTTTAGGGTCATTTTAGTA
1 ATTTCATGTATTTTAGGGTTATTTTAGTA
** *
927323 ATTT-A-GCATATTTTAGGACTA-TTTATTCA
1 ATTTCATG--TATTTTAGGGTTATTTTAGT-A
*
927352 ATTTCATGTATTTCAGGGTTATTTTAGTA
1 ATTTCATGTATTTTAGGGTTATTTTAGTA
927381 ATTT
1 ATTT
927385 GTCATGTTTT
Statistics
Matches: 181, Mismatches: 29, Indels: 47
0.70 0.11 0.18
Matches are distributed among these distances:
26 1 0.01
27 21 0.12
28 42 0.23
29 81 0.45
30 29 0.16
31 7 0.04
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.48
Consensus pattern (29 bp):
ATTTCATGTATTTTAGGGTTATTTTAGTA
Found at i:927499 original size:29 final size:29
Alignment explanation
Indices: 927178--927500 Score: 87
Period size: 29 Copynumber: 11.2 Consensus size: 29
927168 CCATTTATAC
* *
927178 AATTTCATGTATTTTAGGATCATTTTAGT
1 AATTTCATCTATTTTAGGCTCATTTTAGT
* *
927207 AATTTGCCATGT-TTTT-GGACT-A-TTTATGC
1 AATTT--CATCTATTTTAGG-CTCATTTTA-GT
* * *
927236 AACTTCATGC-ATTTTAGGGTCATTTAAAG-
1 AATTTCAT-CTATTTTAGGCTCATTT-TAGT
* *
927265 AATTTACAT-GA-TTTAGGATCA-TTTATGT
1 AATTT-CATCTATTTTAGGCTCATTTTA-GT
*
927293 AATTTCATGC-ATTTTAGGGTCATTTTAGT
1 AATTTCAT-CTATTTTAGGCTCATTTTAGT
* *
927322 AATTT-AGCATATTTTAGGACT-A-TTTATT
1 AATTTCATC-TATTTTAGG-CTCATTTTAGT
* * * *
927350 CAATTTCATGTATTTCAGGGTTATTTTAGT
1 -AATTTCATCTATTTTAGGCTCATTTTAGT
* * *
927380 AATTT-GTCATGTTTTATGAC-CA-TTTATGT
1 AATTTCATC-TATTTTA-GGCTCATTTTA-GT
*
927409 AATTTCATAC-A-TTTACGCATCATTTTAGT
1 AATTTCAT-CTATTTTAGGC-TCATTTTAGT
* * * *
927438 TATTT--GCTATGATTTAGGAC-CCTTTATA-C
1 AATTTCATCTAT--TTTAGG-CTCATTT-TAGT
927467 AATTTCATCTATTTTAGGCTCATTTTAGT
1 AATTTCATCTATTTTAGGCTCATTTTAGT
927496 AATTT
1 AATTT
927501 GCTATGTTCT
Statistics
Matches: 213, Mismatches: 38, Indels: 86
0.63 0.11 0.26
Matches are distributed among these distances:
26 2 0.01
27 12 0.06
28 43 0.20
29 109 0.51
30 35 0.16
31 12 0.06
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (29 bp):
AATTTCATCTATTTTAGGCTCATTTTAGT
Found at i:927604 original size:58 final size:57
Alignment explanation
Indices: 927542--927746 Score: 148
Period size: 58 Copynumber: 3.6 Consensus size: 57
927532 TTTACACATA
927542 TTGATGCCATTTAGGTCATTTATAATGATCTAGGGATTTGGATGTAATTTTGTGAATT
1 TTGATGCCATTTAGGTCATTTAT-ATGATCTAGGGATTTGGATGTAATTTTGTGAATT
* * ** * * * * *
927600 TTGATGCAATTTAGGTTATTT-TCCACAATTTAGGGACTTT-CATGTCATTTTATGCATT
1 TTGATGCCATTTAGGTCATTTAT--ATGATCTAGGGA-TTTGGATGTAATTTTGTGAATT
** * * * ** * *
927658 TTGATATCATTTAGTTCATTTACTATGATCTAGAGACTTGGATACAATGTTGTAAATT
1 TTGATGCCATTTAGGTCATTTA-TATGATCTAGGGATTTGGATGTAATTTTGTGAATT
**
927716 TTGATGCCA--TAGGTCATGTTCCATGATCTAG
1 TTGATGCCATTTAGGTCAT-TTATATGATCTAG
927747 TCACTTTATG
Statistics
Matches: 108, Mismatches: 33, Indels: 14
0.70 0.21 0.09
Matches are distributed among these distances:
56 16 0.15
57 5 0.05
58 83 0.77
59 3 0.03
60 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (57 bp):
TTGATGCCATTTAGGTCATTTATATGATCTAGGGATTTGGATGTAATTTTGTGAATT
Found at i:927677 original size:116 final size:113
Alignment explanation
Indices: 927549--927788 Score: 284
Period size: 116 Copynumber: 2.1 Consensus size: 113
927539 ATATTGATGC
* * ** * *
927549 CATTTAGGTCATTTA-TAATGATCTAGGGATTTGGATGTAATTTTGTGAATTTTGATGCAATTTA
1 CATTTAGGTCATTTACT-ATGATCTAGAGACTTGGATACAATGTTGTAAATTTTGATGCAA--TA
* * * * *
927613 GGTTATTTTCCACAATTTAGGGACTTTCATGTCATTTTATGCATTTTGATAT
63 GGTCATGTTCCACAATCTAGGCACTTT-ATGTCATTTCATGCATTTTGATAT
* *
927665 CATTTAGTTCATTTACTATGATCTAGAGACTTGGATACAATGTTGTAAATTTTGATGCCATAGGT
1 CATTTAGGTCATTTACTATGATCTAGAGACTTGGATACAATGTTGTAAATTTTGATGCAATAGGT
** * *
927730 CATGTTCCATGATCTAGTCACTTTATGTCATTTCATGCATTTTGATGT
66 CATGTTCCACAATCTAGGCACTTTATGTCATTTCATGCATTTTGATAT
927778 CATTTAGGTCA
1 CATTTAGGTCA
927789 ATTTTGATGA
Statistics
Matches: 105, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
113 32 0.30
114 22 0.21
116 50 0.48
117 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.44
Consensus pattern (113 bp):
CATTTAGGTCATTTACTATGATCTAGAGACTTGGATACAATGTTGTAAATTTTGATGCAATAGGT
CATGTTCCACAATCTAGGCACTTTATGTCATTTCATGCATTTTGATAT
Found at i:932523 original size:19 final size:19
Alignment explanation
Indices: 932499--932550 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
932489 AAAAGGAAAA
932499 TGTATCGATACATTTCTAT
1 TGTATCGATACATTTCTAT
932518 TGTATCGATACATTTCTAT
1 TGTATCGATACATTTCTAT
932537 TGTATCGATACATT
1 TGTATCGATACATT
932551 CTAGGTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (19 bp):
TGTATCGATACATTTCTAT
Found at i:932578 original size:51 final size:50
Alignment explanation
Indices: 932518--932652 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 50
932508 ACATTTCTAT
* * *
932518 TGTATCGATACATTTCTATTGTATCGATACATTCTAG-GTTTTTTACCTAAA
1 TGTATCGATACATTTTTATTGTATCGATACATT-TAGAG-TTTTGACCCAAA
* * *
932569 TGTATCGATACATTATTTATTATATTGATACATTTTGAGTTTTGACCCAAA
1 TGTATCGATACATT-TTTATTGTATCGATACATTTAGAGTTTTGACCCAAA
* *
932620 TGTATCGATACTTTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTT-ATTGTATCGATACAT
932653 GCAGGCCATT
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
50 3 0.04
51 51 0.72
52 17 0.24
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (50 bp):
TGTATCGATACATTTTTATTGTATCGATACATTTAGAGTTTTGACCCAAA
Found at i:943787 original size:81 final size:79
Alignment explanation
Indices: 943672--944128 Score: 465
Period size: 81 Copynumber: 5.7 Consensus size: 79
943662 TAAAACATCA
*
943672 AATTTTTCATC-TCGAGGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCATTTTT
1 AATTTTTCATCATCG-GGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCGTTTTT
943736 ACTTCCAAAAGTATTG
65 ACTTCCAAAA-TATTG
* * * *
943752 AATTTTTCATCGTCAGGGATACTCCAACCCTATCATTTTTCGAAAGGATACTCCAACCCCATTTT
1 AATTTTTCATCATC-GGGATACTCCAACCCCATCATTTTT-GAAGGGATACTCCAACCCCGTTTT
*
943817 TACTTCCAAAATATCG
64 TACTTCCAAAATATTG
* * * * * * * * * * *
943833 AATTGTTCACCATTGATGATACTCTAGCCCCATCATTTCTGAGGGGATACTCTAATCTCGTTTTT
1 AATTTTTCATCATCG-GGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCGTTTTT
* *
943898 ACTTCCAAAAGCATCG
65 ACTTCCAAAA-TATTG
* * *
943914 AATTTTTTAAT-ATCGGAGATACTACAACCCCATCATTTTCG-AGGGATACTCCAACCCCGTTTT
1 AA-TTTTTCATCATCGG-GATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCGTTTT
* *
943977 TATTTTCAAAATATTG
64 TACTTCCAAAATATTG
* * * *
943993 -ATTTTTCA-CTATCGGGGATACTTCAACCCTATCATTTTTTAGGGGATACTCCAACCCCGTTTT
1 AATTTTTCATC-ATC-GGGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCGTTTT
* *
944056 TACTTCTAAAATATTA
64 TACTTCCAAAATATTG
* * * * * *
944072 AATTTTTCATCTTGGGGATACTCCAACCCCACCATCTCTGAGGGGATACTCCAACCC
1 AATTTTTCATCATCGGGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCC
944129 TGATTTTCAC
Statistics
Matches: 309, Mismatches: 55, Indels: 27
0.79 0.14 0.07
Matches are distributed among these distances:
77 6 0.02
78 24 0.08
79 75 0.24
80 77 0.25
81 87 0.28
82 40 0.13
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (79 bp):
AATTTTTCATCATCGGGATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCGTTTTTA
CTTCCAAAATATTG
Found at i:950789 original size:33 final size:33
Alignment explanation
Indices: 950679--950874 Score: 161
Period size: 32 Copynumber: 6.0 Consensus size: 33
950669 TTTCTTTTAA
* *
950679 AGTCAAACTTGTATCTTTCTTAAA-AGGT-TAAG
1 AGTCAAACTTGTATCTTTC-TAAACAAGTCAAAG
* *
950711 AATCAAA-TTGTATCCTTCTAAACAAGTCAAAG
1 AGTCAAACTTGTATCTTTCTAAACAAGTCAAAG
* *
950743 AG-CCAACTTGTATCTTTCTGAACAAGTCAAAG
1 AGTCAAACTTGTATCTTTCTAAACAAGTCAAAG
* * **
950775 AGTCAAACTTGTATCTTTCTAAATAGGTTGAA-
1 AGTCAAACTTGTATCTTTCTAAACAAGTCAAAG
* * * * *
950807 AGTCAAACCTGTATTTTTTTCAAGCAAGTCAAAA
1 AGTCAAACTTGTATCTTTCT-AAACAAGTCAAAG
* * *
950841 AG-CTAAACTTGTATCCTTCCAAACAAGTAAAAG
1 AGTC-AAACTTGTATCTTTCTAAACAAGTCAAAG
950874 A
1 A
950875 ATTAAATTTA
Statistics
Matches: 127, Mismatches: 30, Indels: 13
0.75 0.18 0.08
Matches are distributed among these distances:
30 4 0.03
31 16 0.13
32 52 0.41
33 42 0.33
34 13 0.10
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (33 bp):
AGTCAAACTTGTATCTTTCTAAACAAGTCAAAG
Done.