Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 42 of 73
Found at i:10134861 original size:134 final size:134
Alignment explanation
Indices: 10134613--10134979 Score: 443
Period size: 134 Copynumber: 2.7 Consensus size: 134
10134603 ACAACACTGC
* * ** * * *
10134613 TCATACGTGATGAAGA-GGTCTAGTCGTCTAAGGGTGACACGGCTCTTACGTGATGAGGAGTTCT
1 TCATACGCGATGAAGACGG-CTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCT
** * * ** * * * * *
10134677 TATCAGTGGATGACACGACTCATACGTGATGAAGAGTTCTGGACATCTTTAGGAAGGGTGATAAT
65 GGTCGGGGGATGACACGGTTCCTACGTGATGAGGAGTACAGGACATCTTTAGGAAGGGTGATAAC
*
10134742 ATGGT
130 ACGGT
* * *
10134747 T-ACTACGCGATGAAGACTGTTGGTTATCTAGGGGTGACACGGCTCCTATGTGATGAGGAGGTCT
1 TCA-TACGCGATGAAGACGGCTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCT
* *
10134811 GGTCGGGGGATGACACGGTTCCTACGTGATGAGGA-TGACAGGGCATCTTTAGGGAGGGTGATAA
65 GGTCGGGGGATGACACGGTTCCTACGTGATGAGGAGT-ACAGGACATCTTTAGGAAGGGTGATAA
10134875 CACGGT
129 CACGGT
*
10134881 TCATACGCGATGAGGACGGCTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTG
1 TCATACGCGATGAAGACGGCTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTG
* *
10134946 GTCGGGGGATGACATGGTTCCTACGCGATGAGGA
66 GTCGGGGGATGACACGGTTCCTACGTGATGAGGA
10134980 CAGTAGGCCA
Statistics
Matches: 199, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
133 2 0.01
134 195 0.98
135 2 0.01
ACGTcount: A:0.23, C:0.17, G:0.35, T:0.25
Consensus pattern (134 bp):
TCATACGCGATGAAGACGGCTGGTTATCTAGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTG
GTCGGGGGATGACACGGTTCCTACGTGATGAGGAGTACAGGACATCTTTAGGAAGGGTGATAACA
CGGT
Found at i:10134922 original size:43 final size:41
Alignment explanation
Indices: 10134865--10134980 Score: 112
Period size: 43 Copynumber: 2.8 Consensus size: 41
10134855 ATCTTTAGGG
* *
10134865 AGGGTGATAACACGGTTCATACGCGATGAGGACGG-CTGGTTATC
1 AGGG-GATGACACGGTTCCTACGCGATGAGGACGGTCTGG---TC
* *
10134909 TAGGGG-TGACACGGCTCCTACGTGATGAGGA-GGTCTGGTC
1 -AGGGGATGACACGGTTCCTACGCGATGAGGACGGTCTGGTC
* *
10134949 GGGGGATGACATGGTTCCTACGCGATGAGGAC
1 AGGGGATGACACGGTTCCTACGCGATGAGGAC
10134981 AGTAGGCCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
39 4 0.07
40 24 0.40
42 2 0.03
43 25 0.42
44 1 0.02
45 4 0.07
ACGTcount: A:0.22, C:0.19, G:0.38, T:0.22
Consensus pattern (41 bp):
AGGGGATGACACGGTTCCTACGCGATGAGGACGGTCTGGTC
Found at i:10135082 original size:35 final size:35
Alignment explanation
Indices: 10135036--10135213 Score: 117
Period size: 35 Copynumber: 5.3 Consensus size: 35
10135026 CATATGATAC
10135036 TTCAAGAGAAACTGTCTCAAAAGAGACAAATTTGT
1 TTCAAGAGAAACTGTCTCAAAAGAGACAAATTTGT
* * **
10135071 TTCAAGAGAAAC-GACTC--AA-AG--ATAGGTGT
1 TTCAAGAGAAACTGTCTCAAAAGAGACAAATTTGT
* * * *
10135100 TTCAAAAGAAACTGTCTCAAGATAGACAAACTTGT
1 TTCAAGAGAAACTGTCTCAAAAGAGACAAATTTGT
* * ** *
10135135 TTCAAGGGAAACAGAATC-AAAGATG----ATATGT
1 TTCAAGAGAAACTGTCTCAAAAGA-GACAAATTTGT
* **
10135166 TTCAAAAGAAACTGTCTCAAGGGAGACACAATTTGT
1 TTCAAGAGAAACTGTCTCAAAAGAGACA-AATTTGT
10135202 TTCAAGAGAAAC
1 TTCAAGAGAAAC
10135214 AAACTCAAAG
Statistics
Matches: 102, Mismatches: 28, Indels: 25
0.66 0.18 0.16
Matches are distributed among these distances:
29 16 0.16
30 4 0.04
31 20 0.20
32 6 0.06
33 2 0.02
34 7 0.07
35 31 0.30
36 16 0.16
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.24
Consensus pattern (35 bp):
TTCAAGAGAAACTGTCTCAAAAGAGACAAATTTGT
Found at i:10135110 original size:29 final size:29
Alignment explanation
Indices: 10135068--10135124 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
10135058 GAGACAAATT
*
10135068 TGTTTCAAGAGAAAC-GACTCAAAGATAGG
1 TGTTTCAAAAGAAACTGACTC-AAGATAGG
*
10135097 TGTTTCAAAAGAAACTGTCTCAAGATAG
1 TGTTTCAAAAGAAACTGACTCAAGATAG
10135125 ACAAACTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.84
30 4 0.16
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (29 bp):
TGTTTCAAAAGAAACTGACTCAAGATAGG
Found at i:10135110 original size:64 final size:65
Alignment explanation
Indices: 10135005--10135225 Score: 268
Period size: 64 Copynumber: 3.4 Consensus size: 65
10134995 AGGGATAATG
* * ** * *
10135005 GTTTCAAGAGAAATC-GACTCACATAT-GATACTTCAAGAGAAACTGTCTCAAAAGAGACAAATT
1 GTTTCAAGAGAAA-CAGACTCAAAGATAGATGTTTCAAAAGAAACTGTCTCAAGAGAGACAAATT
10135068 T
65 T
* * *
10135069 GTTTCAAGAGAAAC-GACTCAAAGATAGGTGTTTCAAAAGAAACTGTCTCAAGATAGACAAACTT
1 GTTTCAAGAGAAACAGACTCAAAGATAGATGTTTCAAAAGAAACTGTCTCAAGAGAGACAAATTT
* * * *
10135133 GTTTCAAGGGAAACAGAATCAAAGATGATATGTTTCAAAAGAAACTGTCTCAAGGGAGACACAAT
1 GTTTCAAGAGAAACAGACTCAAAGAT-AGATGTTTCAAAAGAAACTGTCTCAAGAGAGACA-AAT
10135198 TT
64 TT
*
10135200 GTTTCAAGAGAAACAAACTCAAAGAT
1 GTTTCAAGAGAAACAGACTCAAAGAT
10135226 GATTTTGTTT
Statistics
Matches: 134, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
63 10 0.07
64 57 0.43
65 10 0.07
66 30 0.22
67 27 0.20
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.24
Consensus pattern (65 bp):
GTTTCAAGAGAAACAGACTCAAAGATAGATGTTTCAAAAGAAACTGTCTCAAGAGAGACAAATTT
Found at i:10135413 original size:37 final size:37
Alignment explanation
Indices: 10135372--10135521 Score: 110
Period size: 36 Copynumber: 4.1 Consensus size: 37
10135362 TATTTCAAAG
10135372 GAAAAATGTCTTAAGCAAGACGAAATTTGTTTTGAGA
1 GAAAAATGTCTTAAGCAAGACGAAATTTGTTTTGAGA
* * ** * *
10135409 GAAAAAGGTCTCAAGTGAGA-GAAAATTGTTTTTAGA
1 GAAAAATGTCTTAAGCAAGACGAAATTTGTTTTGAGA
* * * * *
10135445 TAAAATTGTCTAAAACAAGACAAAATTTGTTTT-A-A
1 GAAAAATGTCTTAAGCAAGACGAAATTTGTTTTGAGA
* * * * *
10135480 GAAAACTGTCTCT-AGCGAGATGACACTTTGTTTCGAGA
1 GAAAAATGTCT-TAAGCAAGACGA-AATTTGTTTTGAGA
10135518 GAAA
1 GAAA
10135522 CAACATCAAA
Statistics
Matches: 84, Mismatches: 24, Indels: 9
0.72 0.21 0.08
Matches are distributed among these distances:
35 16 0.19
36 36 0.43
37 27 0.32
38 5 0.06
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (37 bp):
GAAAAATGTCTTAAGCAAGACGAAATTTGTTTTGAGA
Found at i:10136781 original size:20 final size:21
Alignment explanation
Indices: 10136758--10136796 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
10136748 TATTTTTTTC
10136758 TTTTCTCTTTGC-TCTTTGTT
1 TTTTCTCTTTGCTTCTTTGTT
10136778 TTTTCTCTTTGCTTCTTTG
1 TTTTCTCTTTGCTTCTTTG
10136797 CTCTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.00, C:0.21, G:0.10, T:0.69
Consensus pattern (21 bp):
TTTTCTCTTTGCTTCTTTGTT
Found at i:10136795 original size:28 final size:26
Alignment explanation
Indices: 10136750--10136807 Score: 89
Period size: 28 Copynumber: 2.2 Consensus size: 26
10136740 TTCTTTGATA
*
10136750 TTTTTTTCTTTTCTCTTTGCTCTTTG
1 TTTTTTTCTTTGCTCTTTGCTCTTTG
10136776 TTTTTTCTCTTTGCTTCTTTGCTCTTTG
1 TTTTTT-TCTTTGC-TCTTTGCTCTTTG
10136804 TTTT
1 TTTT
10136808 GATTGAATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 6 0.21
27 6 0.21
28 17 0.59
ACGTcount: A:0.00, C:0.19, G:0.09, T:0.72
Consensus pattern (26 bp):
TTTTTTTCTTTGCTCTTTGCTCTTTG
Found at i:10136803 original size:7 final size:7
Alignment explanation
Indices: 10136756--10136803 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
10136746 GATATTTTTT
*
10136756 TCTTTTC
1 TCTTTGC
10136763 TCTTTGC
1 TCTTTGC
10136770 TCTTTG-
1 TCTTTGC
* *
10136776 TTTTTTC
1 TCTTTGC
10136783 TCTTTGC
1 TCTTTGC
10136790 TTCTTTGC
1 -TCTTTGC
10136798 TCTTTG
1 TCTTTG
10136804 TTTTGATTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 4 0.12
7 23 0.68
8 7 0.21
ACGTcount: A:0.00, C:0.23, G:0.10, T:0.67
Consensus pattern (7 bp):
TCTTTGC
Found at i:10138070 original size:21 final size:20
Alignment explanation
Indices: 10138045--10138084 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10138035 TAAAAATAAA
*
10138045 ATACATATGCAAAATGCAAAG
1 ATACAAATG-AAAATGCAAAG
*
10138066 ATACAAATGAAGATGCAAA
1 ATACAAATGAAAATGCAAA
10138085 ATTGTTGATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.12, G:0.15, T:0.17
Consensus pattern (20 bp):
ATACAAATGAAAATGCAAAG
Found at i:10140514 original size:30 final size:30
Alignment explanation
Indices: 10140480--10140538 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
10140470 AAACAAAATT
*
10140480 AGAAACTTGAAA-GATTAAAATAGAAAAAAC
1 AGAAACTT-AAATGATCAAAATAGAAAAAAC
*
10140510 AGAAAGTTAAATGATCAAAATAGAAAAAA
1 AGAAACTTAAATGATCAAAATAGAAAAAA
10140539 TATAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 3 0.12
30 23 0.88
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.17
Consensus pattern (30 bp):
AGAAACTTAAATGATCAAAATAGAAAAAAC
Found at i:10140520 original size:60 final size:59
Alignment explanation
Indices: 10140447--10140584 Score: 131
Period size: 60 Copynumber: 2.3 Consensus size: 59
10140437 AAATATAATT
* * * *
10140447 AACAAAAACTTAAAGGACAATAA-A-AACAAAATTAGAAACTTGAAA-GATTAAAATAGA-AAA
1 AACAGAAAGTTAAAGGACAA-AATAGAA-AAAA-TAGAAAC-TCAAAGGACTAAAATA-ACAAA
* *
10140507 AACAGAAAGTTAAATGATCAAAATAGAAAAAATATAAACTCAAAGGACTAAAATAACAAA
1 AACAGAAAGTTAAAGGA-CAAAATAGAAAAAATAGAAACTCAAAGGACTAAAATAACAAA
*
10140567 AATAGAAAGTTAAAGGAC
1 AACAGAAAGTTAAAGGAC
10140585 TAAACTGGTA
Statistics
Matches: 65, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
59 6 0.09
60 49 0.75
61 8 0.12
62 2 0.03
ACGTcount: A:0.63, C:0.09, G:0.12, T:0.17
Consensus pattern (59 bp):
AACAGAAAGTTAAAGGACAAAATAGAAAAAATAGAAACTCAAAGGACTAAAATAACAAA
Found at i:10140560 original size:30 final size:30
Alignment explanation
Indices: 10140495--10140588 Score: 111
Period size: 30 Copynumber: 3.1 Consensus size: 30
10140485 CTTGAAAGAT
* *
10140495 TAAAATAGAAAAAACAGAAAGTTAAATGA-
1 TAAAATAGAAAAAATAGAAAGTTAAAGGAC
* * *
10140524 TCAAAATAGAAAAAATATAAACTCAAAGGAC
1 T-AAAATAGAAAAAATAGAAAGTTAAAGGAC
10140555 TAAAATA-ACAAAAATAGAAAGTTAAAGGAC
1 TAAAATAGA-AAAAATAGAAAGTTAAAGGAC
10140585 TAAA
1 TAAA
10140589 CTGGTATTAA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
29 2 0.04
30 51 0.94
31 1 0.02
ACGTcount: A:0.64, C:0.07, G:0.12, T:0.17
Consensus pattern (30 bp):
TAAAATAGAAAAAATAGAAAGTTAAAGGAC
Found at i:10142091 original size:3 final size:3
Alignment explanation
Indices: 10142078--10142111 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
10142068 ATATAAAATA
10142078 AAT AA- AAT AAT AAT AAT AAT AAT AAT ATAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT A
10142112 GCTTAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10143195 original size:17 final size:19
Alignment explanation
Indices: 10143173--10143212 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
10143163 ATGTCAAAAT
*
10143173 GGTATCGGTACC-TAAG-G
1 GGTATCGATACCATAAGAG
10143190 GGTATCGATACCATAAGAG
1 GGTATCGATACCATAAGAG
10143209 GGTA
1 GGTA
10143213 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 4 0.20
19 5 0.25
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.23
Consensus pattern (19 bp):
GGTATCGATACCATAAGAG
Found at i:10144003 original size:21 final size:21
Alignment explanation
Indices: 10143974--10144031 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
10143964 GTAATCCTTT
*
10143974 GGAACATATATGTGGTACTCTG
1 GGAACATATATGTGGT-CTATG
* * *
10143996 GGAA-ATATATTTAGTCTATT
1 GGAACATATATGTGGTCTATG
*
10144016 GGAATATATATGTGGT
1 GGAACATATATGTGGT
10144032 TCTTAAAGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 7 0.24
21 18 0.62
22 4 0.14
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (21 bp):
GGAACATATATGTGGTCTATG
Found at i:10149624 original size:24 final size:25
Alignment explanation
Indices: 10149569--10149625 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
10149559 GACAATTAGT
* *
10149569 AAAATAT-TAAAATTGGAACTCCGA
1 AAAATATATAAAATTAGAACTCCAA
*
10149593 TAAA-ATATAAAATTAGAACT-CAA
1 AAAATATATAAAATTAGAACTCCAA
10149616 AAAATATATA
1 AAAATATATA
10149626 TAGTGTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.58, C:0.09, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAATATATAAAATTAGAACTCCAA
Found at i:10151189 original size:15 final size:16
Alignment explanation
Indices: 10151161--10151195 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10151151 TTTTTCTAGT
10151161 TTTTTTAGTTTTTTCTC
1 TTTTTTAG-TTTTTCTC
10151178 TTTTTTAG-TTTTCTC
1 TTTTTTAGTTTTTCTC
10151193 TTT
1 TTT
10151196 ATTTTTTCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
17 8 0.44
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.77
Consensus pattern (16 bp):
TTTTTTAGTTTTTCTC
Found at i:10151200 original size:17 final size:17
Alignment explanation
Indices: 10151161--10151193 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10151151 TTTTTCTAGT
*
10151161 TTTTTTAGTTTTTTCTC
1 TTTTTTAGTTTTCTCTC
10151178 TTTTTTAGTTTTCTCT
1 TTTTTTAGTTTTCTCT
10151194 TTATTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTAGTTTTCTCTC
Found at i:10159712 original size:20 final size:20
Alignment explanation
Indices: 10159670--10159712 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
10159660 TTATTTTCAT
* *
10159670 TTTTTAATTTTGAAACATCA
1 TTTTTAATTTTGAAAAATAA
10159690 TTTTTATATTTT-AAAAATAA
1 TTTTTA-ATTTTGAAAAATAA
10159710 TTT
1 TTT
10159713 CTCATAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (20 bp):
TTTTTAATTTTGAAAAATAA
Found at i:10161426 original size:17 final size:17
Alignment explanation
Indices: 10161404--10161451 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
10161394 TCTCTCTTGA
10161404 TTCTAGTTGCTTGATGT
1 TTCTAGTTGCTTGATGT
10161421 TTCTAGTTGCTTGATGT
1 TTCTAGTTGCTTGATGT
*
10161438 TTCTTGTTG-TTGAT
1 TTCTAGTTGCTTGAT
10161452 CAATGGCTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 5 0.17
17 25 0.83
ACGTcount: A:0.10, C:0.10, G:0.23, T:0.56
Consensus pattern (17 bp):
TTCTAGTTGCTTGATGT
Found at i:10173401 original size:21 final size:20
Alignment explanation
Indices: 10173344--10173401 Score: 53
Period size: 23 Copynumber: 2.7 Consensus size: 20
10173334 TACACTCTTG
10173344 AGTGTATCGATACACATTCA
1 AGTGTATCGATACACATTCA
* * *
10173364 AGGAATGCATCGGTACACTTTCA
1 A-G--TGTATCGATACACATTCA
10173387 TAGTGTATCGATACA
1 -AGTGTATCGATACA
10173402 TAGCGAGGAT
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.03
21 11 0.38
23 16 0.55
24 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (20 bp):
AGTGTATCGATACACATTCA
Found at i:10173414 original size:21 final size:21
Alignment explanation
Indices: 10173390--10173445 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
10173380 ACTTTCATAG
10173390 TGTATCGATACATAGCGAGGA
1 TGTATCGATACATAGCGAGGA
10173411 TGTATCGATACATAGCGAGGA
1 TGTATCGATACATAGCGAGGA
10173432 TGTATCGATACATA
1 TGTATCGATACATA
10173446 TGTATCGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (21 bp):
TGTATCGATACATAGCGAGGA
Found at i:10173450 original size:14 final size:14
Alignment explanation
Indices: 10173431--10173457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10173421 CATAGCGAGG
10173431 ATGTATCGATACAT
1 ATGTATCGATACAT
10173445 ATGTATCGATACA
1 ATGTATCGATACA
10173458 GTTTGCACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (14 bp):
ATGTATCGATACAT
Found at i:10176207 original size:12 final size:11
Alignment explanation
Indices: 10176179--10176224 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
10176169 TAACAAAATA
* *
10176179 AATAATATAAA
1 AATAATACAAG
10176190 AATAATACAAG
1 AATAATACAAG
10176201 TAATAATACAAG
1 -AATAATACAAG
10176213 AATAATA-AAG
1 AATAATACAAG
10176223 AA
1 AA
10176225 AGAGAAAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 5 0.16
11 16 0.50
12 11 0.34
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (11 bp):
AATAATACAAG
Found at i:10176257 original size:14 final size:14
Alignment explanation
Indices: 10176238--10176283 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
10176228 GAAAGTAAAA
10176238 AAATATATAATAAT
1 AAATATATAATAAT
10176252 AAATATA-AA-AAT
1 AAATATATAATAAT
10176264 ATACATATATAAT-AT
1 A-A-ATATATAATAAT
10176279 AAATA
1 AAATA
10176284 AGTAGAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 13 0.46
15 5 0.18
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATATATAATAAT
Found at i:10176275 original size:22 final size:21
Alignment explanation
Indices: 10176236--10176281 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
10176226 GAGAAAGTAA
*
10176236 AAAAATATATAATAATAAATAT
1 AAAAATATACAATAAT-AATAT
10176258 AAAAATATAC-ATATATAATAT
1 AAAAATATACAATA-ATAATAT
10176279 AAA
1 AAA
10176282 TAAGTAGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATATACAATAATAATAT
Found at i:10176331 original size:9 final size:10
Alignment explanation
Indices: 10176175--10176342 Score: 52
Period size: 9 Copynumber: 16.6 Consensus size: 10
10176165 TATATAACAA
10176175 AATAAATAAT
1 AATAAATAAT
10176185 -ATAAA-AAT
1 AATAAATAAT
10176193 AATACAAGTAAT
1 AATA-AA-TAAT
*
10176205 AATACAAGAAT
1 AATA-AATAAT
*
10176216 AATAAAGAA-
1 AATAAATAAT
* *
10176225 AGAGAAAGTAAAAA
1 A-ATAAA-T--AAT
*
10176239 AATATATAAT
1 AATAAATAAT
10176249 AATAAAT-AT
1 AATAAATAAT
10176258 AA-AAAT-AT
1 AATAAATAAT
*
10176266 ACATATATAAT
1 A-ATAAATAAT
10176277 -ATAAATAAGT
1 AATAAATAA-T
**
10176287 AGAATAAA-AGG
1 --AATAAATAAT
10176298 AA-AATATAAT
1 AATAA-ATAAT
*
10176308 AGTAAAATAAT
1 AAT-AAATAAT
10176319 AATAAAT-AT
1 AATAAATAAT
*
10176328 AAT-AGTAAT
1 AATAAATAAT
10176337 AATAAA
1 AATAAA
10176343 AATGCAAAGA
Statistics
Matches: 119, Mismatches: 17, Indels: 44
0.66 0.09 0.24
Matches are distributed among these distances:
8 14 0.12
9 34 0.29
10 30 0.25
11 16 0.13
12 14 0.12
13 10 0.08
14 1 0.01
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (10 bp):
AATAAATAAT
Found at i:10176937 original size:37 final size:37
Alignment explanation
Indices: 10176896--10177000 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
10176886 GTGCTTGTGG
* *
10176896 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * * *
10176933 ATCCTATTTTTAGGAATTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* *
10176970 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
10177001 GATGAAAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:10178056 original size:106 final size:105
Alignment explanation
Indices: 10177731--10179211 Score: 2073
Period size: 106 Copynumber: 14.0 Consensus size: 105
10177721 GCATTGTTCT
* * * *** *
10177731 GAGTCCAATATTCTCCG-TCGTGAAGTTGAAATTGACTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCT-GAAATTGGAAGTTGTTTGTTGACA
* * * *
10177795 ACCAGTC-GTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
64 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
10177837 GAGTCCAATGTCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T-GAA-AT-TTTGTTGACAAT
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAGTTGTTTGTTGACAAC
** * * * *
10177897 CAGC-CACCTCTTCGTCATGAAGTTGAGCTTGTGTTGCCTTG
66 CAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * *
10177938 G-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTAGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTGTTGACAA
*
10178002 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
10178043 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTGTTGACAA
**
10178108 CCAGCGGTCCCTTCGTCACGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
10178149 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTGTTTGTTGACAA
*
10178214 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
10178255 GAGTCCAATATCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTCGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTGTTGACAA
* *
10178320 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10178361 GAGTTCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTGTTGACAA
* *
10178426 CCAGCGGTCCATTCATCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10178467 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTGTTTGTTGACAA
*
10178532 CCAGCGGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
10178573 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTGTTTGTTGACAA
* *
10178638 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCATTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10178679 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTTTGAAATTGGGAAGTTGTTTCTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTGTTGACAA
*
10178744 CCAGCGGTCCCATCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
10178785 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTG-GAAGTTGTTTGTTGACAA
*
10178850 CCAGCGGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10178891 GAGTCTAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG-AAGTTGTTTGTTGACAA
* ** *
10178956 CCAGCGGTCCCTTAGTCGTGAAGTTGAACTTTTGTTGTTTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
10178997 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-GGAAGTTGTTTGTTGACAA
*
10179062 CCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
10179103 GAGTACAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAATTG-TTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGG-AAGTTGTTTGTTGACAA
* * * *
10179167 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
10179208 GAGT
1 GAGT
10179212 GGCACGATAT
Statistics
Matches: 1242, Mismatches: 114, Indels: 39
0.89 0.08 0.03
Matches are distributed among these distances:
99 3 0.00
100 71 0.06
101 5 0.00
102 4 0.00
104 4 0.00
105 59 0.05
106 1089 0.88
107 7 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:10179614 original size:18 final size:19
Alignment explanation
Indices: 10179585--10179621 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
10179575 TGTTGAATCC
10179585 CCAAATAATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
10179604 CCAAA-AATGCCCCAATAT
1 CCAAATAATGCCCCAATAT
10179622 TTGATGTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.43, C:0.32, G:0.05, T:0.19
Consensus pattern (19 bp):
CCAAATAATGCCCCAATAT
Found at i:10180063 original size:22 final size:22
Alignment explanation
Indices: 10180037--10180106 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
10180027 TTATGTTTGG
10180037 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
10180059 TCAAAGGTTTGGCATTTTATGC
1 TCAAAGGTTTGGCATTTGATGC
*
10180081 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
10180103 TCAA
1 TCAA
10180107 CAGTTTGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.23, C:0.14, G:0.24, T:0.39
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:10180745 original size:26 final size:24
Alignment explanation
Indices: 10180716--10180785 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 24
10180706 TTTTTTGTCC
10180716 CTTTTTCTTTTTGATTTTTGTTCTTT
1 CTTTTTCTTTTTG-TTTTTGTTC-TT
* *
10180742 CTTTTT-TTTTTCTTCTTTTTTTCTT
1 CTTTTTCTTTTT-GT-TTTTGTTCTT
10180767 C-TTTTCTTTTTTGTTTTTG
1 CTTTTTC-TTTTTGTTTTTG
10180786 CCCTTTTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
24 8 0.22
25 10 0.28
26 18 0.50
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.80
Consensus pattern (24 bp):
CTTTTTCTTTTTGTTTTTGTTCTT
Found at i:10180747 original size:14 final size:14
Alignment explanation
Indices: 10180730--10180781 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
10180720 TTCTTTTTGA
10180730 TTTTTGTTCTTTCT
1 TTTTTGTTCTTTCT
*
10180744 TTTTT-TTTTCTTCTT
1 TTTTTGTTCT-TTC-T
*
10180759 TTTTTCTTCTTTTCT
1 TTTTTGTTC-TTTCT
10180774 TTTTTGTT
1 TTTTTGTT
10180782 TTTGCCCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 3 0.10
14 8 0.26
15 14 0.45
16 5 0.16
17 1 0.03
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTTTGTTCTTTCT
Found at i:10180755 original size:11 final size:11
Alignment explanation
Indices: 10180716--10180776 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 11
10180706 TTTTTTGTCC
10180716 CTTTTTCTTTTT
1 CTTTTT-TTTTT
*
10180728 GATTTTTGTTCTTT
1 -CTTTTT-TT-TTT
10180742 CTTTTTTTTTT
1 CTTTTTTTTTT
*
10180753 CTTCTTTTTTT
1 CTTTTTTTTTT
10180764 CTTCTTTTCTTTT
1 CTT-TTTT-TTTT
10180777 TTGTTTTTGC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 16 0.40
12 5 0.12
13 16 0.40
14 3 0.08
ACGTcount: A:0.02, C:0.15, G:0.03, T:0.80
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:10180784 original size:8 final size:8
Alignment explanation
Indices: 10180717--10180778 Score: 54
Period size: 8 Copynumber: 7.5 Consensus size: 8
10180707 TTTTTGTCCC
10180717 TTTTTCTT
1 TTTTTCTT
*
10180725 TTTGAT-TT
1 TTT-TTCTT
*
10180733 TTGTTCTT
1 TTTTTCTT
*
10180741 TCTTTTTTT
1 T-TTTTCTT
10180750 TTTCTTCTT
1 TTT-TTCTT
10180759 TTTTTCTT
1 TTTTTCTT
*
10180767 CTTTTCTT
1 TTTTTCTT
10180775 TTTT
1 TTTT
10180779 GTTTTTGCCC
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
7 1 0.02
8 27 0.64
9 14 0.33
ACGTcount: A:0.02, C:0.13, G:0.03, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:10185404 original size:2 final size:2
Alignment explanation
Indices: 10185397--10185427 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10185387 AGTACGAATA
10185397 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10185428 AATAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10185446 original size:22 final size:21
Alignment explanation
Indices: 10185421--10185465 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10185411 ATATATATAT
10185421 ATATATAAATAAAAAAAATTAA
1 ATATATAAAT-AAAAAAATTAA
* *
10185443 ATATATAAATTAATAAATTAA
1 ATATATAAATAAAAAAATTAA
10185464 AT
1 AT
10185466 GACGAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
ATATATAAATAAAAAAATTAA
Found at i:10185758 original size:20 final size:21
Alignment explanation
Indices: 10185729--10185771 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10185719 ATACAACAAT
10185729 AATATCAATAAAATGAAAATA
1 AATATCAATAAAATGAAAATA
* *
10185750 AATAT-AATATAATGATAATA
1 AATATCAATAAAATGAAAATA
10185770 AA
1 AA
10185772 AATATAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (21 bp):
AATATCAATAAAATGAAAATA
Found at i:10185936 original size:12 final size:11
Alignment explanation
Indices: 10185909--10185948 Score: 55
Period size: 12 Copynumber: 3.6 Consensus size: 11
10185899 TAACAAAATA
*
10185909 AATAATATAA-
1 AATAATACAAG
10185919 AATAATACAAG
1 AATAATACAAG
10185930 TAATAATACAAG
1 -AATAATACAAG
10185942 AATAATA
1 AATAATA
10185949 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
10 9 0.33
11 7 0.26
12 11 0.41
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (11 bp):
AATAATACAAG
Found at i:10185992 original size:21 final size:21
Alignment explanation
Indices: 10185967--10186010 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10185957 GAGAAAGTAA
10185967 AAAAATATA-ATAATAAAATAT
1 AAAAATATACAT-ATAAAATAT
*
10185988 AAAAATATACATATATAATAT
1 AAAAATATACATATAAAATAT
10186009 AA
1 AA
10186011 TAAGTAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATATACATATAAAATAT
Found at i:10186656 original size:37 final size:37
Alignment explanation
Indices: 10186615--10186719 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
10186605 GTGCTTGTGG
* * * *
10186615 ATCCTATCTTTAGAATTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
* * *
10186652 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
*
10186689 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAGTAG
10186720 GACGAAAAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGTAGAACTCT
Found at i:10189374 original size:18 final size:18
Alignment explanation
Indices: 10189333--10189375 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
10189323 AATTCCAATG
*
10189333 TTCTTCTTTTTCTCTGTC
1 TTCTTCTTTGTCTCTGTC
*
10189351 TCCTTCTTTGTCTC-GTCC
1 TTCTTCTTTGTCTCTGT-C
10189369 TTCTTCT
1 TTCTTCT
10189376 CGAGGTCTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.00, C:0.33, G:0.07, T:0.60
Consensus pattern (18 bp):
TTCTTCTTTGTCTCTGTC
Found at i:10191563 original size:896 final size:896
Alignment explanation
Indices: 10189832--10192184 Score: 4661
Period size: 896 Copynumber: 2.6 Consensus size: 896
10189822 TCTTCTTCTC
10189832 TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
1 TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
10189897 TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
66 TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
10189962 ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAGTCGAAGTTTGAAGTGGAGGCCATTGATG
131 ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAGTCGAAGTTTGAAGTGGAGGCCATTGATG
10190027 AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
196 AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
10190092 GGCTCTGATATCAATTATTGAGTTAATCGATCGACGTAAAAGCCAAGGGGGTGAATTGGCAATAA
261 GGCTCTGATATCAATTATTGAGTTAATCGATCGACGTAAAAGCCAAGGGGGTGAATTGGCAATAA
10190157 AAATTTCAGTGGAAGCTTTTGCAAAAAATTAAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
326 AAATTTCAGTGGAAGCTTTTGCAAAAAATTAAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
*
10190222 TTCTTAACCAAGTCTACGTCTGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
391 TTCTTAACCAAGTCTACGTCCGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
10190287 ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
456 ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
10190352 TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGCGATAATCGTCGTCTTCTTCGATTG
521 TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGCGATAATCGTCGTCTTCTTCGATTG
10190417 CCAAGCTTTTGGAAGAGAATAAATTAACTTACTTACAAGCTTCTCATTTGGAATGATCTCTCCAT
586 CCAAGCTTTTGGAAGAGAATAAATTAACTTACTTACAAGCTTCTCATTTGGAATGATCTCTCCAT
10190482 ATGATTTGAGATCATTAACAATCACGGAAAATCTATCCATCATAGCTTTGATGTCTTCATCCGGT
651 ATGATTTGAGATCATTAACAATCACGGAAAATCTATCCATCATAGCTTTGATGTCTTCATCCGGT
10190547 TTCATCCTGAAATTTTCATAGCTATGAGTTAGAAGACTAATTTTAGATTCTTTTACCTCGTTGGT
716 TTCATCCTGAAATTTTCATAGCTATGAGTTAGAAGACTAATTTTAGATTCTTTTACCTCGTTGGT
*
10190612 GCCTTTATGAGTGACTTCTAGTTTATCTCATATTTCTTTGGTGGCTGTACAAGATGAAACTCTCT
781 GCCTTTATGAGTGACTTCTAGTTTATCTCATATTTATTTGGTGGCTGTACAAGATGAAACTCTCT
10190677 CGTATTCATCTGGTCCAAGAGCACAAAATAGAATATGGATAGCCATTGAGT
846 CGTATTCATCTGGTCCAAGAGCACAAAATAGAATATGGATAGCCATTGAGT
10190728 TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
1 TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
10190793 TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
66 TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
10190858 ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAGTCGAAGTTTGAAGTGGAGGCCATTGATG
131 ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAGTCGAAGTTTGAAGTGGAGGCCATTGATG
10190923 AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
196 AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
10190988 GGCTCTGATATCAATTATTGAGTTAATCGATCGACGTAAAAGCCAAGGGGGTGAATTGGCAATAA
261 GGCTCTGATATCAATTATTGAGTTAATCGATCGACGTAAAAGCCAAGGGGGTGAATTGGCAATAA
10191053 AAATTTCAGTGGAAGCTTTTGCAAAAAATTAAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
326 AAATTTCAGTGGAAGCTTTTGCAAAAAATTAAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
10191118 TTCTTAACCAAGTCTACGTCCGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
391 TTCTTAACCAAGTCTACGTCCGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
10191183 ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
456 ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
10191248 TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGCGATAATCGTCGTCTTCTTCGATTG
521 TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGCGATAATCGTCGTCTTCTTCGATTG
10191313 CCAAGCTTTTGGAAGAGAATAAATTAACTTACTTACAAGCTTCTCATTTGGAATGATCTCTCCAT
586 CCAAGCTTTTGGAAGAGAATAAATTAACTTACTTACAAGCTTCTCATTTGGAATGATCTCTCCAT
10191378 ATGATTTGAGATCATTAACAATCACGGAAAATCTATCCATCATAGCTTTGATGTCTTCATCCGGT
651 ATGATTTGAGATCATTAACAATCACGGAAAATCTATCCATCATAGCTTTGATGTCTTCATCCGGT
10191443 TTCATCCTGAAATTTTCATAGCTATGAGTTAGAAGACTAATTTTAGATTCTTTTACCTCGTTGGT
716 TTCATCCTGAAATTTTCATAGCTATGAGTTAGAAGACTAATTTTAGATTCTTTTACCTCGTTGGT
10191508 GCCTTTATGAGTGACTTCTAGTTTATCTCATATTTATTTGGTGGCTGTACAAGATGAAACTCTCT
781 GCCTTTATGAGTGACTTCTAGTTTATCTCATATTTATTTGGTGGCTGTACAAGATGAAACTCTCT
10191573 CGTATTCATCTGGTCCAAGAGCACAAAATAGAATATGGATAGCCATTGAGT
846 CGTATTCATCTGGTCCAAGAGCACAAAATAGAATATGGATAGCCATTGAGT
10191624 TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
1 TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
10191689 TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
66 TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
*
10191754 ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAATCGAAGTTTGAAGTGGAGGCCATTGATG
131 ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAGTCGAAGTTTGAAGTGGAGGCCATTGATG
10191819 AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
196 AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
*
10191884 GGCTCTGATATCAATTATTGAGTTAATCGATCGACATAAAAGCCAAGGGGGTGAATTGGCAATAA
261 GGCTCTGATATCAATTATTGAGTTAATCGATCGACGTAAAAGCCAAGGGGGTGAATTGGCAATAA
*
10191949 AAATTTCAGTGGAAGCTTTTGCAAAAAATTTAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
326 AAATTTCAGTGGAAGCTTTTGCAAAAAATTAAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
10192014 TTCTTAACCAAGTCTACGTCCGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
391 TTCTTAACCAAGTCTACGTCCGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
10192079 ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
456 ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
10192144 TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGC
521 TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGC
10192185 AAACTTACAG
Statistics
Matches: 1452, Mismatches: 5, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
896 1452 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (896 bp):
TCCACAAATTTGGATGTGTGGATGGTTCGGAGTATCTGTTCACTATGCTTTTCCATGCTCCTATA
TCACTTTCTTGAATGAAGTATCTCAATATATTCTTCCAATAAGCATAATTAGCTATATTCAAGAA
ATGAGGCTTGTTGATGGGCTGAGAATCAAGAATGAAGTCGAAGTTTGAAGTGGAGGCCATTGATG
AATTGAATATCGATGTAACTCTTCTTGAATCGACTCAAGAGGTGGTTAAACCTTCAAATGAGTGA
GGCTCTGATATCAATTATTGAGTTAATCGATCGACGTAAAAGCCAAGGGGGTGAATTGGCAATAA
AAATTTCAGTGGAAGCTTTTGCAAAAAATTAAAAAAAATTGCACAATGATTTAGAGTGGTTCGAC
TTCTTAACCAAGTCTACGTCCGCTACCTTAGCTATCCACACTAAGGATTTTCCACAAATTCACTA
ATTTGTCTTTCATTTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTA
TTGAGAACACTCTCTCCCAAAGAGAAAAATACAAATTCCGCGATAATCGTCGTCTTCTTCGATTG
CCAAGCTTTTGGAAGAGAATAAATTAACTTACTTACAAGCTTCTCATTTGGAATGATCTCTCCAT
ATGATTTGAGATCATTAACAATCACGGAAAATCTATCCATCATAGCTTTGATGTCTTCATCCGGT
TTCATCCTGAAATTTTCATAGCTATGAGTTAGAAGACTAATTTTAGATTCTTTTACCTCGTTGGT
GCCTTTATGAGTGACTTCTAGTTTATCTCATATTTATTTGGTGGCTGTACAAGATGAAACTCTCT
CGTATTCATCTGGTCCAAGAGCACAAAATAGAATATGGATAGCCATTGAGT
Found at i:10194018 original size:31 final size:31
Alignment explanation
Indices: 10193980--10194040 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
10193970 AAAGAAAATT
*
10193980 TATGATAATTTATTTAGACAAAATAACAAAC
1 TATGATAATTTATATAGACAAAATAACAAAC
10194011 TATGATAATTTATATAGACAAAATAACAAA
1 TATGATAATTTATATAGACAAAATAACAAA
10194041 TTAATTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (31 bp):
TATGATAATTTATATAGACAAAATAACAAAC
Found at i:10194216 original size:33 final size:32
Alignment explanation
Indices: 10194132--10194217 Score: 82
Period size: 33 Copynumber: 2.6 Consensus size: 32
10194122 AAATAGTTAT
* *
10194132 AATAACAAATTATAATAAATATTAATTTCTCAA
1 AATAA-AAATTATAACAAATAATAATTTCTCAA
* * * *
10194165 TATAAAAAGTTATGACAAATAATATTTTTTCAA
1 AATAAAAA-TTATAACAAATAATAATTTCTCAA
*
10194198 AATAATCAATTATAACAAAT
1 AATAA-AAATTATAACAAAT
10194218 TTATTTAGTC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
32 3 0.07
33 37 0.88
34 2 0.05
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.36
Consensus pattern (32 bp):
AATAAAAATTATAACAAATAATAATTTCTCAA
Found at i:10194234 original size:98 final size:96
Alignment explanation
Indices: 10194087--10194449 Score: 263
Period size: 98 Copynumber: 3.7 Consensus size: 96
10194077 ATTTAGTCAA
* * * ** * *
10194087 AATATTTTATCAAAATAAAAAATTATGACAAATTTAAATAGTTATAATAACAAATTATAATAAAT
1 AATATTTTTTCAAAAT-AACAATTATAACAAATTTATTTAGTCACAATAACAAATTATAATAAAT
10194152 ATTAATTTCTCAATATAAAAAGTTATGACAAAT
65 ATTAATTTCTCAATATAAAAA-TTATGACAAAT
* *
10194185 AATATTTTTTCAAAATAATCAATTATAACAAATTTATTTAGTCACAATAATATATTA-AATTTAG
1 AATATTTTTTCAAAATAA-CAATTATAACAAATTTATTTAGTCACAATAACAAATTATAA--TA-
* * ** * * * ** *
10194249 TCAAAATAAAAAGT-T--ATGTTAAATTTATTTCATCAT
62 --AATAT-TAATTTCTCAATATAAAAATTATGACA-AAT
* * * * * *
10194285 AATATTTTCTCAAAATAACAACTTTTGACAAATTTATTTAATCA-AATTAACAATTTATAACAAA
1 AATATTTTTTCAAAATAACAA-TTATAACAAATTTATTTAGTCACAA-TAACAAATTATAATAAA
*
10194349 TATTAATTTCTCATTATAAAACATTATGACAAAT
64 TATTAATTTCTCAATATAAAA-ATTATGACAAAT
* * * * *
10194383 AATTTTTTTTCACAATAACAAATTGTAACAAAATTATTTAGTCACAGTAA-AAAGTTATAA-AAA
1 AATATTTTTTCAAAATAAC-AATTATAACAAATTTATTTAGTCACAATAACAAA-TTATAATAAA
10194446 TATT
64 TATT
10194450 TAGTGACGAA
Statistics
Matches: 200, Mismatches: 47, Indels: 37
0.70 0.17 0.13
Matches are distributed among these distances:
95 3 0.01
96 5 0.03
97 13 0.06
98 95 0.47
99 23 0.12
100 51 0.25
101 2 0.01
102 5 0.03
103 3 0.01
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.39
Consensus pattern (96 bp):
AATATTTTTTCAAAATAACAATTATAACAAATTTATTTAGTCACAATAACAAATTATAATAAATA
TTAATTTCTCAATATAAAAATTATGACAAAT
Found at i:10194355 original size:198 final size:198
Alignment explanation
Indices: 10193998--10194428 Score: 539
Period size: 198 Copynumber: 2.2 Consensus size: 198
10193988 TTTATTTAGA
* * * * * * * *
10193998 CAAAATAACAAACTATGA-TAATTTATATAGACAAAATAACAAATTAATTTTAGTTAAAATAAAA
1 CAAAATAACAAATTATAACAAATTTATTTAGTCACAATAACAAATTAAATTTAGTCAAAATAAAA
10194062 AATTATGTCAAATTTATTTAGTCAAAATATTTTATCAAAATAAAAAATTATGACAAATTTAAATA
66 AATTATGTCAAATTTATTTAGTCAAAATATTTTATCAAAATAAAAAATTATGACAAATTTAAATA
* * *
10194127 GTTATAATAACAAATTATAATAAATATTAATTTCTCAATATAAAA-AGTTATGACAAATAATATT
131 ATCATAATAACAAATTATAACAAATATTAATTTCTCAATATAAAACA-TTATGACAAATAATATT
10194191 TTTT
195 TTTT
* *
10194195 CAAAATAATC-AATTATAACAAATTTATTTAGTCACAATAATATATTAAATTTAGTCAAAATAAA
1 CAAAATAA-CAAATTATAACAAATTTATTTAGTCACAATAACAAATTAAATTTAGTCAAAATAAA
* * * * * * * **
10194259 AAGTTATGTTAAATTTATTTCA-TCATAATATTTTCTCAAAATAACAACTTTTGACAAATTTATT
65 AAATTATGTCAAATTTATTT-AGTCAAAATATTTTATCAAAATAAAAAATTATGACAAATTTAAA
* * *
10194323 TAATCA-AATTAACAATTTATAACAAATATTAATTTCTCATTATAAAACATTATGACAAATAATT
129 TAATCATAA-TAACAAATTATAACAAATATTAATTTCTCAATATAAAACATTATGACAAATAATA
10194387 TTTTTT
193 TTTTTT
* * *
10194393 CACAATAACAAATTGTAACAAAATTATTTAGTCACA
1 CAAAATAACAAATTATAACAAATTTATTTAGTCACA
10194429 GTAAAAAGTT
Statistics
Matches: 200, Mismatches: 28, Indels: 11
0.84 0.12 0.05
Matches are distributed among these distances:
197 17 0.09
198 181 0.90
199 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (198 bp):
CAAAATAACAAATTATAACAAATTTATTTAGTCACAATAACAAATTAAATTTAGTCAAAATAAAA
AATTATGTCAAATTTATTTAGTCAAAATATTTTATCAAAATAAAAAATTATGACAAATTTAAATA
ATCATAATAACAAATTATAACAAATATTAATTTCTCAATATAAAACATTATGACAAATAATATTT
TTT
Found at i:10195616 original size:13 final size:13
Alignment explanation
Indices: 10195598--10195645 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
10195588 ACCTAACCCG
10195598 ACCCGACCCATTT
1 ACCCGACCCATTT
*
10195611 ACCCGACCCGTTT
1 ACCCGACCCATTT
*
10195624 ACCCGA-CCAGTTG
1 ACCCGACCCA-TTT
10195637 ACCCGACCC
1 ACCCGACCC
10195646 GACCCGTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
12 2 0.07
13 26 0.87
14 2 0.07
ACGTcount: A:0.21, C:0.48, G:0.15, T:0.17
Consensus pattern (13 bp):
ACCCGACCCATTT
Found at i:10195646 original size:31 final size:31
Alignment explanation
Indices: 10195611--10195677 Score: 98
Period size: 31 Copynumber: 2.2 Consensus size: 31
10195601 CGACCCATTT
* *
10195611 ACCCGACCCGTTTACCCGACCAGTTGACCCG
1 ACCCGACCCGTTGACCCGACCAGTTGACCCA
* *
10195642 ACCCGACCCGTTGACTCGACCCGTTGACCCA
1 ACCCGACCCGTTGACCCGACCAGTTGACCCA
10195673 ACCCG
1 ACCCG
10195678 TTGACCGTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.19, C:0.46, G:0.19, T:0.15
Consensus pattern (31 bp):
ACCCGACCCGTTGACCCGACCAGTTGACCCA
Found at i:10195647 original size:18 final size:18
Alignment explanation
Indices: 10195624--10195664 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10195614 CGACCCGTTT
10195624 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
* *
10195642 ACCCGACCCGTTGACTCG
1 ACCCGACCAGTTGACCCG
10195660 ACCCG
1 ACCCG
10195665 TTGACCCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.20, C:0.46, G:0.22, T:0.12
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:10195661 original size:13 final size:13
Alignment explanation
Indices: 10195645--10195697 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
10195635 TGACCCGACC
10195645 CGACCCGTTGACT
1 CGACCCGTTGACT
*
10195658 CGACCCGTTGACC
1 CGACCCGTTGACT
*
10195671 CAACCCGTTGACCGT
1 CGACCCGTTGA-C-T
*
10195686 TGACCCGTTGAC
1 CGACCCGTTGAC
10195698 CGTTGACCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 22 0.67
14 2 0.06
15 9 0.27
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.21
Consensus pattern (13 bp):
CGACCCGTTGACT
Found at i:10195662 original size:44 final size:44
Alignment explanation
Indices: 10195593--10195683 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
10195583 TCATAACCTA
* * *
10195593 ACCCGACCCGACCCATTTACCCGACCCGTTTACCCGACCAGTTG
1 ACCCGACCCGACCCATTGACCCGACCCGTTGACCCAACCAGTTG
* * *
10195637 ACCCGACCCGACCCGTTGACTCGACCCGTTGACCCAACCCGTTG
1 ACCCGACCCGACCCATTGACCCGACCCGTTGACCCAACCAGTTG
10195681 ACC
1 ACC
10195684 GTTGACCCGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.20, C:0.46, G:0.18, T:0.16
Consensus pattern (44 bp):
ACCCGACCCGACCCATTGACCCGACCCGTTGACCCAACCAGTTG
Found at i:10195670 original size:26 final size:28
Alignment explanation
Indices: 10195641--10195698 Score: 84
Period size: 26 Copynumber: 2.1 Consensus size: 28
10195631 CAGTTGACCC
*
10195641 GACCCGACCCGTTGA-C-TCGACCCGTT
1 GACCCAACCCGTTGACCGTCGACCCGTT
*
10195667 GACCCAACCCGTTGACCGTTGACCCGTT
1 GACCCAACCCGTTGACCGTCGACCCGTT
10195695 GACC
1 GACC
10195699 GTTGACCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 14 0.50
27 1 0.04
28 13 0.46
ACGTcount: A:0.17, C:0.41, G:0.22, T:0.19
Consensus pattern (28 bp):
GACCCAACCCGTTGACCGTCGACCCGTT
Found at i:10195687 original size:7 final size:7
Alignment explanation
Indices: 10195675--10195705 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
10195665 TTGACCCAAC
10195675 CCGTTGA
1 CCGTTGA
10195682 CCGTTGA
1 CCGTTGA
10195689 CCCGTTGA
1 -CCGTTGA
10195697 CCGTTGA
1 CCGTTGA
10195704 CC
1 CC
10195706 ATTGTTGACC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.35, G:0.26, T:0.26
Consensus pattern (7 bp):
CCGTTGA
Found at i:10195693 original size:15 final size:15
Alignment explanation
Indices: 10195673--10195705 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
10195663 CGTTGACCCA
10195673 ACCCGTTGACCGTTG
1 ACCCGTTGACCGTTG
10195688 ACCCGTTGACCGTTG
1 ACCCGTTGACCGTTG
10195703 ACC
1 ACC
10195706 ATTGTTGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.36, G:0.24, T:0.24
Consensus pattern (15 bp):
ACCCGTTGACCGTTG
Found at i:10198120 original size:23 final size:24
Alignment explanation
Indices: 10198094--10198183 Score: 112
Period size: 23 Copynumber: 3.8 Consensus size: 24
10198084 TCAAATTTGA
*
10198094 ATTCTGTTATGATA-TTGACCTGG
1 ATTCTGATATGATACTTGACCTGG
* *
10198117 ATTCTGATCTGATA-TTGACATGG
1 ATTCTGATATGATACTTGACCTGG
* * *
10198140 ATTCTGATCTGATACATGACCTGA
1 ATTCTGATATGATACTTGACCTGG
10198164 ATTCTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
10198184 TTGAATTATG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
23 34 0.59
24 24 0.41
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACCTGG
Found at i:10198307 original size:35 final size:36
Alignment explanation
Indices: 10198260--10198336 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 36
10198250 TGGAGGAAGA
*
10198260 TTACTTGGAGGCTCCTCGGC-TGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGCTTGTGTGCTCAGGGCC
10198295 TTACTTGCAGGCTCCTCGGCTTTGTGTGCTCAGGGCC
1 TTACTTGCAGGCTCCTCGGC-TTGTGTGCTCAGGGCC
10198332 TTACT
1 TTACT
10198337 GTTCGTGACG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
35 19 0.49
37 20 0.51
ACGTcount: A:0.09, C:0.29, G:0.30, T:0.32
Consensus pattern (36 bp):
TTACTTGCAGGCTCCTCGGCTTGTGTGCTCAGGGCC
Found at i:10206933 original size:17 final size:19
Alignment explanation
Indices: 10206895--10206935 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
10206885 AAGTAAAACT
10206895 AATATTTCTTATGCACATC
1 AATATTTCTTATGCACATC
*
10206914 AATATTT-TTAT-CAGATC
1 AATATTTCTTATGCACATC
10206931 AATAT
1 AATAT
10206936 GTCTGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 4 0.19
19 7 0.33
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTCTTATGCACATC
Found at i:10210754 original size:34 final size:34
Alignment explanation
Indices: 10210697--10210762 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
10210687 GACAAAATAT
* * *
10210697 AGTGTATTATGGAATATAGGAACACTTAAACTTA
1 AGTGAATTAAGGAATATAAGAACACTTAAACTTA
10210731 AGTGAATTAAGGAATATAAGAACACTTAAACT
1 AGTGAATTAAGGAATATAAGAACACTTAAACT
10210763 ATTAAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.29
Consensus pattern (34 bp):
AGTGAATTAAGGAATATAAGAACACTTAAACTTA
Found at i:10210810 original size:2 final size:2
Alignment explanation
Indices: 10210803--10210848 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
10210793 TTGAATACCT
10210803 TA TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10210844 TA TA T
1 TA TA T
10210849 TTAAAGAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10213063 original size:58 final size:59
Alignment explanation
Indices: 10212949--10213063 Score: 137
Period size: 58 Copynumber: 1.9 Consensus size: 59
10212939 ACATATAGTA
* * * *
10212949 TGGGATGAAATTGAAATGTTCTAAAAGTTTGAGAATCAATTTAGAATGAAGGTCATAATT
1 TGGGATGAAATTGAAATATTC-AAAAGTCTAAGAATCAATTTAGAATGAAGATCATAATT
*
10213009 TGGGATGAAATT-AAACTATTC-AAAGTCTAAGAATTAATTTAGAATGATA-ATCATA
1 TGGGATGAAATTGAAA-TATTCAAAAGTCTAAGAATCAATTTAGAATGA-AGATCATA
10213064 GTTTAAGGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
58 28 0.58
59 4 0.08
60 16 0.33
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (59 bp):
TGGGATGAAATTGAAATATTCAAAAGTCTAAGAATCAATTTAGAATGAAGATCATAATT
Found at i:10223546 original size:3 final size:3
Alignment explanation
Indices: 10223522--10223560 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
10223512 CTACAAAAGA
* *
10223522 AAT ATT AAT ATT AAT AAAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AA
10223561 CAACGGGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:10223983 original size:110 final size:111
Alignment explanation
Indices: 10223764--10224330 Score: 850
Period size: 111 Copynumber: 5.1 Consensus size: 111
10223754 TTCAGGGAAG
** * * * **
10223764 ATTGAATCAGGGTAGACTTGTTCCATTATCACTTATGGAATATCAAATCTTGAAAGAGATTTGAT
1 ATTGAATCAGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGA-GGGAT
* * * * *
10223829 ATGTTCCACTTCTTCTGAGGGAATATCAGATCTAGGAAAGTTGATCC
65 CTGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* * *
10223876 ATTGAATCAGGGT-GACTTGTTCCACTGTCACTAAGGGAATATCAAATCTTGAAAGAGAGGGATA
1 ATTGAATCAGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
*
10223940 TGTTCCGCTTCCTCTGAGGGAATATCAGATATGGGAAAGTTGATTC
66 TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* *
10223986 ATTGAATCAAGGTAGACTTGTTCCGCTGTCATTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* *
10224051 TGTTCCGCTTCCTCTGAGGGAATATCAGATATGGGAAAGTTGATTT
66 TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* *
10224097 ATTGAATCAAGGTAGACTTG-TCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGTGGGATC
1 ATTGAATCAGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
*
10224161 TGTTCCGCTTTCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
66 TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
* * *
10224207 ATTGAATCAGCGTAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGATGGATC
1 ATTGAATCAGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
* * *
10224272 TATTCCGCTTTCTCTGAGGGAATATCAGATCTGGGAAAGTTGATCC
66 TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
10224318 ATTGAATCAGGGT
1 ATTGAATCAGGGT
10224331 CGAACCTGAA
Statistics
Matches: 423, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
110 160 0.38
111 250 0.59
112 13 0.03
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (111 bp):
ATTGAATCAGGGTAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATTC
Found at i:10224148 original size:221 final size:221
Alignment explanation
Indices: 10223764--10224326 Score: 853
Period size: 221 Copynumber: 2.5 Consensus size: 221
10223754 TTCAGGGAAG
* ** * *
10223764 ATTGAATCAGGGTAGACTTGTTCCATTATCACTT-ATGGAATATCAAATCTTGAAAGAGATTTGA
1 ATTGAATCAAGGTAGACTTGTTCCGCTATCA-TTCAGGGAATATCAAATCTTGAAAGAGA-TGGA
* * * * *
10223828 TATGTTCCACTTCTTCTGAGGGAATATCAGATCTAGGAAAGTTGATCCATTGAATCAGGGTGACT
64 TCTGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAAGGTGACT
10223893 TGTTCCACTGTCACTAAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGAG
129 TGTTCCACTGTCACTAAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGAG
10223958 GGAATATCAGATATGGGAAAGTTGATTC
194 GGAATATCAGATATGGGAAAGTTGATTC
* *
10223986 ATTGAATCAAGGTAGACTTGTTCCGCTGTCATTCAGGGAATATCAAATCTTGAAAGAGAGGGATC
1 ATTGAATCAAGGTAGACTTGTTCCGCTATCATTCAGGGAATATCAAATCTTGAAAGAGATGGATC
* **
10224051 TGTTCCGCTTCCTCTGAGGGAATATCAGATATGGGAAAGTTGATTTATTGAATCAAGGTAGACTT
66 TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAAGGT-GACTT
* * * * *
10224116 G-TCCGCTGTCACTCAGGGAATATCAAATCTTGAAAGAGTGGGATCTGTTCCGCTTTCTCTGAGG
130 GTTCCACTGTCACTAAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGAGG
*
10224180 GAATATCAGATCTGGGAAAGTTGATTC
195 GAATATCAGATATGGGAAAGTTGATTC
*
10224207 ATTGAATC-AGCGTAGACTTGTTCCGCTATCACTCAGGGAATATCAAATCTTGAAAGAGATGGAT
1 ATTGAATCAAG-GTAGACTTGTTCCGCTATCATTCAGGGAATATCAAATCTTGAAAGAGATGGAT
* *
10224271 CTATTCCGCTTTCTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCA
65 CTGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCA
10224327 GGGTCGAACC
Statistics
Matches: 309, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
220 2 0.01
221 250 0.81
222 57 0.18
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (221 bp):
ATTGAATCAAGGTAGACTTGTTCCGCTATCATTCAGGGAATATCAAATCTTGAAAGAGATGGATC
TGTTCCGCTTCCTCTGAGGGAATATCAGATCTGGGAAAGTTGATCCATTGAATCAAGGTGACTTG
TTCCACTGTCACTAAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTCCGCTTCCTCTGAGGG
AATATCAGATATGGGAAAGTTGATTC
Found at i:10231966 original size:27 final size:27
Alignment explanation
Indices: 10231927--10231986 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
10231917 TTTTTTATGA
10231927 ATTTTT-TTAATTTCATAA-ATTTAATT
1 ATTTTTATTAATTT-ATAATATTTAATT
* **
10231953 ATTTTTATTTATTTATAATATTTTTTT
1 ATTTTTATTAATTTATAATATTTAATT
10231980 ATTTTTA
1 ATTTTTA
10231987 AAAATTTTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (27 bp):
ATTTTTATTAATTTATAATATTTAATT
Found at i:10240470 original size:29 final size:26
Alignment explanation
Indices: 10240438--10240496 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
10240428 AACTATGTCT
*
10240438 TTAAAAATATTTTATTTTTGTTTATTAAA
1 TTAAAAATA-TTTAATTTTG--TATTAAA
* *
10240467 TTAATATTATTTAATTTTGTATTAAA
1 TTAAAAATATTTAATTTTGTATTAAA
10240493 TTAA
1 TTAA
10240497 TTTAATCTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 11 0.41
28 9 0.33
29 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (26 bp):
TTAAAAATATTTAATTTTGTATTAAA
Found at i:10240896 original size:18 final size:17
Alignment explanation
Indices: 10240871--10240926 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 17
10240861 GAATTAAATC
*
10240871 AATTTAAACTATAATAA
1 AATTTAAATTATAATAA
10240888 AAGTTTAAAATTATAAATAA
1 AA-TTT-AAATTAT-AATAA
10240908 AA-TTATAATTATAATAA
1 AATTTA-AATTATAATAA
10240925 AA
1 AA
10240927 ATATATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 10 0.29
18 11 0.32
19 6 0.18
20 7 0.21
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (17 bp):
AATTTAAATTATAATAA
Found at i:10241559 original size:22 final size:22
Alignment explanation
Indices: 10241533--10241588 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
10241523 CAATATTGAG
10241533 ATTATAAAATATA-AATAATAT
1 ATTATAAAATATAGAATAATAT
*
10241554 ATTTATAAAATAAAGAATAATAT
1 A-TTATAAAATATAGAATAATAT
*
10241577 ATTAAAAAATAT
1 ATTATAAAATAT
10241589 TTTAATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 20 0.67
23 9 0.30
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTATAAAATATAGAATAATAT
Found at i:10241613 original size:31 final size:33
Alignment explanation
Indices: 10241552--10241613 Score: 76
Period size: 31 Copynumber: 1.9 Consensus size: 33
10241542 TATAAATAAT
*
10241552 ATATTTATAAAATAAAGAATAATATATTAAAAA
1 ATATTTATAAAATAAAGAATAATAGATTAAAAA
*
10241585 ATATTT-TAATAAT-AA-AATAATAGCTTAAA
1 ATATTTATAA-AATAAAGAATAATAGATTAAA
10241614 GGTCACATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
31 12 0.46
32 5 0.19
33 9 0.35
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (33 bp):
ATATTTATAAAATAAAGAATAATAGATTAAAAA
Found at i:10242012 original size:137 final size:137
Alignment explanation
Indices: 10241766--10242040 Score: 541
Period size: 137 Copynumber: 2.0 Consensus size: 137
10241756 GGTAGAATAT
10241766 AAAATGATGCAATTGAGTGATTTCGAGGACTAAATTGATATGAAAATACGACAGAAGCAAAAGTG
1 AAAATGATGCAATTGAGTGATTTCGAGGACTAAATTGATATGAAAATACGACAGAAGCAAAAGTG
10241831 ATAAATTAGGTATACTACAAAAATAAAAATTACCCTTTTACCTAAAATAGTTTATAGCATAGACT
66 ATAAATTAGGTATACTACAAAAATAAAAATTACCCTTTTACCTAAAATAGTTTATAGCATAGACT
10241896 TTAAAAA
131 TTAAAAA
10241903 AAAATGATGCAATTGAGTGATTTCGAGGACTAAATTGATATGAAAATACGACAGAAGCAAAAGTG
1 AAAATGATGCAATTGAGTGATTTCGAGGACTAAATTGATATGAAAATACGACAGAAGCAAAAGTG
*
10241968 ATAAATTAGGTATACTACAAAAATTAAAATTACCCTTTTACCTAAAATAGTTTATAGCATAGACT
66 ATAAATTAGGTATACTACAAAAATAAAAATTACCCTTTTACCTAAAATAGTTTATAGCATAGACT
10242033 TTAAAAA
131 TTAAAAA
10242040 A
1 A
10242041 TACGAATATT
Statistics
Matches: 137, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.47, C:0.11, G:0.15, T:0.28
Consensus pattern (137 bp):
AAAATGATGCAATTGAGTGATTTCGAGGACTAAATTGATATGAAAATACGACAGAAGCAAAAGTG
ATAAATTAGGTATACTACAAAAATAAAAATTACCCTTTTACCTAAAATAGTTTATAGCATAGACT
TTAAAAA
Found at i:10248914 original size:3 final size:3
Alignment explanation
Indices: 10248908--10248944 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10248898 ATAGTAGTAG
10248908 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10248945 TGAAATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10249063 original size:45 final size:44
Alignment explanation
Indices: 10249000--10249097 Score: 124
Period size: 45 Copynumber: 2.2 Consensus size: 44
10248990 ACATGTCTTC
* * *
10249000 AAAACTATATTTTCAAAAATTATATATTATATATAATATTTTTAAA
1 AAAATTAT-TTTTCAAAAACTATATAATATATATAATA-TTTTAAA
* * *
10249046 AATATTATTTTTTAAAAACTATATAATATATATTATATTTTAAA
1 AAAATTATTTTTCAAAAACTATATAATATATATAATATTTTAAA
10249090 AAAATTAT
1 AAAATTAT
10249098 ATAATATGTT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 14 0.31
45 25 0.56
46 6 0.13
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (44 bp):
AAAATTATTTTTCAAAAACTATATAATATATATAATATTTTAAA
Found at i:10249098 original size:23 final size:22
Alignment explanation
Indices: 10249072--10249126 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
10249062 AACTATATAA
10249072 TATATATTATATTTTAAAAAAAT
1 TATATATTATATTTT-AAAAAAT
* *
10249095 TATATAATATGTTTTAAAAAAT
1 TATATATTATATTTTAAAAAAT
10249117 TA-A-ATTATAT
1 TATATATTATAT
10249127 ATTTTCAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 5 0.18
21 1 0.04
22 9 0.32
23 13 0.46
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATATTATATTTTAAAAAAT
Found at i:10249104 original size:28 final size:28
Alignment explanation
Indices: 10249047--10249104 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
10249037 ATTTTTAAAA
*
10249047 ATATTATTTTTTAAAAACTATATAATAT
1 ATATTATTTTTAAAAAACTATATAATAT
*
10249075 ATATTATATTTTAAAAAAATTATATAATAT
1 ATATTAT-TTTT-AAAAAACTATATAATAT
10249105 GTTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 7 0.27
29 4 0.15
30 15 0.58
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
ATATTATTTTTAAAAAACTATATAATAT
Found at i:10249126 original size:22 final size:21
Alignment explanation
Indices: 10249077--10249131 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
10249067 TATAATATAT
* *
10249077 ATTATATTTTAAAAAAATTAT
1 ATTATATTTTTAAAAAATTAA
*
10249098 ATAATATGTTTTAAAAAATTAA
1 ATTATAT-TTTTAAAAAATTAA
10249120 ATTATATATTTT
1 ATTATAT-TTTT
10249132 CAATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTATATTTTTAAAAAATTAA
Found at i:10253299 original size:47 final size:47
Alignment explanation
Indices: 10253230--10253324 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
10253220 GTGTTTCGGT
10253230 TTGGAGCTTCTAGAGTGATGTTTCGGTAAGGTTTTTGACGTTTGCGC
1 TTGGAGCTTCTAGAGTGATGTTTCGGTAAGGTTTTTGACGTTTGCGC
10253277 TTGGAGCTTCTAGAGTGATGTTTCGGTAAGGTTTTTGACGTTTGCGC
1 TTGGAGCTTCTAGAGTGATGTTTCGGTAAGGTTTTTGACGTTTGCGC
10253324 T
1 T
10253325 ATATTTTGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.15, C:0.13, G:0.32, T:0.41
Consensus pattern (47 bp):
TTGGAGCTTCTAGAGTGATGTTTCGGTAAGGTTTTTGACGTTTGCGC
Found at i:10253568 original size:2 final size:2
Alignment explanation
Indices: 10253561--10253616 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
10253551 TGTAATTCCG
10253561 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10253603 AT -T AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT
10253617 TGTGTTATTT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10260137 original size:277 final size:274
Alignment explanation
Indices: 10259647--10260173 Score: 1011
Period size: 277 Copynumber: 1.9 Consensus size: 274
10259637 TTAGCGACAC
10259647 TACTTGTTTGGTGAGAAGTGTATTCTTTACACTGATCACAAGAGTCCCAAATACCTCCTCACTCA
1 TACTTGTTTGGTGAGAAGTGTATTCTTTACACTGATCACAAGAGTCCCAAATACCTCCTCACTCA
10259712 GAATGAGTTGAATTTGAGGCAGAGGTGTCGGTTGAGTTGTTAAAGGACTATGACTGTGTGATTGA
66 GAATGAGTTGAATTTGAGGCAGAGGTGTCGGTTGAGTTGTTAAAGGACTATGACTGTGTGATTGA
10259777 GTACCATCCGGGTAAGGTTAACATGGTTGCGGATGCCTTGAGTCGAAAGACGATGGGTGAGTTAC
131 GTACCATCCGGGTAAGGTTAACATGGTTGCGGATGCCTTGAGTCGAAAGACGATGGGTGAGTTAC
10259842 GTGCTTTGCTTGATCGTTTGAGTTTGCTGAGGATGGA-CGTTAGAAACTGAGTTGCAAGTTAAGT
196 GTGCTTTGCTTGATCGTTTGAGTTTGCTGAGGATGGAGCGTTAGAAACTGAGTTGCAAGTTAAGT
10259906 CTACATGGTCTCAA
261 CTACATGGTCTCAA
10259920 TACTTGTTTGGTGAGAAGTGTATTCTTTACACTGATCACAAGAGTCCCAAATACCTCCTCACTCA
1 TACTTGTTTGGTGAGAAGTGTATTCTTTACACTGATCACAAGAGTCCCAAATACCTCCTCACTCA
10259985 GAATGAGTTGAATTTGAGGCAGGAGAGGTGTCGGGTTGAGTTGTTAAAGGACTATGACTGTGTGA
66 GAATGAGTTGAATTTGAGGC---AGAGGTGTC-GGTTGAGTTGTTAAAGGACTATGACTGTGTGA
10260050 TTGAGTACCATCCGGGTAAGGTTAACATGGTTGCGGATGCCTTGAGTCGAAAGACGATGGGTGAG
127 TTGAGTACCATCCGGGTAAGGTTAACATGGTTGCGGATGCCTTGAGTCGAAAGACGATGGGTGAG
10260115 TTACGTGCTTTGCTTGATCGTTTGAGTTTGCTGAGGATGGAGCGTTAGAAACTGAGTTG
192 TTACGTGCTTTGCTTGATCGTTTGAGTTTGCTGAGGATGGAGCGTTAGAAACTGAGTTG
10260174 GAATAAAAGT
Statistics
Matches: 249, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
273 85 0.34
276 9 0.04
277 138 0.55
278 17 0.07
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (274 bp):
TACTTGTTTGGTGAGAAGTGTATTCTTTACACTGATCACAAGAGTCCCAAATACCTCCTCACTCA
GAATGAGTTGAATTTGAGGCAGAGGTGTCGGTTGAGTTGTTAAAGGACTATGACTGTGTGATTGA
GTACCATCCGGGTAAGGTTAACATGGTTGCGGATGCCTTGAGTCGAAAGACGATGGGTGAGTTAC
GTGCTTTGCTTGATCGTTTGAGTTTGCTGAGGATGGAGCGTTAGAAACTGAGTTGCAAGTTAAGT
CTACATGGTCTCAA
Found at i:10273832 original size:19 final size:19
Alignment explanation
Indices: 10273808--10273888 Score: 117
Period size: 19 Copynumber: 4.3 Consensus size: 19
10273798 CTTTCATAGA
10273808 TCTTCCAGCTAATCAGGAG
1 TCTTCCAGCTAATCAGGAG
*
10273827 TCTTCCAACTAATCAGGAG
1 TCTTCCAGCTAATCAGGAG
* *
10273846 TCTTCTAGCTAATCAAGAG
1 TCTTCCAGCTAATCAGGAG
* *
10273865 TCTTCTAGCTAATCAGAAG
1 TCTTCCAGCTAATCAGGAG
10273884 TCTTC
1 TCTTC
10273889 TTTTTCTCTT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 56 1.00
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (19 bp):
TCTTCCAGCTAATCAGGAG
Found at i:10277465 original size:3 final size:3
Alignment explanation
Indices: 10277452--10277535 Score: 57
Period size: 3 Copynumber: 27.0 Consensus size: 3
10277442 TTAAAAGAAA
* *
10277452 AAT AAT AAAT AAT AAAT AAT AAT AAT AAT CAT AAT AAT AATT GA- AAT
1 AAT AAT -AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* *
10277499 -AT ACGT -AT AAT ATAT ATAT AAT AAT AAA AAT AAT AAT
1 AAT A-AT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AAT
10277536 TGAAATATAC
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
2 4 0.06
3 45 0.69
4 16 0.25
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10277558 original size:2 final size:2
Alignment explanation
Indices: 10277540--10277576 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
10277530 AATAATTGAA
*
10277540 AT AT AC AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10277577 TTGAAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10277567 original size:49 final size:43
Alignment explanation
Indices: 10277460--10277561 Score: 152
Period size: 43 Copynumber: 2.3 Consensus size: 43
10277450 AAAATAATAA
* *
10277460 ATAATAAATA-ATAATAATAATCATAATAATAATTGAAATATACGT
1 ATAATATATATATAATAATAA--A-AATAATAATTGAAATATACAT
10277505 ATAATATATATATAATAATAAAAATAATAATTGAAATATACAT
1 ATAATATATATATAATAATAAAAATAATAATTGAAATATACAT
10277548 ATAATATATATATA
1 ATAATATATATATA
10277562 TATATATATA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
43 34 0.63
44 1 0.02
45 9 0.17
46 10 0.19
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (43 bp):
ATAATATATATATAATAATAAAAATAATAATTGAAATATACAT
Found at i:10277679 original size:20 final size:20
Alignment explanation
Indices: 10277615--10277679 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 20
10277605 TCTTCAAAAC
*
10277615 TATATTTTCAAAAATTATATAA
1 TATATTTTCAAATA-TATAT-A
* *
10277637 TATGTTTTCAAATCTATATTA
1 TATATTTTCAAATATATA-TA
*
10277658 TATATTTCCAAATATATATA
1 TATATTTTCAAATATATATA
10277678 TA
1 TA
10277680 ATTATATTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 20 0.56
22 12 0.33
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.48
Consensus pattern (20 bp):
TATATTTTCAAATATATATA
Found at i:10280605 original size:33 final size:33
Alignment explanation
Indices: 10280560--10280661 Score: 161
Period size: 33 Copynumber: 3.1 Consensus size: 33
10280550 TGAAGATTGG
* *
10280560 TAGGAAACTGATTTTGAGGTTGAATAGGTGAAT
1 TAGGAAATTGATTTTGAGGTTGAATAGGTGAAC
*
10280593 TAGGAAATTGATTTTGAGGTTGAATATGTGAAC
1 TAGGAAATTGATTTTGAGGTTGAATAGGTGAAC
10280626 TA-GAACATTGATTTTGAGGTTGAATAGGTGAAC
1 TAGGAA-ATTGATTTTGAGGTTGAATAGGTGAAC
10280659 TAG
1 TAG
10280662 TTGAGACTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
32 3 0.05
33 60 0.95
ACGTcount: A:0.33, C:0.04, G:0.28, T:0.34
Consensus pattern (33 bp):
TAGGAAATTGATTTTGAGGTTGAATAGGTGAAC
Found at i:10285558 original size:14 final size:14
Alignment explanation
Indices: 10285521--10285559 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
10285511 TATGAGATAA
*
10285521 AGAATTTATATGTT
1 AGAATTTATTTGTT
10285535 AGAATTTATTTGTT
1 AGAATTTATTTGTT
10285549 AGAATTTATTT
1 AGAATTTATTT
10285560 TTGGAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.54
Consensus pattern (14 bp):
AGAATTTATTTGTT
Found at i:10286584 original size:19 final size:19
Alignment explanation
Indices: 10286562--10286626 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
10286552 GTTGGAACTA
10286562 AGATTTTACGTTGCAAGCC
1 AGATTTTACGTTGCAAGCC
* *
10286581 AGATTTTAGGTTGTAAGCC
1 AGATTTTACGTTGCAAGCC
* * *
10286600 AGAATTTATGTTGCAACCC
1 AGATTTTACGTTGCAAGCC
10286619 AGATTTTA
1 AGATTTTA
10286627 GATTATAACT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.35
Consensus pattern (19 bp):
AGATTTTACGTTGCAAGCC
Found at i:10286691 original size:19 final size:19
Alignment explanation
Indices: 10286639--10286740 Score: 55
Period size: 19 Copynumber: 5.4 Consensus size: 19
10286629 TTATAACTGG
*
10286639 ATTTTTAGGTTGT-AACAT
1 ATTTTTAGGTTGTAAACCT
** * *
10286657 GGTTTTAAGTTTTAAACCT
1 ATTTTTAGGTTGTAAACCT
**
10286676 ATTTTTAGGTTGTAAATCGA
1 ATTTTTAGGTTGTAAA-CCT
* * *
10286696 ATTTCTAAGTTGGAAACCT
1 ATTTTTAGGTTGTAAACCT
* * *
10286715 GA-TTTTAGGCTGGAAACGT
1 -ATTTTTAGGTTGTAAACCT
10286734 ATTTTTA
1 ATTTTTA
10286741 AGTTTGAAAT
Statistics
Matches: 60, Mismatches: 20, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
18 10 0.17
19 35 0.58
20 15 0.25
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (19 bp):
ATTTTTAGGTTGTAAACCT
Found at i:10286721 original size:39 final size:37
Alignment explanation
Indices: 10286639--10286749 Score: 102
Period size: 39 Copynumber: 2.9 Consensus size: 37
10286629 TTATAACTGG
* *
10286639 ATTTTTAGGTTGTAACAT-GGTTTTAAGTTTTAAACCT
1 ATTTTTAGGTTGTAA-ATCGATTTTAAGTTTGAAACCT
*
10286676 ATTTTTAGGTTGTAAATCGAATTTCTAAGTTGGAAACCT
1 ATTTTTAGGTTGTAAATCG-ATTT-TAAGTTTGAAACCT
* *
10286715 GA-TTTTAGGCTGGAAA-CGTATTTTTAAGTTTGAAA
1 -ATTTTTAGGTTGTAAATCG-A-TTTTAAGTTTGAAA
10286750 TATCTATTAT
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
36 2 0.03
37 16 0.26
38 16 0.26
39 27 0.44
40 1 0.02
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (37 bp):
ATTTTTAGGTTGTAAATCGATTTTAAGTTTGAAACCT
Found at i:10287670 original size:36 final size:36
Alignment explanation
Indices: 10287557--10287741 Score: 121
Period size: 36 Copynumber: 5.2 Consensus size: 36
10287547 CAAATATTTC
* ** *
10287557 TATGCATGATATACATGT-GTTGGT-TTGATGATTA
1 TATGCATGATATACATGTATTTACTACTGATGATTA
* * * * * * *
10287591 TAAGAATGATATACACT-TGTTTGCTACTGGTTATTG
1 TATGCATGATATACA-TGTATTTACTACTGATGATTA
10287627 TGA-GCATGATATACATGTATTTACTACTGATGATTA
1 T-ATGCATGATATACATGTATTTACTACTGATGATTA
* *** *
10287663 TATGCATGATATATACACACTTT-CTAATG-TGATTA
1 TATGCATGATATACATGTA-TTTACTACTGATGATTA
* ***
10287698 TATACATGATATACATGCGCTTACTACTGATGATTA
1 TATGCATGATATACATGTATTTACTACTGATGATTA
10287734 TATGCATG
1 TATGCATG
10287742 GTCACATGTG
Statistics
Matches: 115, Mismatches: 27, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
34 16 0.14
35 32 0.28
36 63 0.55
37 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (36 bp):
TATGCATGATATACATGTATTTACTACTGATGATTA
Found at i:10289011 original size:14 final size:15
Alignment explanation
Indices: 10288988--10289025 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10288978 ATTATATGGA
10288988 TATT-TTATTCAT-T
1 TATTATTATTCATGT
*
10289001 TTTTATTATTCATGT
1 TATTATTATTCATGT
10289016 TATTATTATT
1 TATTATTATT
10289026 ATATGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.14
14 8 0.38
15 10 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTATTATTCATGT
Found at i:10289541 original size:2 final size:2
Alignment explanation
Indices: 10289534--10289571 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
10289524 TAATACTTTG
*
10289534 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10289572 TTCTTTTTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:10291651 original size:18 final size:18
Alignment explanation
Indices: 10291628--10291667 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
10291618 TTCCTTCAAG
10291628 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
10291646 TCTGGATTCACATCCACT
1 TCTGGATTCACATCCACT
10291664 TCTG
1 TCTG
10291668 AAAGACTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (18 bp):
TCTGGATTCACATCCACT
Found at i:10293408 original size:16 final size:15
Alignment explanation
Indices: 10293382--10293428 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
10293372 AGATCCAATC
10293382 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
10293397 AAGAAGCAAAAAAGAA
1 AAGAA-CAAAAAAGAA
10293413 AA-AA-AAACAAAGAA
1 AAGAACAAA-AAAGAA
10293427 AA
1 AA
10293429 AGAGAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.10
14 8 0.27
15 7 0.23
16 12 0.40
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:10293452 original size:38 final size:36
Alignment explanation
Indices: 10293389--10293461 Score: 94
Period size: 38 Copynumber: 2.0 Consensus size: 36
10293379 ATCAAGAACA
*
10293389 AAAAAGAAAAGAAGCAAAAAAGAAAAAAAAACAAAG
1 AAAAAGAAAACAAGCAAAAAAGAAAAAAAAACAAAG
*
10293425 AAAAAGAGAAACAAG-AACAAAAGGAAAAAAAAGCAAA
1 AAAAAGA-AAACAAGCAA-AAAA-GAAAAAAAAACAAA
10293462 AATCAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 9 0.28
37 10 0.31
38 13 0.41
ACGTcount: A:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (36 bp):
AAAAAGAAAACAAGCAAAAAAGAAAAAAAAACAAAG
Found at i:10294138 original size:22 final size:22
Alignment explanation
Indices: 10294113--10294161 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
10294103 CCATCAATCT
* *
10294113 TTTGAGCATCCAATGTCAAACC
1 TTTGAGCATCAAATGCCAAACC
10294135 TTTGAGCATCAAATGCCAAACC
1 TTTGAGCATCAAATGCCAAACC
10294157 TTTGA
1 TTTGA
10294162 CCAAACACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (22 bp):
TTTGAGCATCAAATGCCAAACC
Found at i:10295152 original size:36 final size:36
Alignment explanation
Indices: 10295105--10295366 Score: 263
Period size: 36 Copynumber: 7.4 Consensus size: 36
10295095 ATTGAAAACA
* *
10295105 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
10295141 TTTCCCTTGAAACAAAATTTTGCCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* * *
10295178 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
10295214 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* *
10295243 TTT-CTTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
10295278 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
10295315 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
10295351 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
10295367 ATCTTTGAAT
Statistics
Matches: 186, Mismatches: 28, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
28 13 0.07
29 8 0.04
30 2 0.01
34 1 0.01
35 8 0.04
36 92 0.49
37 62 0.33
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:10295229 original size:73 final size:72
Alignment explanation
Indices: 10295105--10295373 Score: 313
Period size: 73 Copynumber: 3.8 Consensus size: 72
10295095 ATTGAAAACA
* * *
10295105 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGCCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTG-CTCTCT
10295170 TGAGACAG
65 TGAGACAG
* * *
10295178 TTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAA------TAT-TT
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGCTCTCTT
*
10295236 GA-ATATG
66 GAGACA-G
* ** * * *
10295243 TTTCT-TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTG-CTCTCT
10295307 TGAGACAG
65 TGAGACAG
*
10295315 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
1 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTG
10295374 AATTTATTTC
Statistics
Matches: 162, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
64 41 0.25
65 10 0.06
66 2 0.01
71 2 0.01
72 10 0.06
73 93 0.57
74 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (72 bp):
TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGCTCTCTT
GAGACAG
Found at i:10295305 original size:137 final size:137
Alignment explanation
Indices: 10295039--10295428 Score: 496
Period size: 137 Copynumber: 2.8 Consensus size: 137
10295029 ACTCATGATT
* * * * *
10295039 GTTTTTCTTAAAACAAGA-TTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATAAACA-TTGAAA
1 GTTTCTCTTGAAACAA-ATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATATTTGAAT
* * * *
10295102 ACATTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGCCTC
64 ATATTT-CCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGCCTC
10295167 TCTTGAGACA
128 TCTTGAGACA
*
10295177 GTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * ** * * * *
10295242 GTTTCTTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
66 ATTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGCCTCTCT
10295307 TGAGACA
131 TGAGACA
* * * *
10295314 GTTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTT
1 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
* * * * *
10295379 ATTTCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
66 ATTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACA
10295429 CAAAATCTTC
Statistics
Matches: 218, Mismatches: 32, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
137 164 0.75
138 54 0.25
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (137 bp):
GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
ATTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATTTTGCCTCTCT
TGAGACA
Found at i:10295324 original size:101 final size:101
Alignment explanation
Indices: 10295147--10295330 Score: 289
Period size: 101 Copynumber: 1.8 Consensus size: 101
10295137 ATAGTTTCCC
* *
10295147 TTGAAACAAAATTTTGCCTCTCTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGAC
1 TTGAAACAAAATTTCGCCTCCCTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGAC
10295212 AGTTTCCCTTGAAACAAAATATTTGAATATGTTTCT
66 AGTTTCCCTTGAAACAAAATATTTGAATATGTTTCT
* * * *
10295248 TTGAAAC-AAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGA
1 TTGAAACAAAATTTCGCCTCCCTTGAGACAGTTTCTCTT-GAAATAAATTTTGTCTCTCTTGAGA
*
10295312 CAGTTTCTCTTGAAACAAA
65 CAGTTTCCCTTGAAACAAA
10295331 TTTCGTCTAT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
100 27 0.36
101 48 0.64
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (101 bp):
TTGAAACAAAATTTCGCCTCCCTTGAGACAGTTTCTCTTGAAATAAATTTTGTCTCTCTTGAGAC
AGTTTCCCTTGAAACAAAATATTTGAATATGTTTCT
Found at i:10295425 original size:64 final size:65
Alignment explanation
Indices: 10295315--10295497 Score: 224
Period size: 64 Copynumber: 2.8 Consensus size: 65
10295305 CTTGAGACAG
* * * ** * **
10295315 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTA
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTA
*
10295380 TTTCCC-TAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATT
10295444 TA
64 TA
* * *
10295446 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA
10295498 CATATATCTT
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
64 32 0.32
65 7 0.07
66 26 0.26
67 9 0.09
68 27 0.27
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (65 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTA
Found at i:10295494 original size:68 final size:66
Alignment explanation
Indices: 10295324--10295496 Score: 224
Period size: 68 Copynumber: 2.6 Consensus size: 66
10295314 GTTTCTCTTG
* ** * **
10295324 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
10295387 A
66 A
*
10295388 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCC-
10295453 TA
65 TA
* * *
10295455 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
10295497 ACATATATCT
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
64 31 0.33
65 2 0.02
66 22 0.23
67 7 0.07
68 32 0.34
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.36
Consensus pattern (66 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
A
Found at i:10296253 original size:105 final size:105
Alignment explanation
Indices: 10296092--10296644 Score: 861
Period size: 105 Copynumber: 5.3 Consensus size: 105
10296082 GCCATCCGCG
* * *
10296092 ATTTCAACTCCACGAC-AGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGA
1 ATTTCAACTTCACAACGA-AGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGA
*
10296156 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
62 AGGGACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
*
10296200 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
10296265 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
10296305 ATTTCAACTTTACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
** *
10296370 A-C-CTGCTTGTCAACAACAACTTCCCAATCGCATAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
*
10296408 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
10296473 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
10296513 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* **
10296578 ACCGCTGCTTGTCAACAA-AA-TT-TC-A-TTCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
* *
10296613 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
10296645 TGAACAATGC
Statistics
Matches: 421, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
100 37 0.09
101 1 0.00
102 1 0.00
103 98 0.23
104 4 0.01
105 255 0.61
106 3 0.01
108 21 0.05
109 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCCCAATTTCAGAGCCA
Found at i:10296416 original size:208 final size:210
Alignment explanation
Indices: 10296092--10296644 Score: 854
Period size: 208 Copynumber: 2.7 Consensus size: 210
10296082 GCCATCCGCG
* * *
10296092 ATTTCAACTCCACGAC-AGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGA
1 ATTTCAACTTCACAACGA-AGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGA
** *
10296156 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGG
62 AGGGACCGCTGCTTGTCAACAACAACTTCTCAATCGCATAGCCAATTTCAACTTCACAACGAAGG
*
10296221 ATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
127 ATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAA
*
10296286 CTTCCCAATTTCAGAGCCA
192 CTTCCCAATCTCAGAGCCA
* *
10296305 ATTTCAACTTTACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
10296370 A-C-CTGCTTGTCAACAACAACTTCCCAATCGCATAGCCAATTTCAACTTCACAACGAAGGATAT
66 ACCGCTGCTTGTCAACAACAACTTCTCAATCGCATAGCCAATTTCAACTTCACAACGAAGGATAT
*
10296433 TGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTC
131 TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTC
10296498 CCAATCTCAGAGCCA
196 CCAATCTCAGAGCCA
10296513 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* * * *
10296578 ACCGCTGCTTGTCAACAA-AA-TT-TCATTCAG-AT--TCAATTTCAACTTCACGACGGAGGATA
66 ACCGCTGCTTGTCAACAACAACTTCTCAATC-GCATAGCCAATTTCAACTTCACAACGAAGGATA
10296637 TTGGACTC
130 TTGGACTC
10296645 TGAACAATGC
Statistics
Matches: 317, Mismatches: 19, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
205 32 0.10
207 6 0.02
208 201 0.63
209 4 0.01
210 50 0.16
211 3 0.01
213 20 0.06
214 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (210 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTCTCAATCGCATAGCCAATTTCAACTTCACAACGAAGGATAT
TGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTC
CCAATCTCAGAGCCA
Found at i:10301958 original size:54 final size:54
Alignment explanation
Indices: 10301871--10302155 Score: 401
Period size: 54 Copynumber: 5.3 Consensus size: 54
10301861 GTATTTACTC
* *
10301871 CTTAGTGTCC-ATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTACACA
1 CTTAGTG-CCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACA
* * *
10301925 CATAGTGCTGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACA
* * * *
10301979 CTTAGTGTCGATACGGTCGTTCATAAACTTTTTTATGAATTTCGTGGGTTTCACA
1 CTTAGTGCCGATACGGTCGTTCATAAAC-TTATTATGAATTCCGTGGGTTGCACA
* * *
10302034 CTTACTGCCGATACGGTCATTCATAAACTTATTATGAATTCCGTGGGTTGTACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACA
** *
10302088 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTTCACA
1 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACA
*
10302142 CTTAGTGTCGATAC
1 CTTAGTGCCGATAC
10302156 ATAAAAATCC
Statistics
Matches: 203, Mismatches: 26, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.00
54 155 0.76
55 47 0.23
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (54 bp):
CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACA
Found at i:10302061 original size:109 final size:108
Alignment explanation
Indices: 10301871--10302155 Score: 435
Period size: 109 Copynumber: 2.6 Consensus size: 108
10301861 GTATTTACTC
* * * * * *
10301871 CTTAGTGTCCATACGGTCGTTCATAAACATATTATGAATTCCGTGGGTTACACACATAGTGCTGA
1 CTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTTCACACTTAGTGCCGA
*
10301936 TACGGTCGTTCATAAACTTATTATGAATTCCATGGGTTGCACA
66 TACGGTCATTCATAAACTTATTATGAATTCCATGGGTTGCACA
* *
10301979 CTTAGTGTCGATACGGTCGTTCATAAACTTTTTTATGAATTTCGTGGGTTTCACACTTACTGCCG
1 CTTAGTGTCGATACGGTCGTTCATAAAC-TTATTATGAATTTCGTGGGTTTCACACTTAGTGCCG
* *
10302044 ATACGGTCATTCATAAACTTATTATGAATTCCGTGGGTTGTACA
65 ATACGGTCATTCATAAACTTATTATGAATTCCATGGGTTGCACA
* * *
10302088 CTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTTGTGGGTTTCACACTTAGTGTCGA
1 CTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTTCACACTTAGTGCCGA
10302153 TAC
66 TAC
10302156 ATAAAAATCC
Statistics
Matches: 160, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
108 63 0.39
109 97 0.61
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (108 bp):
CTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTTCACACTTAGTGCCGA
TACGGTCATTCATAAACTTATTATGAATTCCATGGGTTGCACA
Found at i:10304256 original size:48 final size:48
Alignment explanation
Indices: 10304185--10304282 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
10304175 CATGCCCATA
10304185 GCATATCCTCCAATACCTGAATAGTTCGCTTTGACTGTTCATCTGTTT
1 GCATATCCTCCAATACCTGAATAGTTCGCTTTGACTGTTCATCTGTTT
10304233 GCATATCCTCCAATACCTGAATAGTTCGCTTTGACTGTTCATCTGTTT
1 GCATATCCTCCAATACCTGAATAGTTCGCTTTGACTGTTCATCTGTTT
10304281 GC
1 GC
10304283 GGATGAAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.39
Consensus pattern (48 bp):
GCATATCCTCCAATACCTGAATAGTTCGCTTTGACTGTTCATCTGTTT
Found at i:10308884 original size:54 final size:54
Alignment explanation
Indices: 10308752--10309330 Score: 775
Period size: 54 Copynumber: 10.8 Consensus size: 54
10308742 TAATTATTGC
* * * * * *
10308752 AACTCATTAT-AAGTTCTGTGGGGTGCACACGTAGTGCCAATACGGTCGTTCATA
1 AACTTATTATGAATTTC-GTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
* * *
10308806 AAC---TTATGAATTTGGTGGGTTGCACA-TATAGT-TCCCATACGGTCATTCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACT-TAGTGT-CGATACGGTCGTTCATA
10308857 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTG-CTGATACGGTCGTTCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATA
*
10308911 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCAATACGGTCG-TCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
* *
10308964 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGCCAATACGGTCGTTCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
* *
10309018 AACTTATTATGAATTACGTAGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
* * *
10309072 AACTTATTATGAATTAT-GTGGGTTGCACACATAGTG-CTGATAAGATCGTTCATA
1 AACTTATTATGAATT-TCGTGGGTTGCACACTTAGTGTC-GATACGGTCGTTCATA
* * ***
10309126 AAGTTATTATGAATTCCGCATGTTGCACACTTAGTGTCGATACGGTCGTTCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
* * *
10309180 AACTTATTATGAATTTTGTGGGTTGCACACTTAGTGTCGATACAGTCATTCATA
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
*
10309234 AACTTATTATGAA-TTCTGTGGGCTGCACACTTAGTGTCGATACGGTCGTTCATA
1 AACTTATTATGAATTTC-GTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
*
10309288 AACTTATTATGAATTTCGTAGGTTGCACACTTAGTGTCGATAC
1 AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATAC
10309331 ATAAAAATAC
Statistics
Matches: 465, Mismatches: 43, Indels: 34
0.86 0.08 0.06
Matches are distributed among these distances:
51 37 0.08
52 4 0.01
53 56 0.12
54 362 0.78
55 6 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (54 bp):
AACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCGATACGGTCGTTCATA
Found at i:10308942 original size:27 final size:27
Alignment explanation
Indices: 10308912--10308996 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
10308902 TCGTTCATAA
10308912 ACTTATTATGAATTTCGTGGGTTGCAC
1 ACTTATTATGAATTTCGTGGGTTGCAC
* * * * * *** *
10308939 ACTTAGTGTCAA-TACG-GTCGTCATAA
1 ACTTATTATGAATTTCGTG-GGTTGCAC
10308965 ACTTATTATGAATTTCGTGGGTTGCAC
1 ACTTATTATGAATTTCGTGGGTTGCAC
10308992 ACTTA
1 ACTTA
10308997 GTGCCAATAC
Statistics
Matches: 37, Mismatches: 18, Indels: 6
0.61 0.30 0.10
Matches are distributed among these distances:
25 1 0.03
26 15 0.41
27 20 0.54
28 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
ACTTATTATGAATTTCGTGGGTTGCAC
Found at i:10310460 original size:36 final size:35
Alignment explanation
Indices: 10310380--10310468 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 35
10310370 GTTGGTTATT
* * *
10310380 GATGATTATAAGCATCACATACACGTGTTTGCTACT
1 GATGATTAT-AGCATGACATACACGTATTTGCTACA
* * *
10310416 GGTTATTATGAGCATGACATACATGTATTTGCTACA
1 GATGATTAT-AGCATGACATACACGTATTTGCTACA
10310452 GATGATTATATGCATGA
1 GATGATTATA-GCATGA
10310469 TATATATATG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
35 1 0.02
36 42 0.98
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (35 bp):
GATGATTATAGCATGACATACACGTATTTGCTACA
Found at i:10310492 original size:36 final size:36
Alignment explanation
Indices: 10310452--10310541 Score: 117
Period size: 36 Copynumber: 2.5 Consensus size: 36
10310442 ATTTGCTACA
* * *
10310452 GATGATTATATGCATGATATATATATGCTTTCTAAT
1 GATGATTATATGCATGATATACATACGCTTACTAAT
* * *
10310488 GATGATTATATACATAATATACATACGCTTACTACT
1 GATGATTATATGCATGATATACATACGCTTACTAAT
*
10310524 GATAATTATATGCATGAT
1 GATGATTATATGCATGAT
10310542 TCACATGCGC
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 45 1.00
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (36 bp):
GATGATTATATGCATGATATACATACGCTTACTAAT
Found at i:10310559 original size:36 final size:35
Alignment explanation
Indices: 10310492--10310614 Score: 84
Period size: 36 Copynumber: 3.4 Consensus size: 35
10310482 TCTAATGATG
* * * ** *
10310492 ATTATATACATAATATACATACGCTTACTACTGATA
1 ATTATATGCATGAT-TACATGCGCTCGCTACTAATA
*
10310528 ATTATATGCATGATTCACATGCGCTCGCTACTAATT
1 ATTATATGCATGATT-ACATGCGCTCGCTACTAATA
* * * * * * * *
10310564 ATTATAAGCATAATATACATGTGTTGGTTACTCATG
1 ATTATATGCATGAT-TACATGCGCTCGCTACTAATA
10310600 ATTATATGCATGATT
1 ATTATATGCATGATT
10310615 TTTTACCCAT
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
35 2 0.03
36 65 0.96
37 1 0.01
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (35 bp):
ATTATATGCATGATTACATGCGCTCGCTACTAATA
Found at i:10327842 original size:23 final size:22
Alignment explanation
Indices: 10327805--10327869 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
10327795 AATATTAGAA
*
10327805 ATTATATTATAATTTCTAATATT
1 ATTATATTATTATTT-TAATATT
*
10327828 ATTATATTCTTATTTTAATAATT
1 ATTATATTATTATTTTAAT-ATT
* *
10327851 -TCATATTTTTATTTTAATA
1 ATTATATTATTATTTTAATA
10327870 AATAATTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.03
22 20 0.54
23 16 0.43
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATATTATTATTTTAATATT
Found at i:10331042 original size:3 final size:3
Alignment explanation
Indices: 10331030--10331073 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
10331020 CATAATAATA
* * *
10331030 ATT ATA ATT ATT ATT AAT ATA ATAT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A
10331074 AATATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:10331048 original size:22 final size:22
Alignment explanation
Indices: 10331022--10331081 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 22
10331012 AATTTTTTCA
10331022 TAATAATAAT-TATAATTATTAT
1 TAAT-ATAATATATAATTATTAT
*
10331044 TAATATAATATATTATTATTAT
1 TAATATAATATATAATTATTAT
*
10331066 TATTATTAAATATATA
1 TAATA-T-AATATATA
10331082 TATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 5 0.16
22 19 0.59
23 1 0.03
24 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATAATATATAATTATTAT
Found at i:10331082 original size:2 final size:2
Alignment explanation
Indices: 10331075--10331104 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10331065 TTATTATTAA
10331075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10331105 TACAAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10337582 original size:64 final size:63
Alignment explanation
Indices: 10337496--10337657 Score: 184
Period size: 64 Copynumber: 2.5 Consensus size: 63
10337486 ATTGTTTAAG
* * * *
10337496 ATGCATCGATGCACATGCAGTGCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTT
1 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTT
* * * *
10337560 ATGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCTAATAGGATTT
1 ATGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTT
*
10337624 ATGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 ATGCATCGATGCATAAG-G-AGTGCATCGATGCAT
10337658 ACCTTTATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.73
65 21 0.25
66 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTT
Found at i:10338869 original size:31 final size:31
Alignment explanation
Indices: 10338831--10338935 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 31
10338821 TCGAGGGTTT
**
10338831 TACCTATG-TCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTAACGA-ACATATGGACAGTA
* *
10338862 TACCTATGTTCTAAGGAATATATGGACAGTA
1 TACCTATGTTCTAACGAACATATGGACAGTA
* *
10338893 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAACGAACATATGGACAGTA
*
10338924 TACCTAGGTTCT
1 TACCTATGTTCT
10338936 TCGGGACCTA
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 61 0.92
32 5 0.08
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (31 bp):
TACCTATGTTCTAACGAACATATGGACAGTA
Found at i:10338948 original size:31 final size:31
Alignment explanation
Indices: 10338848--10338954 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
10338838 GTCTTTCGAG
*
10338848 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTATGTTCTAAGGA
* *
10338879 ATATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTATGTTCTAAGGA
* ** *
10338910 ACATATGGACAGTTTACCTAGGTTCTTCGGG
1 ACATATGGACAGTTTACCTATGTTCTAAGGA
*
10338941 ACCTATGGACAGTT
1 ACATATGGACAGTT
10338955 ACCGAGGATC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 68 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTATGTTCTAAGGA
Found at i:10338974 original size:30 final size:30
Alignment explanation
Indices: 10338913--10339009 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
10338903 CTAAGGAACA
* * ***
10338913 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
10338944 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
10338974 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
10339004 TCTGGA
1 TATGGA
10339010 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Done.