Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012773.1 Kokia drynarioides strain JFW-HI SEQ_127785, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 176042
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.33
Warning! 20 characters in sequence are not A, C, G, or T
Found at i:1918 original size:19 final size:19
Alignment explanation
Indices: 1894--1934 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1884 TATAAATAAA
*
1894 ATAAT-AAATATGTAATTAT
1 ATAATAAAATATAT-ATTAT
1913 ATAATAAAATATATATTAT
1 ATAATAAAATATATATTAT
1932 ATA
1 ATA
1935 TATCATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAATAAAATATATATTAT
Found at i:2111 original size:31 final size:29
Alignment explanation
Indices: 2058--2122 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 29
2048 ATAAATATTT
2058 AATATATAAAAAATTATATAAAAAGAAAA
1 AATATATAAAAAATTATATAAAAAGAAAA
*
2087 AATATATCAAACAAATTAGT-TAAAAATAAAA
1 AATATAT-AAA-AAATTA-TATAAAAAGAAAA
*
2118 TATAT
1 AATAT
2123 TTAACACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.23
30 3 0.10
31 20 0.65
32 1 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AATATATAAAAAATTATATAAAAAGAAAA
Found at i:2259 original size:20 final size:19
Alignment explanation
Indices: 2234--2276 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
2224 ACATAATGTT
* *
2234 TTATATAATATATATTTTTA
1 TTATATAAT-TACATATTTA
2254 TTATATAATTACATATTTA
1 TTATATAATTACATATTTA
2273 TTAT
1 TTAT
2277 TTTATTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
TTATATAATTACATATTTA
Found at i:5628 original size:30 final size:30
Alignment explanation
Indices: 5556--5782 Score: 203
Period size: 30 Copynumber: 7.7 Consensus size: 30
5546 TTAAAACCGA
* *
5556 GTCAAATTTGAATTCTT-GAAAACTCT-AGG
1 GTCAAATTTGAATTTTTAGAAAA-TTTGAGG
** * *
5585 GATCAAATAGGAATTTTTAGAAAGTTTGGGG
1 G-TCAAATTTGAATTTTTAGAAAATTTGAGG
* * *
5616 GTTAAATTGGAATTTTTGGAAAATTTGAGG
1 GTCAAATTTGAATTTTTAGAAAATTTGAGG
** * * *
5646 GTCAAATTCAAATTTTTA-AAAGTTTAAAG
1 GTCAAATTTGAATTTTTAGAAAATTTGAGG
* *
5675 GTCAAATTTGAATTTTTTGAAAA-TTAAGG
1 GTCAAATTTGAATTTTTAGAAAATTTGAGG
* *
5704 GTCAAATTCGAATTTTTGGAAAATTTG-GG
1 GTCAAATTTGAATTTTTAGAAAATTTGAGG
* *
5733 GTGAAATTTAAATTTTTAGAAAATTTGAGG
1 GTCAAATTTGAATTTTTAGAAAATTTGAGG
* *
5763 GTTAAATTTAAATTTTTAGA
1 GTCAAATTTGAATTTTTAGA
5783 TAGTTTAAGG
Statistics
Matches: 161, Mismatches: 31, Indels: 11
0.79 0.15 0.05
Matches are distributed among these distances:
29 75 0.47
30 79 0.49
31 7 0.04
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (30 bp):
GTCAAATTTGAATTTTTAGAAAATTTGAGG
Found at i:5689 original size:59 final size:59
Alignment explanation
Indices: 5556--5795 Score: 227
Period size: 59 Copynumber: 4.1 Consensus size: 59
5546 TTAAAACCGA
* * *** **
5556 GTCAAATTTGAATTCTTGAAAACTCT-AGGGATCAAATAGGAATTTTTAGAAAGTTTGGGG
1 GTCAAATTTGAATTTTTGAAAA-TTTGAGGG-TCAAATTCAAATTTTTAGAAAGTTTAAGG
* * *
5616 GTTAAATTGGAATTTTTGGAAAATTTGAGGGTCAAATTCAAATTTTTA-AAAGTTTAAAG
1 GTCAAATTTGAATTTTT-GAAAATTTGAGGGTCAAATTCAAATTTTTAGAAAGTTTAAGG
* * * * *
5675 GTCAAATTTGAATTTTTTGAAAA-TTAAGGGTCAAATTCGAATTTTTGGAAAATTT-GGG
1 GTCAAATTTGAA-TTTTTGAAAATTTGAGGGTCAAATTCAAATTTTTAGAAAGTTTAAGG
* * * * *
5733 GTGAAATTTAAATTTTTAGAAAATTTGAGGGTTAAATTTAAATTTTTAGATAGTTTAAGG
1 GTCAAATTTGAATTTTT-GAAAATTTGAGGGTCAAATTCAAATTTTTAGAAAGTTTAAGG
5793 GTC
1 GTC
5796 GAAAAACAAT
Statistics
Matches: 144, Mismatches: 29, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
57 5 0.03
58 37 0.26
59 54 0.38
60 39 0.27
61 9 0.06
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (59 bp):
GTCAAATTTGAATTTTTGAAAATTTGAGGGTCAAATTCAAATTTTTAGAAAGTTTAAGG
Found at i:5721 original size:88 final size:88
Alignment explanation
Indices: 5614--5779 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 88
5604 GAAAGTTTGG
* * *
5614 GGGTTAAATTGGAATTTTTGGAAAATTTGAGGGTCAAATTCAAATTTTTA-AAAGTTTAAAGGTC
1 GGGTCAAATTCGAATTTTTGGAAAATTTG-GGGTCAAATTCAAATTTTTAGAAAATTTAAAGGTC
*
5678 AAATTTGAATTTTTTGAAAATTAA
65 AAATTTAAATTTTTTGAAAATTAA
* * * * *
5702 GGGTCAAATTCGAATTTTTGGAAAATTTGGGGTGAAATTTAAATTTTTAGAAAATTTGAGGGTTA
1 GGGTCAAATTCGAATTTTTGGAAAATTTGGGGTCAAATTCAAATTTTTAGAAAATTTAAAGGTCA
5767 AATTTAAATTTTT
66 AATTTAAATTTTT
5780 AGATAGTTTA
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
87 18 0.26
88 50 0.74
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (88 bp):
GGGTCAAATTCGAATTTTTGGAAAATTTGGGGTCAAATTCAAATTTTTAGAAAATTTAAAGGTCA
AATTTAAATTTTTTGAAAATTAA
Found at i:5794 original size:30 final size:30
Alignment explanation
Indices: 5596--5795 Score: 181
Period size: 29 Copynumber: 6.8 Consensus size: 30
5586 ATCAAATAGG
* ** * **
5596 AATTTTTAGAAAGTTTGGGGGTTAAATTGG
1 AATTTTTAGAAAATTTAAGGGTCAAATTTA
* * *
5626 AATTTTTGGAAAATTTGAGGGTCAAATTCA
1 AATTTTTAGAAAATTTAAGGGTCAAATTTA
* * *
5656 AATTTTTA-AAAGTTTAAAGGTCAAATTTG
1 AATTTTTAGAAAATTTAAGGGTCAAATTTA
* **
5685 AATTTTTTGAAAA-TTAAGGGTCAAATTCG
1 AATTTTTAGAAAATTTAAGGGTCAAATTTA
* * *
5714 AATTTTTGGAAAATTT-GGGGTGAAATTTA
1 AATTTTTAGAAAATTTAAGGGTCAAATTTA
* *
5743 AATTTTTAGAAAATTTGAGGGTTAAATTTA
1 AATTTTTAGAAAATTTAAGGGTCAAATTTA
* *
5773 AATTTTTAGATAGTTTAAGGGTC
1 AATTTTTAGAAAATTTAAGGGTC
5796 GAAAAACAAT
Statistics
Matches: 139, Mismatches: 28, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
29 73 0.53
30 66 0.47
ACGTcount: A:0.36, C:0.03, G:0.20, T:0.41
Consensus pattern (30 bp):
AATTTTTAGAAAATTTAAGGGTCAAATTTA
Found at i:7672 original size:79 final size:78
Alignment explanation
Indices: 7558--7762 Score: 238
Period size: 79 Copynumber: 2.6 Consensus size: 78
7548 ATAGCTTTAG
* *
7558 GGGTAAAAGATTGGATTGCTTCAATCTGTCC-CATGGTCAGGGTAAGAGAT-TAGATGGTCTTTA
1 GGGTAAAAGATTGGATTGCTTCAATCTG-CCTCATGGTCAGGGTAAAAGATCT-GATGG-CTTCA
* *
7621 ATCTG-CCCTCTGGTTA
63 ATCTGTCCC-ATGGTCA
*
7637 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCGGGGTAAAAGATCTGATGGCTTCAATC
1 GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCAGGGTAAAAGATCTGATGGCTTCAATC
*
7702 TGTCCCATGGTCC
66 TGTCCCATGGTCA
* * * *
7715 GGGTAAGAGATCTGGATTACTTCAATCTACCTTC-TGGTTAGGGTAAAA
1 GGGTAAAAGAT-TGGATTGCTTCAATCTGCC-TCATGGTCAGGGTAAAA
7763 TACCTGAATT
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
78 25 0.23
79 82 0.75
80 3 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (78 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGCCTCATGGTCAGGGTAAAAGATCTGATGGCTTCAATC
TGTCCCATGGTCA
Found at i:7680 original size:39 final size:39
Alignment explanation
Indices: 7558--7742 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 39
7548 ATAGCTTTAG
7558 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCA
1 GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCA
* * * * * *
7597 GGGTAAGAGATTAGATGGTCTTTAATCTG-CCCTCTGGTTA
1 GGGTAAAAGATTGGATTG-CTTCAATCTGTCCC-ATGGTCA
*
7637 GGGTAAAAGATTGGATTGCTTCAATCTG-CCTCATGGTCG
1 GGGTAAAAGATTGGATTGCTTCAATCTGTCC-CATGGTCA
* *
7676 GGGTAAAAGATCT-GATGGCTTCAATCTGTCCCATGGTCC
1 GGGTAAAAGAT-TGGATTGCTTCAATCTGTCCCATGGTCA
* *
7715 GGGTAAGAGATCTGGATTACTTCAATCT
1 GGGTAAAAGAT-TGGATTGCTTCAATCT
7743 ACCTTCTGGT
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
39 77 0.63
40 45 0.37
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (39 bp):
GGGTAAAAGATTGGATTGCTTCAATCTGTCCCATGGTCA
Found at i:7931 original size:50 final size:50
Alignment explanation
Indices: 7857--7990 Score: 196
Period size: 50 Copynumber: 2.7 Consensus size: 50
7847 AGATTCATCC
* *
7857 TTGTGACTTCATTCCGCCTTTCTACAGCTTTAGGTGAATGAGATTTGCCA
1 TTGTGACTTCATTCTGCCTCTCTACAGCTTTAGGTGAATGAGATTTGCCA
* *
7907 TTGTGGCTTCATTCTGCCTCTCTACAGCTTTAGGTGTATGAGATTTGCCA
1 TTGTGACTTCATTCTGCCTCTCTACAGCTTTAGGTGAATGAGATTTGCCA
* * **
7957 TTGCGACTTCAATCTGCAACTCTACAGCTTTAGG
1 TTGTGACTTCATTCTGCCTCTCTACAGCTTTAGG
7991 GTAAAAGATT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 75 1.00
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.37
Consensus pattern (50 bp):
TTGTGACTTCATTCTGCCTCTCTACAGCTTTAGGTGAATGAGATTTGCCA
Found at i:14610 original size:31 final size:31
Alignment explanation
Indices: 14575--14646 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
14565 TAGAAATTTT
14575 AATGCATGAAAATGCGACGCAAAACTTTATG
1 AATGCATGAAAATGCGACGCAAAACTTTATG
* *
14606 AATGCATGAAAATGCGATGCAAAATTTTATG
1 AATGCATGAAAATGCGACGCAAAACTTTATG
14637 AATGCATGAA
1 AATGCATGAA
14647 TGCATATGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.25
Consensus pattern (31 bp):
AATGCATGAAAATGCGACGCAAAACTTTATG
Found at i:18129 original size:24 final size:23
Alignment explanation
Indices: 18089--18134 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
18079 ATTTACAAGT
18089 ATACATAATAAAAAAAAACAATAC
1 ATACATAATAAAAAAAAA-AATAC
*
18113 ATACATAA-AATATAAAAAAATA
1 ATACATAATAA-AAAAAAAAATA
18135 TATATGCATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.20
Consensus pattern (23 bp):
ATACATAATAAAAAAAAAAATAC
Found at i:18398 original size:30 final size:30
Alignment explanation
Indices: 18188--18401 Score: 213
Period size: 30 Copynumber: 7.2 Consensus size: 30
18178 ATTAAAACCA
*
18188 GGTCAAATTTGAATTTTT-GAAAACTTTAAG
1 GGTCAAATTTGAATTTTTGGAAAA-TTTGAG
** * *
18218 GGTCAAATAAGAATTTTTGGAAAGTTCGAG
1 GGTCAAATTTGAATTTTTGGAAAATTTGAG
* *
18248 GGTTAAATTTGAATTTTTGGAAAATTTAAG
1 GGTCAAATTTGAATTTTTGGAAAATTTGAG
** * *
18278 GGTCAAATTCAAATTTTT-GAAAATTCGGG
1 GGTCAAATTTGAATTTTTGGAAAATTTGAG
18307 GGTC--ATTTGAATTTTTGGAAAATTTG-G
1 GGTCAAATTTGAATTTTTGGAAAATTTGAG
* * * *
18334 TGGTGAAATGTGACTTTTTGGAAAATTTAAG
1 -GGTCAAATTTGAATTTTTGGAAAATTTGAG
* * *
18365 GGTCAAATTTGAATTTTTGGATAGTTTGGG
1 GGTCAAATTTGAATTTTTGGAAAATTTGAG
18395 GGTCAAA
1 GGTCAAA
18402 AACAATTTTA
Statistics
Matches: 147, Mismatches: 31, Indels: 12
0.77 0.16 0.06
Matches are distributed among these distances:
27 11 0.07
28 11 0.07
29 12 0.08
30 108 0.73
31 5 0.03
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (30 bp):
GGTCAAATTTGAATTTTTGGAAAATTTGAG
Found at i:22439 original size:3 final size:3
Alignment explanation
Indices: 22431--22472 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22421 TTAAAGGGAA
22431 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
22473 TCCTTTTGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:28780 original size:15 final size:15
Alignment explanation
Indices: 28761--28812 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
28751 TAACCTAATC
28761 CTAAAAATTAATAAAA
1 CTAAAAA-TAATAAAA
*
28777 -TAAAAATATTAAAA
1 CTAAAAATAATAAAA
* *
28791 CTAAAAGT-CTAAAA
1 CTAAAAATAATAAAA
28805 CTAAAAAT
1 CTAAAAAT
28813 CACGATTCGC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.65, C:0.08, G:0.02, T:0.25
Consensus pattern (15 bp):
CTAAAAATAATAAAA
Found at i:31766 original size:18 final size:17
Alignment explanation
Indices: 31743--31778 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
31733 ATGGTGGTGA
31743 GGATAAAACATCTGAATT
1 GGATAAAACATCT-AATT
*
31761 GGATAAAATATCTAATT
1 GGATAAAACATCTAATT
31778 G
1 G
31779 AGGCTAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (17 bp):
GGATAAAACATCTAATT
Found at i:34350 original size:28 final size:29
Alignment explanation
Indices: 34288--34352 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 29
34278 TAATATTAAG
34288 ATAACTATATAAAAATTTTCAATAAATAAA
1 ATAA-TATATAAAAATTTTCAATAAATAAA
34318 A-AATATAT-AAAATTATT-AA-AAACTAAA
1 ATAATATATAAAAATT-TTCAATAAA-TAAA
34345 ATAATATA
1 ATAATATA
34353 ATATAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
26 3 0.09
27 13 0.41
28 13 0.41
29 2 0.06
30 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
ATAATATATAAAAATTTTCAATAAATAAA
Found at i:35043 original size:23 final size:22
Alignment explanation
Indices: 35006--35071 Score: 89
Period size: 23 Copynumber: 3.0 Consensus size: 22
34996 TAAAATAAAA
35006 AAAAAAATT-TATTTAATTTTT
1 AAAAAAATTATATTTAATTTTT
*
35027 AAAAAAATTATATTTTAATTATT
1 AAAAAAATTATA-TTTAATTTTT
*
35050 ATAAAAATTATAATTTAATTTT
1 AAAAAAATTAT-ATTTAATTTT
35072 GATTTCTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
21 9 0.23
22 2 0.05
23 27 0.69
24 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
AAAAAAATTATATTTAATTTTT
Found at i:36061 original size:16 final size:16
Alignment explanation
Indices: 36040--36098 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 16
36030 TACGAAAAAT
36040 TATTAAAAATATTAAA
1 TATTAAAAATATTAAA
*
36056 TATTAAATAT-TTAAAA
1 TATTAAAAATATT-AAA
*
36072 TATTAAAATTATATAAA
1 TATTAAAAATAT-TAAA
36089 CTCATTAAAA
1 -T-ATTAAAA
36099 TCAAAAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
15 2 0.06
16 20 0.57
17 4 0.11
18 2 0.06
19 7 0.20
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAAAAATATTAAA
Found at i:36077 original size:8 final size:8
Alignment explanation
Indices: 36035--36099 Score: 53
Period size: 9 Copynumber: 7.6 Consensus size: 8
36025 AAAAATACGA
36035 AAAATTATT
1 AAAA-TATT
36044 AAAAATATT
1 -AAAATATT
36053 -AAATATT
1 AAAATATT
36060 -AAATATTT
1 AAAATA-TT
36068 AAAATATT
1 AAAATATT
36076 AAAATTATAT
1 AAAA-TAT-T
*
36086 AAACTCATT
1 AAAAT-ATT
36095 AAAAT
1 AAAAT
36100 CAAAAATATT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
7 12 0.25
8 8 0.17
9 18 0.38
10 10 0.21
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATATT
Found at i:36122 original size:44 final size:43
Alignment explanation
Indices: 36060--36143 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
36050 ATTAAATATT
36060 AAATATTTAAAATATTAAAATTA-TATAAACTCATTAAAATCAA
1 AAATATTTAAAATATTAAAATTAGTA-AAACTCATTAAAATCAA
* * *
36103 AAATATTATAAAATTTTAAAATTAGTAAAACTTATTTAAAT
1 AAATATT-TAAAATATTAAAATTAGTAAAACTCATTAAAAT
36144 TTAAAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 7 0.19
44 27 0.75
45 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (43 bp):
AAATATTTAAAATATTAAAATTAGTAAAACTCATTAAAATCAA
Found at i:36682 original size:21 final size:21
Alignment explanation
Indices: 36657--36705 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
36647 AATTTATGAT
36657 TTTTATAAAATTTTA-AATATG
1 TTTTATAAAATTTTACAAT-TG
* *
36678 TTTTAT-GAATTTTACAATTT
1 TTTTATAAAATTTTACAATTG
36698 TTTTATAA
1 TTTTATAA
36706 TTTATAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 14 0.61
21 9 0.39
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTTATAAAATTTTACAATTG
Found at i:39015 original size:11 final size:11
Alignment explanation
Indices: 38999--39029 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
38989 AGAAGGACCT
38999 AATTGATACAA
1 AATTGATACAA
39010 AATTGATACAA
1 AATTGATACAA
*
39021 AATCGATAC
1 AATTGATAC
39030 CTTTAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (11 bp):
AATTGATACAA
Found at i:40609 original size:21 final size:21
Alignment explanation
Indices: 40583--40634 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
40573 AATATCATTA
40583 AGCTCCAACAAGAAC-ACGCCT
1 AGCTCCAACAA-AACTACGCCT
* *
40604 AGCTCCAACAACACTACTCCT
1 AGCTCCAACAAAACTACGCCT
40625 AGCTCCAACA
1 AGCTCCAACA
40635 CTGGTTCGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 2 0.07
21 26 0.93
ACGTcount: A:0.37, C:0.40, G:0.10, T:0.13
Consensus pattern (21 bp):
AGCTCCAACAAAACTACGCCT
Found at i:43100 original size:13 final size:13
Alignment explanation
Indices: 43082--43107 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
43072 TTTAAATAAT
43082 GTCCAATTACAAA
1 GTCCAATTACAAA
43095 GTCCAATTACAAA
1 GTCCAATTACAAA
43108 TCAGACCCAA
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
GTCCAATTACAAA
Found at i:44397 original size:37 final size:37
Alignment explanation
Indices: 44339--44437 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
44329 CCTTTTAAAG
* *
44339 ACCCTCAAAACGGCGTTGTTTTGAGGGTTGAATTTCA
1 ACCCCCAAAACGGCGTCGTTTTGAGGGTTGAATTTCA
*
44376 ACCCCCAAAACGGCGTCGTTTTGAGGGTTGAGTTTCA
1 ACCCCCAAAACGGCGTCGTTTTGAGGGTTGAATTTCA
44413 ACCCCCAAAACGGCGTCGTTTTGAG
1 ACCCCCAAAACGGCGTCGTTTTGAG
44438 CTATTACCCA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.27
Consensus pattern (37 bp):
ACCCCCAAAACGGCGTCGTTTTGAGGGTTGAATTTCA
Found at i:44902 original size:29 final size:29
Alignment explanation
Indices: 44868--45187 Score: 296
Period size: 29 Copynumber: 11.0 Consensus size: 29
44858 TCGAAAAGTA
44868 CATTTTTACCCCCGAACTTCCAAAAATTC
1 CATTTTTACCCCCGAACTTCCAAAAATTC
**
44897 CA-TTTTACCCCAAAACTTCCAAAAATTC
1 CATTTTTACCCCCGAACTTCCAAAAATTC
* *
44925 CATTTTTAACCTCGAAACTTCCAAAAATTC
1 CATTTTTACCCCCG-AACTTCCAAAAATTC
* * *
44955 CATTTTTGA-CCCCAAAATTCAAAAAATTC
1 CATTTTT-ACCCCCGAACTTCCAAAAATTC
***
44984 CATTTTTACCCTTAAACTTCCAAAAATTC
1 CATTTTTACCCCCGAACTTCCAAAAATTC
* *
45013 CATTTTTAACCCCGAACTTCCAAAATTTC
1 CATTTTTACCCCCGAACTTCCAAAAATTC
** *
45042 CATTTTTACCCCTAAACTTCTAAAAATTC
1 CATTTTTACCCCCGAACTTCCAAAAATTC
45071 CATTTTTTGA-CCCCGAAACTTCCAAAAATTC
1 CA-TTTTT-ACCCCCG-AACTTCCAAAAATTC
* *
45102 CATTTTTGA-CTCTGAAACTT-CAAAAATTC
1 CATTTTT-ACCCCCG-AACTTCCAAAAATTC
* * *
45131 TATTTTTACCCCC--ATTCTCCAAAATTTC
1 CATTTTTACCCCCGAACT-TCCAAAAATTC
* *
45159 CATTTTCGA-CCCCGAAACTTTCAAAAATT
1 CATTTT-TACCCCCG-AACTTCCAAAAATT
45188 ACTATTTTGC
Statistics
Matches: 238, Mismatches: 39, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 45 0.19
29 113 0.47
30 57 0.24
31 20 0.08
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
CATTTTTACCCCCGAACTTCCAAAAATTC
Found at i:44957 original size:58 final size:60
Alignment explanation
Indices: 44868--45187 Score: 363
Period size: 58 Copynumber: 5.5 Consensus size: 60
44858 TCGAAAAGTA
*
44868 CATTTTTACCCCCG-AACTTCCAAAAATTCCA-TTTT-ACCCCAAAACTTCCAAAAATTC
1 CATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTC
* *
44925 CATTTTTAACCTCGAAACTTCCAAAAATTCCATTTTTGACCCCAAAA-TTCAAAAAATTC
1 CATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTC
** * * *
44984 CATTTTT-ACCCTTAAACTTCCAAAAATTCCATTTTTAACCCC-GAACTTCCAAAATTTC
1 CATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTC
* * *
45042 CATTTTT-ACCCCTAAACTTCTAAAAATTCCATTTTTTGACCCCGAAACTTCCAAAAATTC
1 CATTTTTAACCCCGAAACTTCCAAAAATTCCA-TTTTTGACCCCAAAACTTCCAAAAATTC
* * * * * ** *
45102 CATTTTTGACTCTGAAACTT-CAAAAATTCTATTTTT-ACCCCCATTC-TCCAAAATTTC
1 CATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTC
** *
45159 CATTTTCGACCCCGAAACTTTCAAAAATT
1 CATTTTTAACCCCGAAACTTCCAAAAATT
45188 ACTATTTTGC
Statistics
Matches: 228, Mismatches: 27, Indels: 15
0.84 0.10 0.06
Matches are distributed among these distances:
57 41 0.18
58 102 0.45
59 37 0.16
60 39 0.17
61 9 0.04
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (60 bp):
CATTTTTAACCCCGAAACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAATTC
Found at i:45223 original size:58 final size:58
Alignment explanation
Indices: 44888--45311 Score: 194
Period size: 58 Copynumber: 7.3 Consensus size: 58
44878 CCCGAACTTC
* * ** * * *
44888 CAAAAATT-CCATTTTACCCCAAAACT-TCCAAAAATTCCATTTTTAACCTCGAAACTTC
1 CAAAAATTACTATTTTACCCC-GAA-TGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
* * * * ** * *
44946 CAAAAATT-CCATTTTTGACCCCAAAAT-TCAAAAAATTCCATTTT-TACCCTTAAACTTC
1 CAAAAATTACTA-TTTT-ACCCC-GAATGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
* * * * *
45004 CAAAAATT-CCATTTTTAACCCCGAACT-TCCAAAATTTCCATTTT-TACCCC-TAAACTT
1 CAAAAATTACTA-TTTT-ACCCCGAA-TGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
* * * * * *
45061 CTAAAAATTCCATTTTTTGACCCCGAAACT-TCCAAAAATTCCATTTTTGACTCTG-AAACTT
1 C-AAAAATTAC-TATTTT-ACCCCG-AA-TGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
* * * * *
45122 CAAAAATT-CTATTTTTACCCCCATTCTCCAAAATTTCCATTTTCGACCCCGAAACTTT
1 CAAAAATTACTA-TTTTACCCCGAATGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
* * * * *
45180 CAAAAATTACTATTTTGCCCCGAATGTCCAAAAACTACATTTTCGATCTC-AAAATTCT
1 CAAAAATTACTATTTTACCCCGAATGTCCAAAAATTCCATTTTCGACCCCGAAAATT-T
* * * * * *
45238 C-AAAATTACTCTTTTACCCTCGAATGTCTAAAAATTTCATTTT-TAACCCAAAAATTT
1 CAAAAATTACTATTTTACCC-CGAATGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
* *
45295 CCCAAAATTACCATTTT
1 -CAAAAATTACTATTTT
45312 GCCCTCGAGA
Statistics
Matches: 298, Mismatches: 50, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
56 1 0.00
57 53 0.18
58 146 0.49
59 52 0.17
60 36 0.12
61 10 0.03
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (58 bp):
CAAAAATTACTATTTTACCCCGAATGTCCAAAAATTCCATTTTCGACCCCGAAAATTT
Found at i:45331 original size:27 final size:27
Alignment explanation
Indices: 45299--45355 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
45289 AAATTTCCCA
*
45299 AAATTACCATTTTGCCCTCGAGAATCC
1 AAATTACCATTTTGCCCCCGAGAATCC
*
45326 AAATTACCATTTTGCCCCCGAGTATCC
1 AAATTACCATTTTGCCCCCGAGAATCC
45353 AAA
1 AAA
45356 GTCTCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.28
Consensus pattern (27 bp):
AAATTACCATTTTGCCCCCGAGAATCC
Found at i:45363 original size:27 final size:27
Alignment explanation
Indices: 45303--45365 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
45293 TTCCCAAAAT
* *
45303 TACCATTTTGCCCTCGAGAATCCAAAT
1 TACCATTTTGCCCCCGAGAATCCAAAG
*
45330 TACCATTTTGCCCCCGAGTATCCAAAG
1 TACCATTTTGCCCCCGAGAATCCAAAG
45357 T-CTCATTTT
1 TAC-CATTTT
45366 CAACTTTGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 1 0.03
27 31 0.97
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.33
Consensus pattern (27 bp):
TACCATTTTGCCCCCGAGAATCCAAAG
Found at i:46859 original size:14 final size:14
Alignment explanation
Indices: 46840--46888 Score: 80
Period size: 14 Copynumber: 3.4 Consensus size: 14
46830 GTTACCGATA
46840 TGGTCGTGCACATG
1 TGGTCGTGCACATG
*
46854 TGGTCGTGCACAATA
1 TGGTCGTGCAC-ATG
46869 TGGTCGTGCACATG
1 TGGTCGTGCACATG
46883 TGGTCG
1 TGGTCG
46889 GAGGAGACTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
14 19 0.59
15 13 0.41
ACGTcount: A:0.16, C:0.20, G:0.35, T:0.29
Consensus pattern (14 bp):
TGGTCGTGCACATG
Found at i:46874 original size:15 final size:15
Alignment explanation
Indices: 46837--46880 Score: 72
Period size: 15 Copynumber: 3.0 Consensus size: 15
46827 TCAGTTACCG
46837 ATATGGTCGTGCAC-
1 ATATGGTCGTGCACA
*
46851 ATGTGGTCGTGCACA
1 ATATGGTCGTGCACA
46866 ATATGGTCGTGCACA
1 ATATGGTCGTGCACA
46881 TGTGGTCGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (15 bp):
ATATGGTCGTGCACA
Found at i:57472 original size:115 final size:115
Alignment explanation
Indices: 57326--57658 Score: 402
Period size: 116 Copynumber: 2.9 Consensus size: 115
57316 TCAAACCCAC
* * *
57326 GCTCGATGTGAGCAAATCCTCGAA-CCTCAGCTTCCTGATGAGATACTAAGAAGAAGGTCGAAAT
1 GCTCGATGTGAGCAAATCTTCGAATCC-CAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAAC
*
57390 AATAAAGTGGTTAGCTTCTTGATGAGATACAGAGAAGTATACCAACTCAGG
65 AATAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGG
* * * * *
57441 GCTCCATGTGATCAAATCTTCGAATCCCAGCTTCTTGATGAGATAC-AGAGAAGCAGATTGAAAC
1 GCTCGATGTGAGCAAATCTTCGAATCCCAGCTTCCTGATGAGATACTA-AGAAGCAGGTCGAAAC
* * * * * * *
57505 AAGTAAGGCGGTCATCTTCCTGATGAGATACAAAGAAGAATATCAACTCAGG
65 AA-TAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGG
* * * * *
57557 ACTCGATGCGAGCAAATCTTCAAAAT-CCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGC
1 GCTCGATGTGAGCAAATCTTC-GAATCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAAC
* *
57621 AATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
65 AATAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGT
57659 GACCAAATTC
Statistics
Matches: 179, Mismatches: 34, Indels: 10
0.80 0.15 0.04
Matches are distributed among these distances:
114 1 0.01
115 81 0.45
116 94 0.53
117 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (115 bp):
GCTCGATGTGAGCAAATCTTCGAATCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAACA
ATAAAGTGGTTAGCTTCCTGATGAGATACAGAGAAGTATACCAACTCAGG
Found at i:57573 original size:116 final size:115
Alignment explanation
Indices: 57235--57650 Score: 401
Period size: 116 Copynumber: 3.6 Consensus size: 115
57225 CCAAATTCGT
* ** *
57235 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
* * * *
57300 TGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCCTCGAA-CCTCAG
66 --A-AAGAAGA--ATATC-AACTCAGGCTCGATGTGAGCAAATCTTCGAATCC-CAG
* * * * * * * *
57356 CTTCCTGATGAGATACTA-AGAAGAAGGTCGAAATAA-TAAAGTGGTTAGCTTCTTGATGAGATA
1 CTTCCTGATGAGATAC-AGAGAAGCAGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATA
* * * * *
57419 CAGAGAAGTATACCAACTCAGGGCTCCATGTGATCAAATCTTCGAATCCCAG
65 CAAAGAAGAATATCAACTCA-GGCTCGATGTGAGCAAATCTTCGAATCCCAG
* *
57471 CTTCTTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
* *
57536 AAAGAAGAATATCAACTCAGGACTCGATGCGAGCAAATCTTCAAAAT-CCAG
66 AAAGAAGAATATCAACTCAGG-CTCGATGTGAGCAAATCTTC-GAATCCCAG
* * * * ** * *
57587 CTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAA-TAAAATGGTTAGCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
57651 TGAGAAGTGA
Statistics
Matches: 240, Mismatches: 48, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
114 6 0.03
115 81 0.34
116 93 0.39
117 8 0.03
118 1 0.00
120 21 0.09
121 29 0.12
122 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (115 bp):
CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAAGCGGTCATCTTCCTGATGAGATAC
AAAGAAGAATATCAACTCAGGCTCGATGTGAGCAAATCTTCGAATCCCAG
Found at i:57648 original size:231 final size:234
Alignment explanation
Indices: 57235--57658 Score: 606
Period size: 231 Copynumber: 1.8 Consensus size: 234
57225 CCAAATTCGT
* * *
57235 CTTCCTGATGAGATACAGAGAAGCGGATTGAAACAAGCGATGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGCAAGGCGGTCATCTTCCTGATGAGATAC
* *
57300 TGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAAATCCTCGAACCTCAGCTTCCTGAT
66 -GAGAAGAAGA-CAAATCAAACCCACGCTCGATGCGAGCAAATCCTCAAACCTCAGCTTCCTGAT
* * *
57365 GAGATACTAAGAAGAAGGTCGAAATAATAAAGTGGTTAGCTTCTTGATGAGATACAGAGAAGTAT
129 GAGATACTAAGAAGAAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTAT
57430 ACCAACTCAGGGCTCCATGTGATCAAATCTTCGAATCCCAG
194 ACCAACTCAGGGCTCCATGTGATCAAATCTTCGAATCCCAG
* *
57471 CTTCTTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGCAAGGCGGTCATCTTCCTGATGAGATAC
* * * * *
57536 -A-AAGAAGA-ATATC-AACTCAGGACTCGATGCGAGCAAATCTTCAAA-ATCCAGCTTCCTGAT
66 GAGAAGAAGACAAATCAAACCCACG-CTCGATGCGAGCAAATCCTCAAACCT-CAGCTTCCTGAT
* * * *
57596 GAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGT
129 GAGATACTAAGAAGAAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGT
57659 GACCAAATTC
Statistics
Matches: 167, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
230 7 0.04
231 92 0.55
233 7 0.04
234 1 0.01
236 60 0.36
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (234 bp):
CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGCAAGGCGGTCATCTTCCTGATGAGATAC
GAGAAGAAGACAAATCAAACCCACGCTCGATGCGAGCAAATCCTCAAACCTCAGCTTCCTGATGA
GATACTAAGAAGAAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGAGATACAGAGAAGTATAC
CAACTCAGGGCTCCATGTGATCAAATCTTCGAATCCCAG
Found at i:57837 original size:205 final size:203
Alignment explanation
Indices: 57471--57951 Score: 565
Period size: 205 Copynumber: 2.4 Consensus size: 203
57461 CGAATCCCAG
* * ** *
57471 CTTCTTGATGAGATACAGAGAAGCAGATTGAAACAAGTAAGGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATACGGTCATCTTCTTGATGAGATAC
* * * * * *
57536 -A-AAGAAGAATATCAACTCAGGACTCGATGCGAGCAAATCTTCAAAATCCAGCTTCCTGATGAG
66 TAGAAGAAGAAAATCAACCCACGACTCGATGCGAGCAAATCCTCAAAACCCAGCTTCCTGATAAG
* * *
57599 ATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTG-ACC
131 ATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGACGAAATACGGAGAAGTGAACC
** *
57663 AAATTCGT
196 AAAACCAT
* * * *
57671 CTTCCTGATGAGATACAGGGAAGCAGATTGAAACAAGCGATACGGTTATCTTCTTGATGAGACAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATACGGTCATCTTCTTGATGAGATAC
* * * * *
57736 TGAGAAGAAGACAAAATCAAACCCACG-CTCGATGTGAGCAAATCCTCGAACCCCGGCTTCTTGA
66 T-AGAAGAAG--AAAATC-AACCCACGACTCGATGCGAGCAAATCCTCAAAACCCAGCTTCCTGA
* * *
57800 TAAGATACTGAGAAGCAGGTTGAAGTAATAAAATGGTTAGCTTCCTGACGAAATACGGGGAAGTG
127 TAAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGACGAAATACGGAGAAGTG
57865 AACCAAAACCAT
192 AACCAAAACCAT
* ** ** * *
57877 CTTCCTGATGAAATACAGAGAAGTGGATCAAAACAAGTGATATGGTCGTCTTCTTGATGAGATAC
1 CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATACGGTCATCTTCTTGATGAGATAC
57942 TAAGAAGAAG
66 T-AGAAGAAG
57952 GTCAAGTTAA
Statistics
Matches: 233, Mismatches: 41, Indels: 8
0.83 0.15 0.03
Matches are distributed among these distances:
200 56 0.24
202 1 0.00
203 6 0.03
205 93 0.40
206 77 0.33
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.22
Consensus pattern (203 bp):
CTTCCTGATGAGATACAGAGAAGCAGATTGAAACAAGTGATACGGTCATCTTCTTGATGAGATAC
TAGAAGAAGAAAATCAACCCACGACTCGATGCGAGCAAATCCTCAAAACCCAGCTTCCTGATAAG
ATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCCTGACGAAATACGGAGAAGTGAACC
AAAACCAT
Found at i:57881 original size:37 final size:37
Alignment explanation
Indices: 57840--57910 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
57830 AAATGGTTAG
* *
57840 CTTCCTGACGAAATACGGGGAAGTGAACCAAAACCAT
1 CTTCCTGACGAAATACAGAGAAGTGAACCAAAACCAT
* * *
57877 CTTCCTGATGAAATACAGAGAAGTGGATCAAAAC
1 CTTCCTGACGAAATACAGAGAAGTGAACCAAAAC
57911 AAGTGATATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (37 bp):
CTTCCTGACGAAATACAGAGAAGTGAACCAAAACCAT
Found at i:58303 original size:17 final size:17
Alignment explanation
Indices: 58274--58361 Score: 133
Period size: 17 Copynumber: 5.2 Consensus size: 17
58264 GGGCCCAACA
58274 AAATTTAAATTTATTTT
1 AAATTTAAATTTATTTT
* *
58291 AAAATTAAGTTTATTTT
1 AAATTTAAATTTATTTT
*
58308 AAATTTAAATTTATTTG
1 AAATTTAAATTTATTTT
*
58325 AAATTTAAATTTATTAT
1 AAATTTAAATTTATTTT
58342 AAATTTAAATTTA-TTT
1 AAATTTAAATTTATTTT
58358 AAAT
1 AAAT
58362 AATGTCCAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
16 6 0.10
17 57 0.90
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (17 bp):
AAATTTAAATTTATTTT
Found at i:58330 original size:7 final size:6
Alignment explanation
Indices: 58274--58354 Score: 66
Period size: 6 Copynumber: 14.2 Consensus size: 6
58264 GGGCCCAACA
* * * *
58274 AAATTT AAATTT -ATTTT AAAATT AAGTTT -ATTTT AAATTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
58320 --ATTT GAAATTT AAATTT --ATTAT AAATTT AAATTT A
1 AAATTT -AAATTT AAATTT AAATT-T AAATTT AAATTT A
58355 TTTAAATAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 16
0.72 0.08 0.19
Matches are distributed among these distances:
4 7 0.12
5 9 0.15
6 37 0.62
7 7 0.12
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:60233 original size:59 final size:59
Alignment explanation
Indices: 60132--60533 Score: 431
Period size: 59 Copynumber: 6.8 Consensus size: 59
60122 AATCTATCCG
* ** * * * *
60132 AAATTACATTTTTACCCTC-GGACTTCTAAAAATTCAAATTTTGACCCCAAAACTTCTAA
1 AAATTCCATTTTTACCCTCAAAACTTCCAAAAATTC-CATTTTTACCCCAAAACTTCCAA
* * *
60191 AACTTCTATTTTTACCCTC-AAACTTCCAAAAAATCCATTTTTGACCCCAAAACTTCCAA
1 AAATTCCATTTTTACCCTCAAAACTTCCAAAAATTCCATTTTT-ACCCCAAAACTTCCAA
* * * *
60250 AAATTCCATTTTTAACCTCGAAACTTCCAAAAATTCCATTTTTACCCTC-AAACCTCTAA
1 AAATTCCATTTTTACCCTCAAAACTTCCAAAAATTCCATTTTTACCC-CAAAACTTCCAA
* * * * **
60309 AATTTCCATTTTAACCC-CTAAACTTCCAAAAATTCCATTTTAACCTTAAAACTTCCAA
1 AAATTCCATTTTTACCCTCAAAACTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAA
* * * *
60367 AAATTTCATTTTTACCCT-AAAACTTCTAAAAAATTCCATTTTTACCCCTAAACTTCTAA
1 AAATTCCATTTTTACCCTCAAAACTTC-CAAAAATTCCATTTTTACCCCAAAACTTCCAA
* *
60426 AAATTCCATTTTTTAACCC-CAAAACTTCAAAAAATTCCATTTTTACCCCTAAACTTCCAA
1 AAATTCCA-TTTTT-ACCCTCAAAACTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAA
* * *
60486 AAAATCTATCTTTGACCC-CAAAACTTCCAAAAATTCCATTTTTACCCC
1 AAATTCCAT-TTTTACCCTCAAAACTTCCAAAAATTCCATTTTTACCCC
60534 TAACCTCCAA
Statistics
Matches: 292, Mismatches: 41, Indels: 20
0.83 0.12 0.06
Matches are distributed among these distances:
58 60 0.21
59 152 0.52
60 68 0.23
61 12 0.04
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (59 bp):
AAATTCCATTTTTACCCTCAAAACTTCCAAAAATTCCATTTTTACCCCAAAACTTCCAA
Found at i:60533 original size:29 final size:29
Alignment explanation
Indices: 60153--60533 Score: 424
Period size: 29 Copynumber: 12.9 Consensus size: 29
60143 TTACCCTCGG
* * *
60153 ACTTCTAAAAATTCAAATTTTGACCCCAAA
1 ACTTCCAAAAATTC-CATTTTTACCCCAAA
* * *
60183 ACTTCTAAAACTTCTATTTTTACCCTC-AA
1 ACTTCCAAAAATTCCATTTTTACCC-CAAA
*
60212 ACTTCCAAAAAATCCATTTTTGACCCCAAA
1 ACTTCCAAAAATTCCATTTTT-ACCCCAAA
* *
60242 ACTTCCAAAAATTCCATTTTTAACCTCGAA
1 ACTTCCAAAAATTCCATTTTT-ACCCCAAA
60272 ACTTCCAAAAATTCCATTTTTACCCTC-AA
1 ACTTCCAAAAATTCCATTTTTACCC-CAAA
* * * * *
60301 ACCTCTAAAATTTCCATTTTAACCCCTAA
1 ACTTCCAAAAATTCCATTTTTACCCCAAA
* **
60330 ACTTCCAAAAATTCCATTTTAACCTTAAA
1 ACTTCCAAAAATTCCATTTTTACCCCAAA
* *
60359 ACTTCCAAAAATTTCATTTTTACCCTAAA
1 ACTTCCAAAAATTCCATTTTTACCCCAAA
* *
60388 ACTTCTAAAAAATTCCATTTTTACCCCTAA
1 ACTTC-CAAAAATTCCATTTTTACCCCAAA
*
60418 ACTTCTAAAAATTCCATTTTTTAACCCCAAA
1 ACTTCCAAAAATTCCA-TTTTT-ACCCCAAA
* *
60449 ACTTCAAAAAATTCCATTTTTACCCCTAA
1 ACTTCCAAAAATTCCATTTTTACCCCAAA
* * *
60478 ACTTCCAAAAAATCTATCTTTGACCCCAAA
1 ACTTCCAAAAATTCCAT-TTTTACCCCAAA
60508 ACTTCCAAAAATTCCATTTTTACCCC
1 ACTTCCAAAAATTCCATTTTTACCCC
60534 TAACCTCCAA
Statistics
Matches: 301, Mismatches: 41, Indels: 19
0.83 0.11 0.05
Matches are distributed among these distances:
28 1 0.00
29 150 0.50
30 128 0.43
31 22 0.07
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
ACTTCCAAAAATTCCATTTTTACCCCAAA
Found at i:60671 original size:58 final size:59
Alignment explanation
Indices: 60513--60671 Score: 139
Period size: 58 Copynumber: 2.7 Consensus size: 59
60503 CCAAAACTTC
* ** * *
60513 CAAAAATT-CCATTTTTA-CCCCTAACCTCC-AAATTTTCATTTTCGACCTCGAAATTTT
1 CAAAAATTACCA-TTTTACCCCCGAATGTCCAAAAATTTCATTTTCGACCTCGAAATTCT
* * * *
60570 CAAAAATTACCATTTTGCCCCCGGATGTCCAAAAA-CTCTATTTTCGATCTCGAAATTCT
1 CAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTC-ATTTTCGACCTCGAAATTCT
* * * * *
60629 C-GAAATTACCCTTTTACTCTCGAATGTCTAAAAATTTCATTTT
1 CAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTCATTTT
60672 TAGCCCAAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 9
0.75 0.16 0.08
Matches are distributed among these distances:
57 12 0.15
58 44 0.55
59 24 0.30
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (59 bp):
CAAAAATTACCATTTTACCCCCGAATGTCCAAAAATTTCATTTTCGACCTCGAAATTCT
Found at i:60742 original size:27 final size:26
Alignment explanation
Indices: 60690--60745 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
60680 AATTTTCCCA
* *
60690 AAATTACCCTTTTGCCCTCAGAATCC
1 AAATTACCATTTTGCCCCCAGAATCC
*
60716 AAATTACCATTTTGCCCCCAGGTATCC
1 AAATTACCATTTTGCCCCCA-GAATCC
60743 AAA
1 AAA
60746 GTCTCATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (26 bp):
AAATTACCATTTTGCCCCCAGAATCC
Found at i:63348 original size:26 final size:27
Alignment explanation
Indices: 63291--63442 Score: 68
Period size: 26 Copynumber: 5.5 Consensus size: 27
63281 TAAAATTTAA
*
63291 ATTTATTATATTTTTGAAAATATTTATGT
1 ATTT-TTATATTTTT-AAAATATTTATAT
63320 ATTTTTATATTTTCT-AAAT-TTTATAT
1 ATTTTTATATTTT-TAAAATATTTATAT
* * *
63346 ATTATTATTTCTTTTCAACA-A--TATAT
1 ATTTTTATAT-TTTT-AAAATATTTATAT
* *
63372 -TTTTT-TATTTTT-ATATACTCTTAAAT
1 ATTTTTATATTTTTAAAATA-T-TTATAT
* * *
63398 TTATTATATATTTTTCGAAAATATTTATGT
1 AT-TTTTATATTTTT--AAAATATTTATAT
63428 ATTTTTATATATTTT
1 ATTTTTATAT-TTTT
63443 TTTGAATTTT
Statistics
Matches: 92, Mismatches: 14, Indels: 33
0.66 0.10 0.24
Matches are distributed among these distances:
21 2 0.02
22 1 0.01
23 4 0.04
24 2 0.02
25 4 0.04
26 24 0.26
27 8 0.09
28 14 0.15
29 19 0.21
30 9 0.10
31 1 0.01
32 4 0.04
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTTTATATTTTTAAAATATTTATAT
Found at i:65489 original size:30 final size:29
Alignment explanation
Indices: 65402--65490 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
65392 ATGTGATAAT
* *
65402 TTTTTTATATTTTTGTAAATTTGAAATTTAG
1 TTTTTT-TATTTTT-TAATTTTAAAATTTAG
* * * *
65433 TTTATATA-TTTTTATTTTTATGAATTTAG
1 TTTTTTTATTTTTTAATTTTA-AAATTTAG
65462 TTTTTTTATTTTTTAGATTTTAAAATTTA
1 TTTTTTTATTTTTTA-ATTTTAAAATTTA
65491 TATCCAATTG
Statistics
Matches: 45, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
28 5 0.11
29 17 0.38
30 14 0.31
31 9 0.20
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (29 bp):
TTTTTTTATTTTTTAATTTTAAAATTTAG
Found at i:72248 original size:59 final size:57
Alignment explanation
Indices: 72176--72363 Score: 181
Period size: 58 Copynumber: 3.3 Consensus size: 57
72166 TTAGGGGTTT
* * *
72176 AAAAATGAAATTTTTGGACATTCGGGAGTAAAAGGGTAA-TTTTGAGAGTTTCGAGGTC
1 AAAAATGAGATTTTTGGA-ATTCGGGAGTAAAATGG-AATTTTTGAAAGTTTCGAGGTC
* * * * *
72234 AAAAATGGAGA-TTTTGCAGGTTAAGGGA-AAAAATGGAATTTTTGAAAGTTTC-AGGGTA
1 AAAAAT-GAGATTTTTGGA-ATT-CGGGAGTAAAATGGAATTTTTGAAAGTTTCGA-GGTC
*
72292 AAAAATGAGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGAAAGTTT-GAGGTC
1 AAAAATGAGATTTTTGGAA-TTCGGGAGT-AAAATGGAATTTTTGAAAGTTTCGAGGTC
72350 AAAAATG-GATTTTT
1 AAAAATGAGATTTTT
72364 TGAAGTTTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
57 17 0.16
58 59 0.56
59 30 0.28
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (57 bp):
AAAAATGAGATTTTTGGAATTCGGGAGTAAAATGGAATTTTTGAAAGTTTCGAGGTC
Found at i:72277 original size:58 final size:58
Alignment explanation
Indices: 72215--72400 Score: 191
Period size: 58 Copynumber: 3.2 Consensus size: 58
72205 AAAAGGGTAA
* * *
72215 TTTTGAGAGTTTCGAGGTCAAAAATGGAGATTTTGCAGGTTAAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGGTAAAAATGGAAT
* **
72273 TTTTGAAAGTTTC-AGGGTAAAAAAT-GAGATTTTTGGAA-GTTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCGA-GGTCAAAAATGGAGA-TTTT-GAAGGTT-AAGGGTAAAAATGGAAT
** * * *
72332 TTTTGAAAGTTT-GAGGTCAAAAATGGATTTTTTGAAGTTTCAGGGTTAAAAATGGAAA
1 TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGG-TAAAAATGGAAT
*
72390 TTTTGGAAGTT
1 TTTTGAAAGTT
72401 CGGGGGTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
57 11 0.10
58 64 0.60
59 31 0.29
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (58 bp):
TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGGTAAAAATGGAAT
Found at i:72294 original size:29 final size:29
Alignment explanation
Indices: 72215--72413 Score: 153
Period size: 29 Copynumber: 6.8 Consensus size: 29
72205 AAAAGGGTAA
*
72215 TTTTGAGAGTTTC-GAGGTCAAAAATGGAGA-
1 TTTTGAAAGTTTCAG-GGT-AAAAATGGA-AT
* * * *
72245 TTTTG-CAGGTTAAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCAGGGTAAAAATGGAAT
72273 TTTTGAAAGTTTCAGGGTAAAAAAT-GAGAT
1 TTTTGAAAGTTTCAGGGT-AAAAATGGA-AT
* *
72303 TTTTGGAAG-TTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTC-AGGGTAAAAATGGAAT
* *
72332 TTTTGAAAGTTTGA-GGTCAAAAATGGATT
1 TTTTGAAAGTTTCAGGGT-AAAAATGGAAT
*
72361 TTTTG-AAGTTTCAGGGTTAAAAATGGAAA
1 TTTTGAAAGTTTCAGGG-TAAAAATGGAAT
* *
72390 TTTTGGAAG-TTCGGGGGTAAAAAT
1 TTTTGAAAGTTTC-AGGGTAAAAAT
72414 ATAATTTGGA
Statistics
Matches: 138, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.01
28 24 0.17
29 76 0.55
30 37 0.27
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
TTTTGAAAGTTTCAGGGTAAAAATGGAAT
Found at i:73417 original size:18 final size:19
Alignment explanation
Indices: 73392--73446 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
73382 TCCTTTATTT
*
73392 ATTTATTATTATTAATAAT
1 ATTTATTATTATTAATAAC
*
73411 A-TTATTATTATTATCAAAAC
1 ATTTATTATTATTA--ATAAC
73431 ATTTATTATTATTAAT
1 ATTTATTATTATTAAT
73447 GAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 4 0.13
21 12 0.40
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTATTATTAATAAC
Found at i:73420 original size:21 final size:21
Alignment explanation
Indices: 73394--73444 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
73384 CTTTATTTAT
* *
73394 TTATTATTATTAATA-ATATTA
1 TTATTATTATCAAAACAT-TTA
73415 TTATTATTATCAAAACATTTA
1 TTATTATTATCAAAACATTTA
73436 TTATTATTA
1 TTATTATTA
73445 ATGAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTATTATCAAAACATTTA
Found at i:74216 original size:6 final size:6
Alignment explanation
Indices: 74207--74270 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
74197 TTTTTTAATT
* *
74207 TTAAAA TTAAAA TTAAAA TT-AAA TTAAAT TTAAAT TTAAAA -T-AAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
*
74252 TCTAAAT TTAAAA TTAAAA
1 T-TAAAA TTAAAA TTAAAA
74271 AGGGGCCCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 38 0.76
7 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:74232 original size:17 final size:17
Alignment explanation
Indices: 74201--74269 Score: 79
Period size: 17 Copynumber: 4.0 Consensus size: 17
74191 TTGAACTTTT
*
74201 TTAATTTTAAAATTAAAA
1 TTAAATTTAAAATT-AAA
*
74219 TTAAAATT-AAATTAAA
1 TTAAATTTAAAATTAAA
74235 TTTAAATTTAAAA-TAAA
1 -TTAAATTTAAAATTAAA
74252 TCTAAATTTAAAATTAAA
1 T-TAAATTTAAAATTAAA
74270 AAGGGGCCCG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 4 0.09
17 27 0.61
18 13 0.30
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATTAAA
Found at i:74233 original size:23 final size:22
Alignment explanation
Indices: 74207--74270 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
74197 TTTTTTAATT
*
74207 TTAAAATTAAAATTAAAATTAAA
1 TTAAATTTAAAATTAAAA-TAAA
*
74230 TTAAATTTAAATTTAAAATAAA
1 TTAAATTTAAAATTAAAATAAA
74252 TCTAAATTTAAAATTAAAA
1 T-TAAATTTAAAATTAAAA
74271 AGGGGCCCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATTTAAAATTAAAATAAA
Found at i:74969 original size:205 final size:205
Alignment explanation
Indices: 74693--75234 Score: 748
Period size: 205 Copynumber: 2.6 Consensus size: 205
74683 TTTCACTAGA
* * *
74693 AAGCTAACCGTTTTATTACTTCGACTTGCTTCT-CAGTGTCTCATCAGGAAGCTGGGGTTTGAAG
1 AAGCTAACC-CTTTATTACTTC-ACTTGCTTCTCCA-TATCTCATCAGGAAGCTGGGGTTCGAAG
* *
74757 ATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATTAGGAAGATGACT
63 ATTTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT
*
74822 GCGTCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAA-TTTGTTCCACTTCTC-
128 GCATCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTG-TCCACTTCTCA
*
74885 AGTATCTCATCAGG
192 ACTATCTCATCAGG
* * *
74899 AAGCTATCCCTTTATTACTTCACTTTGCTTCTCCATATCTCATCAAGAAGCTGGGGTTCGAGGAT
1 AAGCTAACCCTTTATTACTTCAC-TTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGAT
* * *
74964 TTGCTCACATCGGGCGTGAGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAAGAAGATGACTGC
65 TTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGC
* *
75029 ATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGGCGAATTTTGTCCACTTCTCAACT
130 ATCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTGTCCACTTCTCAACT
75094 ATCTCATCAGG
195 ATCTCATCAGG
* * * *
75105 AAGCTAACCTTTTATTGCTTCACACTGCTTCTCTATATCTCATCAGGAAGCTGGGGTTCGAAGAT
1 AAGCTAACCCTTTATTACTTCAC-TTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGAT
* * ** * * *
75170 TTGCTCACTTTGAGCGTCGTTTCATTGACTTGGTTTTCTTCTCAGTATCTCATCAGAAAGATGAC
65 TTGCTCACATCGAGCGT-GAGT--TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGAC
75235 CGTATCGCTG
Statistics
Matches: 296, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
204 2 0.01
205 158 0.53
206 98 0.33
207 2 0.01
209 36 0.12
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (205 bp):
AAGCTAACCCTTTATTACTTCACTTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGATT
TGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCA
TCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTGTCCACTTCTCAACTA
TCTCATCAGG
Found at i:85620 original size:59 final size:57
Alignment explanation
Indices: 85548--85735 Score: 181
Period size: 58 Copynumber: 3.3 Consensus size: 57
85538 TTAGGGGTTT
* * *
85548 AAAAATGAAATTTTTGGACATTCGGGAGTAAAAGGGTAA-TTTTGAGAGTTTCGAGGTC
1 AAAAATGAGATTTTTGGA-ATTCGGGAGTAAAATGG-AATTTTTGAAAGTTTCGAGGTC
* * * * *
85606 AAAAATGGAGA-TTTTGCAGGTTAAGGGA-AAAAATGGAATTTTTGAAAGTTTC-AGGGTA
1 AAAAAT-GAGATTTTTGGA-ATT-CGGGAGTAAAATGGAATTTTTGAAAGTTTCGA-GGTC
*
85664 AAAAATGAGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGAAAGTTT-GAGGTC
1 AAAAATGAGATTTTTGGAA-TTCGGGAGT-AAAATGGAATTTTTGAAAGTTTCGAGGTC
85722 AAAAATG-GATTTTT
1 AAAAATGAGATTTTT
85736 TGAAGTTTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
57 17 0.16
58 59 0.56
59 30 0.28
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (57 bp):
AAAAATGAGATTTTTGGAATTCGGGAGTAAAATGGAATTTTTGAAAGTTTCGAGGTC
Found at i:85649 original size:58 final size:58
Alignment explanation
Indices: 85587--85772 Score: 191
Period size: 58 Copynumber: 3.2 Consensus size: 58
85577 AAAAGGGTAA
* * *
85587 TTTTGAGAGTTTCGAGGTCAAAAATGGAGATTTTGCAGGTTAAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGGTAAAAATGGAAT
* **
85645 TTTTGAAAGTTTC-AGGGTAAAAAAT-GAGATTTTTGGAA-GTTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCGA-GGTCAAAAATGGAGA-TTTT-GAAGGTT-AAGGGTAAAAATGGAAT
** * * *
85704 TTTTGAAAGTTT-GAGGTCAAAAATGGATTTTTTGAAGTTTCAGGGTTAAAAATGGAAA
1 TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGG-TAAAAATGGAAT
*
85762 TTTTGGAAGTT
1 TTTTGAAAGTT
85773 CGGGGGTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
57 11 0.10
58 64 0.60
59 31 0.29
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (58 bp):
TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGGTAAAAATGGAAT
Found at i:85666 original size:29 final size:29
Alignment explanation
Indices: 85587--85785 Score: 153
Period size: 29 Copynumber: 6.8 Consensus size: 29
85577 AAAAGGGTAA
*
85587 TTTTGAGAGTTTC-GAGGTCAAAAATGGAGA-
1 TTTTGAAAGTTTCAG-GGT-AAAAATGGA-AT
* * * *
85617 TTTTG-CAGGTTAAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCAGGGTAAAAATGGAAT
85645 TTTTGAAAGTTTCAGGGTAAAAAAT-GAGAT
1 TTTTGAAAGTTTCAGGGT-AAAAATGGA-AT
* *
85675 TTTTGGAAG-TTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTC-AGGGTAAAAATGGAAT
* *
85704 TTTTGAAAGTTTGA-GGTCAAAAATGGATT
1 TTTTGAAAGTTTCAGGGT-AAAAATGGAAT
*
85733 TTTTG-AAGTTTCAGGGTTAAAAATGGAAA
1 TTTTGAAAGTTTCAGGG-TAAAAATGGAAT
* *
85762 TTTTGGAAG-TTCGGGGGTAAAAAT
1 TTTTGAAAGTTTC-AGGGTAAAAAT
85786 ATAATTTGGA
Statistics
Matches: 138, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.01
28 24 0.17
29 76 0.55
30 37 0.27
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
TTTTGAAAGTTTCAGGGTAAAAATGGAAT
Found at i:86789 original size:18 final size:19
Alignment explanation
Indices: 86764--86818 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
86754 TCCTTTATTT
*
86764 ATTTATTATTATTAATAAT
1 ATTTATTATTATTAATAAC
*
86783 A-TTATTATTATTATCAAAAC
1 ATTTATTATTATTA--ATAAC
86803 ATTTATTATTATTAAT
1 ATTTATTATTATTAAT
86819 GAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 4 0.13
21 12 0.40
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTATTATTAATAAC
Found at i:86792 original size:21 final size:21
Alignment explanation
Indices: 86766--86816 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
86756 CTTTATTTAT
* *
86766 TTATTATTATTAATA-ATATTA
1 TTATTATTATCAAAACAT-TTA
86787 TTATTATTATCAAAACATTTA
1 TTATTATTATCAAAACATTTA
86808 TTATTATTA
1 TTATTATTA
86817 ATGAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTATTATCAAAACATTTA
Found at i:87588 original size:6 final size:6
Alignment explanation
Indices: 87579--87642 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
87569 TTTTTTAATT
* *
87579 TTAAAA TTAAAA TTAAAA TT-AAA TTAAAT TTAAAT TTAAAA -T-AAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
*
87624 TCTAAAT TTAAAA TTAAAA
1 T-TAAAA TTAAAA TTAAAA
87643 AGGGGCCCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 38 0.76
7 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:87604 original size:17 final size:17
Alignment explanation
Indices: 87573--87641 Score: 79
Period size: 17 Copynumber: 4.0 Consensus size: 17
87563 TTGAACTTTT
*
87573 TTAATTTTAAAATTAAAA
1 TTAAATTTAAAATT-AAA
*
87591 TTAAAATT-AAATTAAA
1 TTAAATTTAAAATTAAA
87607 TTTAAATTTAAAA-TAAA
1 -TTAAATTTAAAATTAAA
87624 TCTAAATTTAAAATTAAA
1 T-TAAATTTAAAATTAAA
87642 AAGGGGCCCG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 4 0.09
17 27 0.61
18 13 0.30
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATTAAA
Found at i:87605 original size:23 final size:22
Alignment explanation
Indices: 87579--87642 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
87569 TTTTTTAATT
*
87579 TTAAAATTAAAATTAAAATTAAA
1 TTAAATTTAAAATTAAAA-TAAA
*
87602 TTAAATTTAAATTTAAAATAAA
1 TTAAATTTAAAATTAAAATAAA
87624 TCTAAATTTAAAATTAAAA
1 T-TAAATTTAAAATTAAAA
87643 AGGGGCCCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATTTAAAATTAAAATAAA
Found at i:88341 original size:205 final size:205
Alignment explanation
Indices: 88065--88606 Score: 748
Period size: 205 Copynumber: 2.6 Consensus size: 205
88055 TTTCACTAGA
* * *
88065 AAGCTAACCGTTTTATTACTTCGACTTGCTTCT-CAGTGTCTCATCAGGAAGCTGGGGTTTGAAG
1 AAGCTAACC-CTTTATTACTTC-ACTTGCTTCTCCA-TATCTCATCAGGAAGCTGGGGTTCGAAG
* *
88129 ATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATTAGGAAGATGACT
63 ATTTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT
*
88194 GCGTCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAA-TTTGTTCCACTTCTC-
128 GCATCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTG-TCCACTTCTCA
*
88257 AGTATCTCATCAGG
192 ACTATCTCATCAGG
* * *
88271 AAGCTATCCCTTTATTACTTCACTTTGCTTCTCCATATCTCATCAAGAAGCTGGGGTTCGAGGAT
1 AAGCTAACCCTTTATTACTTCAC-TTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGAT
* * *
88336 TTGCTCACATCGGGCGTGAGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAAGAAGATGACTGC
65 TTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGC
* *
88401 ATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGGCGAATTTTGTCCACTTCTCAACT
130 ATCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTGTCCACTTCTCAACT
88466 ATCTCATCAGG
195 ATCTCATCAGG
* * * *
88477 AAGCTAACCTTTTATTGCTTCACACTGCTTCTCTATATCTCATCAGGAAGCTGGGGTTCGAAGAT
1 AAGCTAACCCTTTATTACTTCAC-TTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGAT
* * ** * * *
88542 TTGCTCACTTTGAGCGTCGTTTCATTGACTTGGTTTTCTTCTCAGTATCTCATCAGAAAGATGAC
65 TTGCTCACATCGAGCGT-GAGT--TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGAC
88607 CGTATCGCTG
Statistics
Matches: 296, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
204 2 0.01
205 158 0.53
206 98 0.33
207 2 0.01
209 36 0.12
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (205 bp):
AAGCTAACCCTTTATTACTTCACTTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGATT
TGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCA
TCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTGTCCACTTCTCAACTA
TCTCATCAGG
Found at i:98992 original size:59 final size:57
Alignment explanation
Indices: 98920--99107 Score: 181
Period size: 58 Copynumber: 3.3 Consensus size: 57
98910 TTAGGGGTTT
* * *
98920 AAAAATGAAATTTTTGGACATTCGGGAGTAAAAGGGTAA-TTTTGAGAGTTTCGAGGTC
1 AAAAATGAGATTTTTGGA-ATTCGGGAGTAAAATGG-AATTTTTGAAAGTTTCGAGGTC
* * * * *
98978 AAAAATGGAGA-TTTTGCAGGTTAAGGGA-AAAAATGGAATTTTTGAAAGTTTC-AGGGTA
1 AAAAAT-GAGATTTTTGGA-ATT-CGGGAGTAAAATGGAATTTTTGAAAGTTTCGA-GGTC
*
99036 AAAAATGAGATTTTTGGAAGTTCGGGGGTAAAAATGGAATTTTTGAAAGTTT-GAGGTC
1 AAAAATGAGATTTTTGGAA-TTCGGGAGT-AAAATGGAATTTTTGAAAGTTTCGAGGTC
99094 AAAAATG-GATTTTT
1 AAAAATGAGATTTTT
99108 TGAAGTTTCA
Statistics
Matches: 106, Mismatches: 15, Indels: 19
0.76 0.11 0.14
Matches are distributed among these distances:
57 17 0.16
58 59 0.56
59 30 0.28
ACGTcount: A:0.37, C:0.04, G:0.27, T:0.32
Consensus pattern (57 bp):
AAAAATGAGATTTTTGGAATTCGGGAGTAAAATGGAATTTTTGAAAGTTTCGAGGTC
Found at i:99021 original size:58 final size:58
Alignment explanation
Indices: 98959--99144 Score: 191
Period size: 58 Copynumber: 3.2 Consensus size: 58
98949 AAAAGGGTAA
* * *
98959 TTTTGAGAGTTTCGAGGTCAAAAATGGAGATTTTGCAGGTTAAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGGTAAAAATGGAAT
* **
99017 TTTTGAAAGTTTC-AGGGTAAAAAAT-GAGATTTTTGGAA-GTTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTCGA-GGTCAAAAATGGAGA-TTTT-GAAGGTT-AAGGGTAAAAATGGAAT
** * * *
99076 TTTTGAAAGTTT-GAGGTCAAAAATGGATTTTTTGAAGTTTCAGGGTTAAAAATGGAAA
1 TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGG-TAAAAATGGAAT
*
99134 TTTTGGAAGTT
1 TTTTGAAAGTT
99145 CGGGGGTAAA
Statistics
Matches: 106, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
57 11 0.10
58 64 0.60
59 31 0.29
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (58 bp):
TTTTGAAAGTTTCGAGGTCAAAAATGGAGATTTTGAAGGTTAAGGGTAAAAATGGAAT
Found at i:99038 original size:29 final size:29
Alignment explanation
Indices: 98959--99157 Score: 153
Period size: 29 Copynumber: 6.8 Consensus size: 29
98949 AAAAGGGTAA
*
98959 TTTTGAGAGTTTC-GAGGTCAAAAATGGAGA-
1 TTTTGAAAGTTTCAG-GGT-AAAAATGGA-AT
* * * *
98989 TTTTG-CAGGTTAAGGGAAAAAATGGAAT
1 TTTTGAAAGTTTCAGGGTAAAAATGGAAT
99017 TTTTGAAAGTTTCAGGGTAAAAAAT-GAGAT
1 TTTTGAAAGTTTCAGGGT-AAAAATGGA-AT
* *
99047 TTTTGGAAG-TTCGGGGGTAAAAATGGAAT
1 TTTTGAAAGTTTC-AGGGTAAAAATGGAAT
* *
99076 TTTTGAAAGTTTGA-GGTCAAAAATGGATT
1 TTTTGAAAGTTTCAGGGT-AAAAATGGAAT
*
99105 TTTTG-AAGTTTCAGGGTTAAAAATGGAAA
1 TTTTGAAAGTTTCAGGG-TAAAAATGGAAT
* *
99134 TTTTGGAAG-TTCGGGGGTAAAAAT
1 TTTTGAAAGTTTC-AGGGTAAAAAT
99158 ATAATTTGGA
Statistics
Matches: 138, Mismatches: 18, Indels: 27
0.75 0.10 0.15
Matches are distributed among these distances:
27 1 0.01
28 24 0.17
29 76 0.55
30 37 0.27
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.33
Consensus pattern (29 bp):
TTTTGAAAGTTTCAGGGTAAAAATGGAAT
Found at i:100161 original size:18 final size:19
Alignment explanation
Indices: 100136--100190 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
100126 TCCTTTATTT
*
100136 ATTTATTATTATTAATAAT
1 ATTTATTATTATTAATAAC
*
100155 A-TTATTATTATTATCAAAAC
1 ATTTATTATTATTA--ATAAC
100175 ATTTATTATTATTAAT
1 ATTTATTATTATTAAT
100191 GAAATATTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.40
19 2 0.07
20 4 0.13
21 12 0.40
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTATTATTATTAATAAC
Found at i:100164 original size:21 final size:21
Alignment explanation
Indices: 100138--100188 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
100128 CTTTATTTAT
* *
100138 TTATTATTATTAATA-ATATTA
1 TTATTATTATCAAAACAT-TTA
100159 TTATTATTATCAAAACATTTA
1 TTATTATTATCAAAACATTTA
100180 TTATTATTA
1 TTATTATTA
100189 ATGAAATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATTATTATCAAAACATTTA
Found at i:100960 original size:6 final size:6
Alignment explanation
Indices: 100951--101014 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
100941 TTTTTTAATT
* *
100951 TTAAAA TTAAAA TTAAAA TT-AAA TTAAAT TTAAAT TTAAAA -T-AAA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA
*
100996 TCTAAAT TTAAAA TTAAAA
1 T-TAAAA TTAAAA TTAAAA
101015 AGGGGCCCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
4 3 0.06
5 6 0.12
6 38 0.76
7 3 0.06
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (6 bp):
TTAAAA
Found at i:100976 original size:17 final size:17
Alignment explanation
Indices: 100945--101013 Score: 79
Period size: 17 Copynumber: 4.0 Consensus size: 17
100935 TTGAACTTTT
*
100945 TTAATTTTAAAATTAAAA
1 TTAAATTTAAAATT-AAA
*
100963 TTAAAATT-AAATTAAA
1 TTAAATTTAAAATTAAA
100979 TTTAAATTTAAAA-TAAA
1 -TTAAATTTAAAATTAAA
100996 TCTAAATTTAAAATTAAA
1 T-TAAATTTAAAATTAAA
101014 AAGGGGCCCG
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
16 4 0.09
17 27 0.61
18 13 0.30
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATTAAA
Found at i:100977 original size:23 final size:22
Alignment explanation
Indices: 100951--101014 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
100941 TTTTTTAATT
*
100951 TTAAAATTAAAATTAAAATTAAA
1 TTAAATTTAAAATTAAAA-TAAA
*
100974 TTAAATTTAAATTTAAAATAAA
1 TTAAATTTAAAATTAAAATAAA
100996 TCTAAATTTAAAATTAAAA
1 T-TAAATTTAAAATTAAAA
101015 AGGGGCCCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTAAATTTAAAATTAAAATAAA
Found at i:101713 original size:205 final size:205
Alignment explanation
Indices: 101437--101978 Score: 748
Period size: 205 Copynumber: 2.6 Consensus size: 205
101427 TTTCACTAGA
* * *
101437 AAGCTAACCGTTTTATTACTTCGACTTGCTTCT-CAGTGTCTCATCAGGAAGCTGGGGTTTGAAG
1 AAGCTAACC-CTTTATTACTTC-ACTTGCTTCTCCA-TATCTCATCAGGAAGCTGGGGTTCGAAG
* *
101501 ATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATTAGGAAGATGACT
63 ATTTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACT
*
101566 GCGTCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAA-TTTGTTCCACTTCTC-
128 GCATCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTG-TCCACTTCTCA
*
101629 AGTATCTCATCAGG
192 ACTATCTCATCAGG
* * *
101643 AAGCTATCCCTTTATTACTTCACTTTGCTTCTCCATATCTCATCAAGAAGCTGGGGTTCGAGGAT
1 AAGCTAACCCTTTATTACTTCAC-TTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGAT
* * *
101708 TTGCTCACATCGGGCGTGAGTTTGATTTGGTCTTCTTCTTAGTATCTCATCAAGAAGATGACTGC
65 TTGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGC
* *
101773 ATCGTTTGTTTCAATTCGCTTCTCTGTATCTCATCAGGAAGGCGAATTTTGTCCACTTCTCAACT
130 ATCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTGTCCACTTCTCAACT
101838 ATCTCATCAGG
195 ATCTCATCAGG
* * * *
101849 AAGCTAACCTTTTATTGCTTCACACTGCTTCTCTATATCTCATCAGGAAGCTGGGGTTCGAAGAT
1 AAGCTAACCCTTTATTACTTCAC-TTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGAT
* * ** * * *
101914 TTGCTCACTTTGAGCGTCGTTTCATTGACTTGGTTTTCTTCTCAGTATCTCATCAGAAAGATGAC
65 TTGCTCACATCGAGCGT-GAGT--TTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGAC
101979 CGTATCGCTG
Statistics
Matches: 296, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
204 2 0.01
205 158 0.53
206 98 0.33
207 2 0.01
209 36 0.12
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (205 bp):
AAGCTAACCCTTTATTACTTCACTTGCTTCTCCATATCTCATCAGGAAGCTGGGGTTCGAAGATT
TGCTCACATCGAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAAGATGACTGCA
TCGTTTGTTTCAATTCACTTCTCTGTATCTCATCAGGAAGACGAATTTTGTCCACTTCTCAACTA
TCTCATCAGG
Found at i:112867 original size:58 final size:58
Alignment explanation
Indices: 112805--113101 Score: 173
Period size: 58 Copynumber: 5.1 Consensus size: 58
112795 AAAAGGGTAA
* * *
112805 TTTTGAGAGTTTCGAAGTCGAAAAGGGA-GA-TTTTGGAGGTTAAGGGTAAAAATGGATT
1 TTTTGAGAGTTTCGAAGTC-AAAA-AGATGATTTTTGGAAGTTAAGGGTAAAAATGGAAT
* ** * *
112863 TTTTG-GAAGTTTTGGCGTCAAAAATATGATTTTTGGAAGTTCAGGGTAAAAATGGAAT
1 TTTTGAG-AGTTTCGAAGTCAAAAAGATGATTTTTGGAAGTTAAGGGTAAAAATGGAAT
* * * * * **
112921 TTTTGAAAGTTT-TAGGGTCAAAAATG-GGAATTTTGGAAGTTCGGGGGTAAAAATGGAAT
1 TTTTGAGAGTTTCGA-AGTCAAAAA-GATGATTTTTGGAAGTT-AAGGGTAAAAATGGAAT
* * ** * * * *
112980 TTTT-AGAATTTTTGGGGTTAAAAATGA-AATTTTTGGAAGTTTAGGGGT-AAAATAGAAT
1 TTTTGAG-AGTTTCGAAGTCAAAAA-GATGATTTTTGGAAG-TTAAGGGTAAAAATGGAAT
* * * *
113038 TTTTGAAAGTTTCGAGGT-TAAAA-ATGGAATTTTTGGAAGTTCGAGGGTAAAAATGGAAT
1 TTTTGAGAGTTTCGAAGTCAAAAAGAT-G-ATTTTTGGAAGTT-AAGGGTAAAAATGGAAT
113097 TTTTG
1 TTTTG
113102 GAAGGTCTAG
Statistics
Matches: 187, Mismatches: 35, Indels: 33
0.73 0.14 0.13
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 13 0.07
58 107 0.57
59 63 0.34
60 2 0.01
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (58 bp):
TTTTGAGAGTTTCGAAGTCAAAAAGATGATTTTTGGAAGTTAAGGGTAAAAATGGAAT
Found at i:113003 original size:117 final size:117
Alignment explanation
Indices: 112847--113105 Score: 346
Period size: 117 Copynumber: 2.2 Consensus size: 117
112837 TTGGAGGTTA
* * *
112847 AGGGTAAAAATGGATTTTTTGGAAGTTTTGGCGTCAAAAAT-ATGATTTTTGGAAGTTCA-GGGT
1 AGGGTAAAAATGGAATTTTTAGAAGTTTTGGCGTCAAAAATGA-AATTTTTGGAAGTTCAGGGGT
*
112910 AAAAATGGAATTTTTGAAAGTTTTAG-GGTCAAAAATGGGAA-TTTTGGAAGTTCG
65 -AAAATAGAATTTTTGAAAG-TTTAGAGGTCAAAAAT-GGAATTTTTGGAAGTTCG
* * * * *
112964 GGGGTAAAAATGGAATTTTTAGAATTTTTGGGGTTAAAAATGAAATTTTTGGAAGTTTAGGGGTA
1 AGGGTAAAAATGGAATTTTTAGAAGTTTTGGCGTCAAAAATGAAATTTTTGGAAGTTCAGGGGTA
* *
113029 AAATAGAATTTTTGAAAGTTTCGAGGTTAAAAATGGAATTTTTGGAAGTTCG
66 AAATAGAATTTTTGAAAGTTTAGAGGTCAAAAATGGAATTTTTGGAAGTTCG
*
113081 AGGGTAAAAATGGAATTTTTGGAAG
1 AGGGTAAAAATGGAATTTTTAGAAG
113106 GTCTAGGGAC
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
116 8 0.06
117 111 0.90
118 5 0.04
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (117 bp):
AGGGTAAAAATGGAATTTTTAGAAGTTTTGGCGTCAAAAATGAAATTTTTGGAAGTTCAGGGGTA
AAATAGAATTTTTGAAAGTTTAGAGGTCAAAAATGGAATTTTTGGAAGTTCG
Found at i:113113 original size:29 final size:29
Alignment explanation
Indices: 112847--113113 Score: 258
Period size: 30 Copynumber: 9.1 Consensus size: 29
112837 TTGGAGGTTA
*
112847 AGGGTAAAAATGGATTTTTTGGAAGTT-T
1 AGGGTAAAAATGGAATTTTTGGAAGTTCT
* *
112875 TGGCGTCAAAAATATG-ATTTTTGGAAGTTC-
1 AGG-GT-AAAAAT-GGAATTTTTGGAAGTTCT
* *
112905 AGGGTAAAAATGGAATTTTTGAAAGTTTT
1 AGGGTAAAAATGGAATTTTTGGAAGTTCT
*
112934 AGGGTCAAAAATGGGAA-TTTTGGAAGTTCG
1 AGGGT-AAAAAT-GGAATTTTTGGAAGTTCT
* * * *
112964 GGGGTAAAAATGGAATTTTTAGAATTTTT
1 AGGGTAAAAATGGAATTTTTGGAAGTTCT
* *
112993 GGGGTTAAAAATGAAATTTTTGGAAGTT-T
1 AGGG-TAAAAATGGAATTTTTGGAAGTTCT
* * *
113022 AGGGGT-AAAATAGAATTTTTGAAAGTTTCG
1 A-GGGTAAAAATGGAATTTTTGGAAG-TTCT
* *
113052 AGGTTAAAAATGGAATTTTTGGAAGTTCG
1 AGGGTAAAAATGGAATTTTTGGAAGTTCT
*
113081 AGGGTAAAAATGGAATTTTTGGAAGGTCT
1 AGGGTAAAAATGGAATTTTTGGAAGTTCT
113110 AGGG
1 AGGG
113114 ACCTTCAGGG
Statistics
Matches: 196, Mismatches: 29, Indels: 27
0.78 0.12 0.11
Matches are distributed among these distances:
27 1 0.01
28 40 0.20
29 69 0.35
30 81 0.41
31 5 0.03
ACGTcount: A:0.34, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
AGGGTAAAAATGGAATTTTTGGAAGTTCT
Found at i:113940 original size:18 final size:18
Alignment explanation
Indices: 113917--114047 Score: 69
Period size: 18 Copynumber: 7.3 Consensus size: 18
113907 TTTTATTTAT
113917 TTATTATTATTAATAATA
1 TTATTATTATTAATAATA
* *
113935 TTATTATTATTATCAAAACA
1 TTATTATTATTA--ATAATA
113955 TTTATTATTATTAATGAATA
1 -TTATTATTATTAAT-AATA
*
113975 TTA--A-GA--AA-AACT-
1 TTATTATTATTAATAA-TA
*
113987 TTATTTATTATTAATGATA
1 TTA-TTATTATTAATAATA
* * * *
114006 TCATTAATATTATTATTA
1 TTATTATTATTAATAATA
* *
114024 TTATTATTATTATTATTA
1 TTATTATTATTAATAATA
114042 TTATTA
1 TTATTA
114048 AAACAGTTAT
Statistics
Matches: 86, Mismatches: 14, Indels: 26
0.68 0.11 0.21
Matches are distributed among these distances:
12 5 0.06
13 1 0.01
14 2 0.02
15 1 0.01
16 2 0.02
17 1 0.01
18 48 0.56
19 7 0.08
20 7 0.08
21 12 0.14
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.53
Consensus pattern (18 bp):
TTATTATTATTAATAATA
Found at i:113943 original size:21 final size:21
Alignment explanation
Indices: 113917--113977 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
113907 TTTTATTTAT
113917 TTATTATTATTAATAATATTA
1 TTATTATTATTAATAATATTA
* *
113938 TTATTATTATCAA-AACA-T-
1 TTATTATTATTAATAATATTA
113956 TTATTATTATTAATGAATATTA
1 TTATTATTATTAAT-AATATTA
113978 AGAAAAACTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
18 12 0.38
19 1 0.03
20 6 0.19
21 13 0.41
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (21 bp):
TTATTATTATTAATAATATTA
Found at i:113990 original size:31 final size:35
Alignment explanation
Indices: 113949--114012 Score: 100
Period size: 32 Copynumber: 1.9 Consensus size: 35
113939 TATTATTATC
113949 AAAACATTTA-TTATTATTAATGA-AT-ATTAAGA
1 AAAACATTTATTTATTATTAATGATATCATTAAGA
113981 AAAAC-TTTATTTATTATTAATGATATCATTAA
1 AAAACATTTATTTATTATTAATGATATCATTAA
114013 TATTATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 4 0.14
32 18 0.62
33 2 0.07
34 5 0.17
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (35 bp):
AAAACATTTATTTATTATTAATGATATCATTAAGA
Found at i:114020 original size:9 final size:9
Alignment explanation
Indices: 113992--114069 Score: 66
Period size: 9 Copynumber: 8.0 Consensus size: 9
113982 AAACTTTATT
113992 TATTATTAA
1 TATTATTAA
114001 TGATATCATTAA
1 T-AT-T-ATTAA
*
114013 TATTATTAT
1 TATTATTAA
*
114022 TATTATTAT
1 TATTATTAA
*
114031 TATTATTAT
1 TATTATTAA
114040 TATTATTAAAA
1 TATTATT--AA
*
114051 CAGTTATTAA
1 TA-TTATTAA
114061 TATTATTAA
1 TATTATTAA
114070 GAATTATTGA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
9 37 0.63
10 6 0.10
11 5 0.08
12 11 0.19
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (9 bp):
TATTATTAA
Found at i:114021 original size:3 final size:3
Alignment explanation
Indices: 114008--114047 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
113998 TAATGATATC
*
114008 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
114048 AAACAGTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:114023 original size:12 final size:12
Alignment explanation
Indices: 113991--114068 Score: 79
Period size: 12 Copynumber: 6.5 Consensus size: 12
113981 AAAACTTTAT
113991 TTATTATTAATGA
1 TTATTATTAAT-A
*
114004 -TATCATTAATA
1 TTATTATTAATA
*
114015 TTATTATTATTA
1 TTATTATTAATA
*
114027 TTATTATTATTA
1 TTATTATTAATA
114039 TTATTATTAA-A
1 TTATTATTAATA
**
114050 ACAGTTATTAATA
1 TTA-TTATTAATA
114063 TTATTA
1 TTATTA
114069 AGAATTATTG
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
11 3 0.06
12 49 0.91
13 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (12 bp):
TTATTATTAATA
Found at i:114762 original size:17 final size:17
Alignment explanation
Indices: 114724--114792 Score: 84
Period size: 17 Copynumber: 4.0 Consensus size: 17
114714 TTTGAACTTT
*
114724 TTTAATTTTAAAATTAAA
1 TTTAAATTTAAAATT-AA
*
114742 TTTAAATTTAAGATTAA
1 TTTAAATTTAAAATTAA
*
114759 TTTAAATTTAAAATAAA
1 TTTAAATTTAAAATTAA
* *
114776 TCTAAATTAAAAATTAA
1 TTTAAATTTAAAATTAA
114793 AAAGGGGCTC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
17 31 0.70
18 13 0.30
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATTAA
Found at i:114768 original size:6 final size:6
Alignment explanation
Indices: 114724--114793 Score: 56
Period size: 6 Copynumber: 12.0 Consensus size: 6
114714 TTTGAACTTT
* *
114724 TTTAAT TTTAAA ATTAAA TTTAAA TTTAAGA -TT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA
* * * *
114771 -ATAAA TCTAAA TTAAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
114794 AAGGGGCTCG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
4 1 0.02
5 7 0.14
6 42 0.82
7 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:114775 original size:11 final size:11
Alignment explanation
Indices: 114734--114786 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
114724 TTTAATTTTA
114734 AAATTAAATTT
1 AAATTAAATTT
114745 AAATTTAAGA-TT
1 AAA-TTAA-ATTT
*
114757 AATTTAAATTT
1 AAATTAAATTT
* *
114768 AAAATAAATCT
1 AAATTAAATTT
114779 AAATTAAA
1 AAATTAAA
114787 AATTAAAAAG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 1 0.03
11 24 0.71
12 8 0.24
13 1 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
AAATTAAATTT
Found at i:115251 original size:30 final size:30
Alignment explanation
Indices: 115201--115261 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 30
115191 TGCATGGTTG
* *
115201 AAATTAAAAAAATGTGTAAAAGAATTTTAA
1 AAATTAAAAAAATGTGTAAAAAAATTATAA
115231 AAATATAAAAAGAAT-T-TAAAAAAATTATAA
1 AAAT-TAAAAA-AATGTGTAAAAAAATTATAA
115261 A
1 A
115262 TTATTGGAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 17 0.63
31 7 0.26
32 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (30 bp):
AAATTAAAAAAATGTGTAAAAAAATTATAA
Found at i:116259 original size:13 final size:13
Alignment explanation
Indices: 116243--116272 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
116233 TCAGTTATTA
116243 TATTATTATCATT
1 TATTATTATCATT
*
116256 TATTATTTTCATT
1 TATTATTATCATT
116269 TATT
1 TATT
116273 TCGAAAACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTATCATT
Found at i:117250 original size:30 final size:30
Alignment explanation
Indices: 117210--117590 Score: 343
Period size: 30 Copynumber: 12.7 Consensus size: 30
117200 CCCCGTTTTG
* *
117210 TTCCAAAATTATATTTTGACCCTTAAACTT
1 TTCCAAAATTACATTTTAACCCTTAAACTT
* * **
117240 TTCTAAAATTACATTTTGACCCCCAAA-TT
1 TTCCAAAATTACATTTTAACCCTTAAACTT
* *
117269 TCTCCAAAATCACATTTTGACCCTTAAACTT
1 T-TCCAAAATTACATTTTAACCCTTAAACTT
*
117300 TTCCAAAATTACATTTTAACACTTAAACTT
1 TTCCAAAATTACATTTTAACCCTTAAACTT
* *
117330 TTCCAAAATCACATTTTAACCCCTAAACTT
1 TTCCAAAATTACATTTTAACCCTTAAACTT
*
117360 CTCCAAAATTACATTTTAACCCTTAAAC-T
1 TTCCAAAATTACATTTTAACCCTTAAACTT
* * * **
117389 TTCTTATAATCACATTTTAACCC--AATTTTTT
1 TTC-CAAAATTACATTTTAACCCTTAA--ACTT
117420 TTCCAAAATTACATTTTAACTCC-TAAACTT
1 TTCCAAAATTACATTTTAAC-CCTTAAACTT
*
117450 TTCCAAAATTACATTTTGACCCTTAAACTT
1 TTCCAAAATTACATTTTAACCCTTAAACTT
* * *
117480 CTCTAAAATCACATTTTAA-CCTCTAAACCTCT
1 TTCCAAAATTACATTTTAACCCT-TAAA-CT-T
* *
117512 CTT-CAAAATCATATTTTAACCC--AAAC-T
1 -TTCCAAAATTACATTTTAACCCTTAAACTT
* * *
117539 TTCTTAAAATAACATTATT-AGCCTTAAACTT
1 TTC-CAAAATTACATT-TTAACCCTTAAACTT
*
117570 TTCCAAAATTACGTTTTAACC
1 TTCCAAAATTACATTTTAACC
117591 TCGAATTCTC
Statistics
Matches: 286, Mismatches: 44, Indels: 42
0.77 0.12 0.11
Matches are distributed among these distances:
26 2 0.01
27 1 0.00
28 14 0.05
29 16 0.06
30 218 0.76
31 15 0.05
32 17 0.06
33 3 0.01
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (30 bp):
TTCCAAAATTACATTTTAACCCTTAAACTT
Found at i:117363 original size:90 final size:89
Alignment explanation
Indices: 117210--117591 Score: 382
Period size: 90 Copynumber: 4.2 Consensus size: 89
117200 CCCCGTTTTG
* * * * * * *
117210 TTCCAAAATTATATTTTGACCCTTAAACTTTTCTAAAATTACATTTTGACCCCCAAATTTCTCCA
1 TTCCAAAATTACATTTT-AACCTTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTCTCCA
*
117275 AAATCACATTTTGACCCTTAAACTT
65 AAATTACATTTTGACCCTTAAACTT
117300 TTCCAAAATTACATTTTAACACTTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTCTCCA
1 TTCCAAAATTACATTTTAAC-CTTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTCTCCA
*
117365 AAATTACATTTTAACCCTTAAAC-T
65 AAATTACATTTTGACCCTTAAACTT
* * * * ** * * *
117389 TTCTTATAATCACATTTTAACC-CAATTTTTTTTCCAAAATTACATTTTAACTCCTAAACTTTTC
1 TTC-CAAAATTACATTTTAACCTTAA--ACTTTTCCAAAATCACATTTTAACCCCTAAACTTCTC
117453 CAAAATTACATTTTGACCCTTAAACTT
63 CAAAATTACATTTTGACCCTTAAACTT
* * * *
117480 CTCTAAAATCACATTTTAACCTCTAAACCTCTCTT-CAAAATCATATTTTAA-CCC-AAACTT-T
1 TTCCAAAATTACATTTTAACCT-TAAA-CT-T-TTCCAAAATCACATTTTAACCCCTAAACTTCT
* * *
117541 CTTAAAATAACATTATT-AGCCTTAAACTT
62 C-CAAAATTACATT-TTGACCCTTAAACTT
*
117570 TTCCAAAATTACGTTTTAACCT
1 TTCCAAAATTACATTTTAACCT
117592 CGAATTCTCC
Statistics
Matches: 246, Mismatches: 34, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
88 2 0.01
89 9 0.04
90 208 0.85
91 8 0.03
92 17 0.07
93 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (89 bp):
TTCCAAAATTACATTTTAACCTTAAACTTTTCCAAAATCACATTTTAACCCCTAAACTTCTCCAA
AATTACATTTTGACCCTTAAACTT
Found at i:125979 original size:99 final size:99
Alignment explanation
Indices: 125869--126104 Score: 239
Period size: 99 Copynumber: 2.4 Consensus size: 99
125859 ATGAACCCTG
* * *
125869 TACCATGAAGATTTGAAGGGAAGGATTGAGGCTGTGACGGCGAA-TCTAGTACCAT-GAAGATTT
1 TACCATAAAGATTTGAAGGGAAGGATTGAGGCTGCGACGGCGAATTC-AGTACCATCGAAGATGT
* * * *
125932 GAA-GG-GAAGGATTGAGGCCGCGATGGAAAATTCGA
65 -AATGGAAAAGG-TTGAGGCCGCAACGGAAAACTCGA
* * * * * *
125967 TACCTTAAAAGATGTT-ATGGGAAAGATTGAGGCCGCGACGGCGAATTCGGTACCTTCGAAGATG
1 TACCAT-AAAGAT-TTGAAGGGAAGGATTGAGGCTGCGACGGCGAATTCAGTACCATCGAAGATG
* *
126031 TAATGGAAAAGGTTGAGGCCGCAACGGCAAACTCGG
64 TAATGGAAAAGGTTGAGGCCGCAACGGAAAACTCGA
* *
126067 TACCATGAAGATTTGAAGGGAAGGATTAAGGCTGCGAC
1 TACCATAAAGATTTGAAGGGAAGGATTGAGGCTGCGAC
126105 AGTAAACCCG
Statistics
Matches: 110, Mismatches: 21, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
98 7 0.06
99 62 0.56
100 37 0.34
101 4 0.04
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (99 bp):
TACCATAAAGATTTGAAGGGAAGGATTGAGGCTGCGACGGCGAATTCAGTACCATCGAAGATGTA
ATGGAAAAGGTTGAGGCCGCAACGGAAAACTCGA
Found at i:126020 original size:148 final size:146
Alignment explanation
Indices: 125783--126796 Score: 599
Period size: 148 Copynumber: 6.8 Consensus size: 146
125773 CCTGGAGACA
** * * * * * ** *
125783 TGAAGGGAAAAATTGAGGCCGCAACGGCAAACCCGGTACCTTAGAAGATGTGATACGAGAGGTTG
1 TGAAGGGAAGGATTGAGGCCGCGA-TGAAAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTG
* * * * * * **
125848 AGG-TAGCAATGATGAACCCTGTACCATGAAGATTTGAAGGGAAGGATTGAGGCTGTGACGGCGA
65 AGGCT-GCAACGACGAACCCGGTACCATGAAGATATGAAGGAAAGG-TTGAGGCCGCAACGGCGA
*
125912 A-TCTAGTACCATGAAGATT
128 ACTC-GGTACCATGAAGATT
* * * *
125931 TGAAGGGAAGGATTGAGGCCGCGATGGAAAATTCGATACCTTAAAAGATGTTATGGGAAAGATTG
1 TGAAGGGAAGGATTGAGGCCGCGAT-GAAAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTG
* * * ** * * *
125996 AGGCCGCGACGGCGAATTCGGTACCTTCGAAGATGT-AATGGAAAAGGTTGAGGCCGCAACGGCA
65 AGGCTGCAACGACGAACCCGGTACCAT-GAAGATATGAA-GG-AAAGGTTGAGGCCGCAACGGCG
126060 AACTCGGTACCATGAAGATT
127 AACTCGGTACCATGAAGATT
* * * * *
126080 TGAAGGGAAGGATTAAGGCTGCGACAGTAAACCCGGTACCTTAAAAGATGTGATGGGAAAGGTTG
1 TGAAGGGAAGGATTGAGGCCGCGA-TGAAAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTG
* * * *
126145 AGGCTGCAACGACTAACCCGGTGCCATGAAGATACGAAAGGAAAGGTTGAGGCCGCAACGGTGAA
65 AGGCTGCAACGACGAACCCGGTACCATGAAGATATG-AAGGAAAGGTTGAGGCCGCAACGGCGAA
126210 CTCGGTACCATGAAGATT
129 CTCGGTACCATGAAGATT
* ** * * *
126228 TAAAGGGAAGGATTGAGGCCGTAATGATGAATCCGGTACCTTAGAAGATGTGATGGGAAAGGTTT
1 TGAAGGGAAGGATTGAGGCCGCGATGA-AAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTG
* * * ** *
126293 AGGCTACAACGATGAACCCGATACCATGAAGATATGAAAGG-AAGGATTGAGGCCATAACGACGA
65 AGGCTGCAACGACGAACCCGGTACCATGAAGATATG-AAGGAAAGG-TTGAGGCCGCAACGGCGA
* *
126357 A-TCCGGTACCTTAGAAGATG
128 ACT-CGGTACCAT-GAAGATT
* * * * * * * ** * *
126377 TGATGGGAAAGG-TTGAGGCTGCAACGATGAACCCGATACC--ATGAGATATGAAGGGAAAGGTT
1 TGAAGGG-AAGGATTGAGGCCGCGATGA-AAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTT
* * * * * * * * *
126439 GAGGCCGCAACGACAAACCTGGCACCTTAAAAGATGTAATAGGAAAGGTTGAGGCCGCAACAGCG
64 GAGGCTGCAACGACGAACCCGGTACCAT-GAAGATATGA-AGGAAAGGTTGAGGCCGCAACGGCG
* * *
126504 AACCCGATACCATGAAGATA
127 AACTCGGTACCATGAAGATT
* * * * * * *
126524 CGAATGGAAAGG-TTGAAGGCGCAACGGTG--AACCCGGTACC-TAAGAAAATGTGATAGGAAAG
1 TGAA-GGGAAGGATTG-AGGC-C-GCGATGAAAATCCGGTACCTTAA-AAGATGTGATGGGAAAG
* * * * * * *
126585 GTTAAGGCCGCAACG--GTAAACCAGTACCACGAAGATATGAAGGGAAAGGTTGAGACCACAACG
61 GTTGAGGCTGCAACGACG-AACCCGGTACCATGAAGATATGAA-GGAAAGGTTGAGGCCGCAACG
* * * ** *
126648 GTGAACCCGATACCTAAAAAGATG
124 GCGAACTCGGTACC-ATGAAGATT
* * * * * * *
126672 TGAAGGAAAAGG-TTGAGGCCGTAACGGTG-AACT-CGATACC--ACAGAGATATGAAGGGAAAG
1 TGAAGG-GAAGGATTGAGGCCG---CGATGAAAATCCGGTACCTTA-AAAGATGTGATGGGAAAG
* * * * * *
126732 GTTGAGGCTGCAACGGCAAACCTGGTACCTTAGAAGATGTGAAGGGGAAGGTTGAGGCCGCAACG
61 GTTGAGGCTGCAACGACGAACCCGGTACCAT-GAAGATATGAA-GGAAAGGTTGAGGCCGCAACG
126797 AGTAATCTAA
Statistics
Matches: 670, Mismatches: 160, Indels: 71
0.74 0.18 0.08
Matches are distributed among these distances:
146 2 0.00
147 139 0.21
148 307 0.46
149 208 0.31
150 14 0.02
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.18
Consensus pattern (146 bp):
TGAAGGGAAGGATTGAGGCCGCGATGAAAATCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGA
GGCTGCAACGACGAACCCGGTACCATGAAGATATGAAGGAAAGGTTGAGGCCGCAACGGCGAACT
CGGTACCATGAAGATT
Found at i:126275 original size:99 final size:99
Alignment explanation
Indices: 125967--126796 Score: 607
Period size: 99 Copynumber: 8.4 Consensus size: 99
125957 GAAAATTCGA
* * ** * * * ** * * *
125967 TACCTTAAAAGATGTTATGGGAAAGATTGAGGCCGCGACGGCGAATTCGGTACCTTCGAAGATGT
1 TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGATAT
* *
126032 AATGGAAAAGGTTGAGGCCGCAACG--GCAAACTCGG
65 AAAGGGAAAGGTTGAGGCCGCAACGATG-AAAC-CGG
* * * * * * * * * * * *
126067 TACCAT-GAAGATTTG-AAGGGAAGGATTAAGGCTGCGACAGTAAACCCGGTACCTTAAAAGATG
1 TACCTTAGAAGATGTGAAAGGAAAGG-TTGAGGCCGCAACGGTGAACCCGATACCAT-GAAGATA
* * * *
126130 TGATGGGAAAGGTTGAGGCTGCAACGACT-AACCCGG
64 TAAAGGGAAAGGTTGAGGCCGCAACGA-TGAAACCGG
* * ** * * *
126166 TGCCAT-GAAGATACGAAAGGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCATGAAGATTTA
1 TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATA
* * *
126230 AAGGG-AAGGATTGAGGCCGTAATGATGAATCCGG
66 AAGGGAAAGG-TTGAGGCCGCAACGATGAAACCGG
** * ** *
126264 TACCTTAGAAGATGTGATGGGAAAGGTTTAGGCTACAACGATGAACCCGATACCATGAAGATATG
1 TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATAT-
** * *
126329 AAA-GG-AAGGATTGAGGCCATAACGACGAATCCGG
65 AAAGGGAAAGG-TTGAGGCCGCAACGATGAAACCGG
** * * *
126363 TACCTTAGAAGATGTGATGGGAAAGGTTGAGGCTGCAACGATGAACCCGATACCATG-AGATATG
1 TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATA
*
126427 AAGGGAAAGGTTGAGGCCGCAACGA-CAAACCTGG
66 AAGGGAAAGGTTGAGGCCGCAACGATGAAACC-GG
* * * * *
126461 CACCTTAAAAGATGT-AATAGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCATGAAGATAC
1 TACCTTAGAAGATGTGAA-AGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATAT
* * * *
126525 GAATGGAAAGGTTGAAGG-CGCAACGGTGAACCCGG
65 AAAGGGAAAGGTTG-AGGCCGCAACGATGAAACCGG
* * * * * * * *
126560 TACCTAAGAAAATGTGATAGGAAAGGTTAAGGCCGCAACGGTAAACCAG-TACCACGAAGATATG
1 TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATA
* * * * *
126624 AAGGGAAAGGTTGAGACCACAACGGTGAACCCGA
66 AAGGGAAAGGTTGAGGCCGCAACGATGAAACCGG
* * * * *
126658 TACCTAAAAAGATGTG-AAGGAAAAGGTTGAGGCCGTAACGGTGAACTCGATACCA-CAGAGATA
1 TACCTTAGAAGATGTGAAAGG-AAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGA-AGATA
* *
126721 TGAAGGGAAAGGTTGAGGCTGCAACG--GCAAACCTGG
64 TAAAGGGAAAGGTTGAGGCCGCAACGATG-AAACC-GG
* *
126757 TACCTTAGAAGATGTGAAGGGGAAGGTTGAGGCCGCAACG
1 TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACG
126797 AGTAATCTAA
Statistics
Matches: 595, Mismatches: 111, Indels: 49
0.79 0.15 0.06
Matches are distributed among these distances:
97 18 0.03
98 189 0.32
99 358 0.60
100 30 0.05
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (99 bp):
TACCTTAGAAGATGTGAAAGGAAAGGTTGAGGCCGCAACGGTGAACCCGATACCATGAAGATATA
AAGGGAAAGGTTGAGGCCGCAACGATGAAACCGG
Found at i:126443 original size:197 final size:195
Alignment explanation
Indices: 126184--126797 Score: 639
Period size: 197 Copynumber: 3.1 Consensus size: 195
126174 AGATACGAAA
* * * *
126184 GGAAAGGTTGAGGCCGCAACGGTGAACTCGGTACCATGAAGATTTAAAGGG-AAGGATTGAGGCC
1 GGAAAGGTTGAGGCCGCAACGATGAAC-CCGTACCATGAAGATATGAAGGGAAAGG-TTGAGGCC
* * * * * **
126248 GTAATGATGAATCCGGTACCTTAGAAGATGTGATGGGAAAGGTTTAGGCTACAACGATGAACCCG
64 GCAACGATGAAACCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGATGAACCCG
* *
126313 ATACCATGAAGATATGAAAGG-AAGGATTGAGGCCATAACGACGAATCCGGTACCTTAGAAGATG
129 ATACCATGAAGATATGAAAGGAAAGG-TTGAGGCC--AACGGCGAAACCGGTACCTTAGAAGATG
126377 TGATG
191 TGATG
*
126382 GGAAAGGTTGAGGCTGCAACGATGAACCCGATACCATG-AGATATGAAGGGAAAGGTTGAGGCCG
1 GGAAAGGTTGAGGCCGCAACGATGAACCCG-TACCATGAAGATATGAAGGGAAAGGTTGAGGCCG
* * * * *
126446 CAACGA-CAAACCTGGCACCTTAAAAGATGTAATAGGAAAGGTTGAGGCCGCAAC-AGCGAACCC
65 CAACGATGAAACC-GGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGA-TGAACCC
* * * * * *
126509 GATACCATGAAGATACGAATGGAAAGGTTGAAGGCGCAACGGTGAACCCGGTACCTAAGAAAATG
128 GATACCATGAAGATATGAAAGGAAAGGTTG-AGGC-CAACGGCGAAACCGGTACCTTAGAAGATG
*
126574 TGATA
191 TGATG
* * * * * * *
126579 GGAAAGGTTAAGGCCGCAACGGTAAACCAGTACCACGAAGATATGAAGGGAAAGGTTGAGACCAC
1 GGAAAGGTTGAGGCCGCAACGATGAACCCGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGC
* * * * * * * * *
126644 AACGGTGAACCCGATACCTAAAAAGATGTGAAGGAAAAGGTTGAGGCCGTAACGGTGAACTCGAT
66 AACGATGAAACCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGATGAACCCGAT
* *
126709 ACCA-CAGAGATATGAAGGGAAAGGTTGAGGCTGCAACGGC-AAACCTGGTACCTTAGAAGATGT
131 ACCATGA-AGATATGAAAGGAAAGGTTGAGGC--CAACGGCGAAACC-GGTACCTTAGAAGATGT
*
126772 GAAG
192 GATG
*
126776 GGGAAGGTTGAGGCCGCAACGA
1 GGAAAGGTTGAGGCCGCAACGA
126798 GTAATCTAAC
Statistics
Matches: 344, Mismatches: 59, Indels: 27
0.80 0.14 0.06
Matches are distributed among these distances:
196 20 0.06
197 275 0.80
198 48 0.14
199 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (195 bp):
GGAAAGGTTGAGGCCGCAACGATGAACCCGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGC
AACGATGAAACCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCCGCAACGATGAACCCGAT
ACCATGAAGATATGAAAGGAAAGGTTGAGGCCAACGGCGAAACCGGTACCTTAGAAGATGTGATG
Found at i:126493 original size:247 final size:247
Alignment explanation
Indices: 125968--126499 Score: 610
Period size: 247 Copynumber: 2.2 Consensus size: 247
125958 AAAATTCGAT
* * * * * * *
125968 ACCTTAAAAGATGTTATGGGAAAGATTGAGGCCGCGACGGCGAATTCGGTACCTTCGAAGATGTA
1 ACCTTAAAAGATGTAATAGGAAAGGTTGAGGCCGCAACGACGAATCCGGTACCTTAGAAGATGTA
* * * * * *
126033 ATGGAAAAGGTTGAGGCCGCAACGGCAAACTCGGTACCATGAAGATTTGAAGGGAAGGATTAAGG
66 ATGGAAAAGGTTGAGGCCACAACGACAAACCCGATACCATGAAGATATGAAAGGAAGGATTAAGG
*
126098 CTGCGACAGTAAACCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGACTAACC
131 CTACGACAG-AAACCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGACTAACC
* * *** *
126163 CGGTGCCATGAAGATACGAAAGGAAAGGTTGAGGCCGCAACGGTGAACTCGGT
195 CGATACCATGAAGATACGAAAGGAAAGGTTGAGGCCGCAACGACAAACTCGGC
* * * * * * *
126216 ACCAT-GAAGATTTAA-AGGGAAGGATTGAGGCCGTAATGATGAATCCGGTACCTTAGAAGATGT
1 ACCTTAAAAGATGTAATAGGAAAGG-TTGAGGCCGCAACGACGAATCCGGTACCTTAGAAGATGT
* * * * ** *
126279 GATGGGAAAGGTTTAGGCTACAACGATGAACCCGATACCATGAAGATATGAAAGGAAGGATTGAG
65 AATGGAAAAGGTTGAGGCCACAACGACAAACCCGATACCATGAAGATATGAAAGGAAGGATTAAG
* *
126344 GCCATAACGAC-G-AATCCGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCTGCAACGA-TG
130 G-C-T-ACGACAGAAACCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGACT-
* *
126406 AACCCGATACCATG-AGATATGAAGGGAAAGGTTGAGGCCGCAACGACAAAC-CTGGC
191 AACCCGATACCATGAAGATACGAAAGGAAAGGTTGAGGCCGCAACGACAAACTC-GGC
126462 ACCTTAAAAGATGTAATAGGAAAGGTTGAGGCCGCAAC
1 ACCTTAAAAGATGTAATAGGAAAGGTTGAGGCCGCAAC
126500 AGCGAACCCG
Statistics
Matches: 232, Mismatches: 44, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
245 1 0.00
246 44 0.19
247 169 0.73
248 12 0.05
249 2 0.01
250 4 0.02
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (247 bp):
ACCTTAAAAGATGTAATAGGAAAGGTTGAGGCCGCAACGACGAATCCGGTACCTTAGAAGATGTA
ATGGAAAAGGTTGAGGCCACAACGACAAACCCGATACCATGAAGATATGAAAGGAAGGATTAAGG
CTACGACAGAAACCCGGTACCTTAAAAGATGTGATGGGAAAGGTTGAGGCTGCAACGACTAACCC
GATACCATGAAGATACGAAAGGAAAGGTTGAGGCCGCAACGACAAACTCGGC
Found at i:126796 original size:50 final size:50
Alignment explanation
Indices: 125783--126796 Score: 492
Period size: 50 Copynumber: 20.5 Consensus size: 50
125773 CCTGGAGACA
** *
125783 TGAAGGGAAAAATTGAGGCCGCAACGGCAAACCCGGTACCTTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * ** * * * *
125833 TGATA-CGAGAGGTTGAGGTAGCAATGATG-AACCCT-GTACCAT-GAAGATT
1 TGA-AGGGAAAGGTTGAGGCCGCAACG--GCAAACCTGGTACCTTAGAAGATG
* ** * * * * *
125882 TGAAGGG-AAGGATTGAGGCTGTGACGGCGAATCTAGTACCAT-GAAGATT
1 TGAAGGGAAAGG-TTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * ** * *
125931 TGAAGGG-AAGGATTGAGGCCGCGATGG-AAAATTCGATACCTTAAAAGATG
1 TGAAGGGAAAGG-TTGAGGCCGCAACGGCAAACCT-GGTACCTTAGAAGATG
* * * * * * *
125981 TTATGGGAAAGATTGAGGCCGCGACGGCGAA-TTCGGTACCTTCGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCT-GGTACCTTAGAAGATG
* * *
126031 T-AATGGAAAAGGTTGAGGCCGCAACGGCAAA-CTCGGTACCAT-GAAGATT
1 TGAA-GGGAAAGGTTGAGGCCGCAACGGCAAACCT-GGTACCTTAGAAGATG
* * * * * * *
126080 TGAAGGG-AAGGATTAAGGCTGCGACAGTAAACCCGGTACCTTAAAAGATG
1 TGAAGGGAAAGG-TTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * * * * * * *
126130 TGATGGGAAAGGTTGAGGCTGCAACGACTAACCCGGTGCCAT-GAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * ** * *
126179 CGAAAGGAAAGGTTGAGGCCGCAACGGTGAA-CTCGGTACCAT-GAAGATT
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCT-GGTACCTTAGAAGATG
* * * *
126228 TAAAGGG-AAGGATTGAGGCCGTAATGATG-AATCC-GGTACCTTAGAAGATG
1 TGAAGGGAAAGG-TTGAGGCCGCAACG--GCAAACCTGGTACCTTAGAAGATG
* * ** *** * * * *
126278 TGATGGGAAAGGTTTAGGCTACAACGATGAACCCGATACCAT-GAAGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* ** * *
126327 TGAAAGG-AAGGATTGAGGCCATAACGACGAATCC-GGTACCTTAGAAGATG
1 TGAAGGGAAAGG-TTGAGGCCGCAACGGC-AAACCTGGTACCTTAGAAGATG
* * *** * * * *
126377 TGATGGGAAAGGTTGAGGCTGCAACGATGAACCCGATACCAT-G-AGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * *
126425 TGAAGGGAAAGGTTGAGGCCGCAACGACAAACCTGGCACCTTAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * * * * * *
126475 T-AATAGGAAAGGTTGAGGCCGCAACAGCGAACCCGATACCAT-GAAGATA
1 TGAA-GGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * ** * * *
126524 CGAATGGAAAGGTTGAAGG-CGCAACGGTGAACCCGGTACCTAAGAAAATG
1 TGAAGGGAAAGGTTG-AGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * * *
126574 TGATA-GGAAAGGTTAAGGCCGCAACGGTAAACC-AGTACC--ACGAAGATA
1 TGA-AGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTA-GAAGATG
* * ** * * * *
126622 TGAAGGGAAAGGTTGAGACCACAACGGTGAACCCGATACCTAAAAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
* * ** * ** *
126672 TGAAGGAAAAGGTTGAGGCCGTAACGGTGAA-CTCGATACCACAG-AGATA
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCT-GGTACCTTAGAAGATG
*
126721 TGAAGGGAAAGGTTGAGGCTGCAACGGCAAACCTGGTACCTTAGAAGATG
1 TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
*
126771 TGAAGGGGAAGGTTGAGGCCGCAACG
1 TGAAGGGAAAGGTTGAGGCCGCAACG
126797 AGTAATCTAA
Statistics
Matches: 731, Mismatches: 186, Indels: 94
0.72 0.18 0.09
Matches are distributed among these distances:
47 3 0.00
48 93 0.13
49 279 0.38
50 329 0.45
51 26 0.04
52 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.18
Consensus pattern (50 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGGCAAACCTGGTACCTTAGAAGATG
Found at i:127871 original size:13 final size:13
Alignment explanation
Indices: 127855--127884 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
127845 TCAGTTATTA
127855 TATTATTATCATT
1 TATTATTATCATT
*
127868 TATTATTTTCATT
1 TATTATTATCATT
127881 TATT
1 TATT
127885 TCAAAAACGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (13 bp):
TATTATTATCATT
Found at i:128872 original size:29 final size:29
Alignment explanation
Indices: 128834--129240 Score: 351
Period size: 29 Copynumber: 13.9 Consensus size: 29
128824 TCCCATTTTG
* *
128834 TTCCAAAATTACATTTTAACACTAAATTT
1 TTCCAAAATTACATTTTAACCCTAAACTT
* *
128863 TTCAAAAATTACATTTTGACCTCTAAACTT
1 TTCCAAAATTACATTTTAACC-CTAAACTT
* * *
128893 CTT-AAAAATCATATTTTAACCTCTAAAC-T
1 -TTCCAAAATTACATTTTAACC-CTAAACTT
* * *
128922 TCCCAAAATCACATTTTGACCCATAAACTT
1 TTCCAAAATTACATTTTAACCC-TAAACTT
* * *
128952 TTCGAAAATTACATTTTGACCCCAAACTT
1 TTCCAAAATTACATTTTAACCCTAAACTT
* * *
128981 CTCTAAAATTACA-TTTAACCCCAAACTT
1 TTCCAAAATTACATTTTAACCCTAAACTT
*
129009 CTCCAAAATTACATTTTAACCCCTAAAC-T
1 TTCCAAAATTACATTTTAA-CCCTAAACTT
* *
129038 TCCCAAAATAACATTTTAACCCTAAAACTT
1 TTCCAAAATTACATTTTAACCCT-AAACTT
* *
129068 TTCTAAAATTACATTTTAACCCTAAATTT
1 TTCCAAAATTACATTTTAACCCTAAACTT
** * * * *
129097 TTGAAAAAAAATACATTTTGACCCCATACTT
1 TT--CCAAAATTACATTTTAACCCTAAACTT
* * * *
129128 CTCCAAAATCACATTTTAACCCCAAACCT
1 TTCCAAAATTACATTTTAACCCTAAACTT
* *
129157 CTCCAAAATCACATTTTAA-CCTAAAC-T
1 TTCCAAAATTACATTTTAACCCTAAACTT
129184 TTCCTAAAATTACATTGTT-ACCCTTAAACTT
1 TTCC-AAAATTACATT-TTAACCC-TAAACTT
**
129215 TTCCAAAATTATGTTTTAACCCTAAA
1 TTCCAAAATTACATTTTAACCCTAAA
129241 TTCTCTGAAA
Statistics
Matches: 314, Mismatches: 47, Indels: 34
0.79 0.12 0.09
Matches are distributed among these distances:
27 4 0.01
28 49 0.16
29 138 0.44
30 95 0.30
31 28 0.09
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.35
Consensus pattern (29 bp):
TTCCAAAATTACATTTTAACCCTAAACTT
Found at i:128911 original size:59 final size:57
Alignment explanation
Indices: 128837--129244 Score: 281
Period size: 59 Copynumber: 7.0 Consensus size: 57
128827 CATTTTGTTC
*
128837 CAAAATTACATTTTAACACTAAATTTTTCAAAAATTACATTTTGACCTCTAAACTTCTT
1 CAAAATTACATTTTAACCCTAAA-TTTTCAAAAATTACATTTTGACC-CTAAACTTCTT
* * * * * * *
128896 AAAAATCATATTTTAACCTCTAAACTTCCCAAAATCACATTTTGACCCATAAACTT-TT
1 CAAAATTACATTTTAACC-CTAAATTTTCAAAAATTACATTTTGACCC-TAAACTTCTT
* * * * * * *
128954 CGAAAATTACATTTTGACCCCAAACTTCTCTAAAATTACA-TTTAACCCCAAACTTCTC
1 C-AAAATTACATTTTAACCCTAAA-TTTTCAAAAATTACATTTTGACCCTAAACTTCTT
* * * * *
129012 CAAAATTACATTTTAACCCCTAAACTTCCCAAAATAACATTTTAACCCTAAAACTT-TT
1 CAAAATTACATTTTAA-CCCTAAATTTTCAAAAATTACATTTTGACCCT-AAACTTCTT
* * * * *
129070 CTAAAATTACATTTTAACCCTAAATTTTTGAAAAAAAATACATTTTGACCCCATACTTCTC
1 C-AAAATTACATTTTAACCCTAAA-TTTT--CAAAAATTACATTTTGACCCTAAACTTCTT
* * * * * * * *
129131 CAAAATCACATTTTAACCCCAAACCTCTCCAAAATCACATTTT-AACCTAAACTT-TC
1 CAAAATTACATTTTAACCCTAAA-TTTTCAAAAATTACATTTTGACCCTAAACTTCTT
* ** *
129187 CTAAAATTACATTGTT-ACCCTTAAACTTTTCCAAAATTATGTTTTAACCCTAAA-TTCT
1 C-AAAATTACATT-TTAACCC-TAAA-TTTTCAAAAATTACATTTTGACCCTAAACTTCT
129245 CTGAAACTTC
Statistics
Matches: 271, Mismatches: 60, Indels: 36
0.74 0.16 0.10
Matches are distributed among these distances:
56 3 0.01
57 52 0.19
58 72 0.27
59 95 0.35
60 32 0.12
61 17 0.06
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (57 bp):
CAAAATTACATTTTAACCCTAAATTTTCAAAAATTACATTTTGACCCTAAACTTCTT
Found at i:129136 original size:147 final size:144
Alignment explanation
Indices: 128835--129242 Score: 448
Period size: 147 Copynumber: 2.8 Consensus size: 144
128825 CCCATTTTGT
* * * * * * * *
128835 TCCAAAATTACATTTTAACACTAAATTTTTCAAAAATTACATTTTGACCTCTAAACTTCTTAAAA
1 TCCAAAATTACATTTTAACCCCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTC-CAAAA
* * * * * *
128900 ATCATATTTTAACCTCTAAAC-TTCCCAAAATCACATTTTGACCCATAAACTTTTCGAAAATTAC
65 ATAACATTTTAACC-CTAAACTTTTCCAAAATTACATTTTAACCC-TAAA-TTTTCGAAAAATAC
128964 ATTTTGACCCCAAACTTC
127 ATTTTGACCCCAAACTTC
* *
128982 TCTAAAATTACA-TTTAACCCCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCCCAAAA
1 TCCAAAATTACATTTTAACCCCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCCAAAAA
* *
129046 TAACATTTTAACCCTAAAACTTTTCTAAAATTACATTTTAACCCTAAATTTTTGAAAAAAAATAC
66 TAACATTTTAACCCT-AAACTTTTCCAAAATTACATTTTAACCCTAAATTTTCG---AAAAATAC
*
129111 ATTTTGACCCCATACTTC
127 ATTTTGACCCCAAACTTC
* * * *
129129 TCCAAAATCACATTTTAACCCCAAACCTCTCCAAAATCACATTTTAA--CCTAAACTTTCCTAAA
1 TCCAAAATTACATTTTAACCCCAAACTTCTCCAAAATTACATTTTAACCCCTAAAC-TTCCAAAA
* **
129192 ATTACATTGTT-ACCCTTAAACTTTTCCAAAATTATGTTTTAACCCTAAATT
65 ATAACATT-TTAACCC-TAAACTTTTCCAAAATTACATTTTAACCCTAAATT
129243 CTCTGAAACT
Statistics
Matches: 224, Mismatches: 28, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
144 7 0.03
145 23 0.10
146 65 0.29
147 94 0.42
148 35 0.16
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (144 bp):
TCCAAAATTACATTTTAACCCCAAACTTCTCCAAAATTACATTTTAACCCCTAAACTTCCAAAAA
TAACATTTTAACCCTAAACTTTTCCAAAATTACATTTTAACCCTAAATTTTCGAAAAATACATTT
TGACCCCAAACTTC
Found at i:130761 original size:22 final size:22
Alignment explanation
Indices: 130733--130778 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
130723 ACGACACATT
130733 AATATTTTTAAAAATTCAAAAA
1 AATATTTTTAAAAATTCAAAAA
130755 AATATTTTTAAAAATTCAAAAA
1 AATATTTTTAAAAATTCAAAAA
130777 AA
1 AA
130779 AACAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATATTTTTAAAAATTCAAAAA
Found at i:137101 original size:26 final size:24
Alignment explanation
Indices: 137032--137107 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 24
137022 TTCTCATCCT
137032 AATTTTACCCTAGTAAAATTTTGAC
1 AATTTTA-CCTAGTAAAATTTTGAC
*
137057 AATTTTACCATCGGTAAAATTTTGAC
1 AATTTTACC-T-AGTAAAATTTTGAC
* *
137083 GATTTTACTCTAGAAAAAATTTTGA
1 AATTTTAC-CTAG-TAAAATTTTGA
137108 GAAAATTCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
24 2 0.05
25 9 0.21
26 31 0.72
27 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (24 bp):
AATTTTACCTAGTAAAATTTTGAC
Found at i:138610 original size:16 final size:17
Alignment explanation
Indices: 138589--138625 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
138579 CACTGAACAG
138589 AAAAACAATT-CTCT-CT
1 AAAAAC-ATTCCTCTCCT
138605 AAAAACATTCCTCTCCT
1 AAAAACATTCCTCTCCT
138622 AAAA
1 AAAA
138626 TCTCTTTGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 3 0.16
16 10 0.53
17 6 0.32
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAAACATTCCTCTCCT
Found at i:139401 original size:3 final size:3
Alignment explanation
Indices: 139393--139419 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
139383 GGACTATGTT
139393 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
139420 AGTCATCACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:143404 original size:40 final size:42
Alignment explanation
Indices: 143360--143470 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 42
143350 TACACCAACT
* * *
143360 TATAGCCTACTAAGCCAAAGCTTGAGTT-TTGT-CACCGGCA
1 TATAGCTTGCTAAGCCATAGCTTGAGTTCTTGTACACCGGCA
* *
143400 TATAGCTTGCTAAGCCATAGCTTGAATTTCTTTTACACCGGCA
1 TATAGCTTGCTAAGCCATAGCTTG-AGTTCTTGTACACCGGCA
*
143443 TATAGCTTGCTAAGTCATAGCTTGAGTT
1 TATAGCTTGCTAAGCCATAGCTTGAGTT
143471 GATTCAAACT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
40 21 0.34
41 3 0.05
42 6 0.10
43 31 0.51
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (42 bp):
TATAGCTTGCTAAGCCATAGCTTGAGTTCTTGTACACCGGCA
Found at i:155873 original size:60 final size:60
Alignment explanation
Indices: 155780--155899 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
155770 CTTTATGTCC
155780 TTTCCTCTATTATAGAAAAACACACCTTTCCATCTTTCTTCTTCACTCACTATAAACACT
1 TTTCCTCTATTATAGAAAAACACACCTTTCCATCTTTCTTCTTCACTCACTATAAACACT
155840 TTTCCTCTATTATAGAAAAACACACCTTTCCATCTTTCTTCTTCACTCACTATAAACACT
1 TTTCCTCTATTATAGAAAAACACACCTTTCCATCTTTCTTCTTCACTCACTATAAACACT
155900 CTTCTTTGTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.30, C:0.30, G:0.02, T:0.38
Consensus pattern (60 bp):
TTTCCTCTATTATAGAAAAACACACCTTTCCATCTTTCTTCTTCACTCACTATAAACACT
Found at i:167264 original size:16 final size:17
Alignment explanation
Indices: 167233--167266 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
167223 ATCACTCGTT
*
167233 ATTTTAATAACAATTTC
1 ATTTAAATAACAATTTC
*
167250 ATTTAAATAACATTTTC
1 ATTTAAATAACAATTTC
167267 CATATCAACC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTAAATAACAATTTC
Done.