Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 315 of 325
Found at i:99408829 original size:68 final size:70
Alignment explanation
Indices: 99408684--99408819 Score: 177
Period size: 72 Copynumber: 1.9 Consensus size: 70
99408674 CAAACTCCTT
*** *
99408684 TTTCTCTACAATTTCTCAACACTGTGCAACAAACAAACAAACAAAAAAGTCAAAAAGTTTTAATC
1 TTTCTCTACAATTTCTCAACACCACGCAAC--ACAAACAAACAAAAAAGTCAAAAAGTTTAAATC
99408749 TCTTCAA
64 TCTTCAA
* * *
99408756 TTTCTCTACAATTTCTCAATACCACGCAAC-CAAACCAA-AAAAATGTCAAAAAGTTTAAATCTC
1 TTTCTCTACAATTTCTCAACACCACGCAACACAAACAAACAAAAAAGTCAAAAAGTTTAAATCTC
99408819 T
66 T
99408820 ATGATTTCTC
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
68 24 0.42
69 7 0.12
72 26 0.46
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.28
Consensus pattern (70 bp):
TTTCTCTACAATTTCTCAACACCACGCAACACAAACAAACAAAAAAGTCAAAAAGTTTAAATCTC
TTCAA
Found at i:99412113 original size:28 final size:28
Alignment explanation
Indices: 99412073--99412131 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
99412063 TCAAATAATA
99412073 TTTTTAATATTTTAATAAATTTATATAT
1 TTTTTAATATTTTAATAAATTTATATAT
* * *
99412101 TTTTTAAGT-TTTTTATGATTTTATATAT
1 TTTTTAA-TATTTTAATAAATTTATATAT
99412129 TTT
1 TTT
99412132 AAATTTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (28 bp):
TTTTTAATATTTTAATAAATTTATATAT
Found at i:99415708 original size:9 final size:9
Alignment explanation
Indices: 99415694--99415725 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
99415684 ATAAGTATAA
99415694 AATTAACCG
1 AATTAACCG
*
99415703 AATTAATCG
1 AATTAACCG
99415712 AATTAACCG
1 AATTAACCG
99415721 AATTA
1 AATTA
99415726 TTTGTATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:99415760 original size:5 final size:6
Alignment explanation
Indices: 99415745--99415785 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
99415735 AATTATATGT
*
99415745 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
99415786 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:99415826 original size:13 final size:13
Alignment explanation
Indices: 99415810--99415834 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
99415800 AATTTTTATG
99415810 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
99415823 ATTGGGTTGGGT
1 ATTGGGTTGGGT
99415835 TGGGTACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:99415834 original size:18 final size:18
Alignment explanation
Indices: 99415811--99415845 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99415801 ATTTTTATGA
99415811 TTGGGTTGGGTAATTGGG
1 TTGGGTTGGGTAATTGGG
*
99415829 TTGGGTTGGGTACTTGG
1 TTGGGTTGGGTAATTGG
99415846 ATTAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.49, T:0.40
Consensus pattern (18 bp):
TTGGGTTGGGTAATTGGG
Found at i:99418797 original size:32 final size:32
Alignment explanation
Indices: 99418758--99418820 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
99418748 TGTTTGAGCT
*
99418758 AAGACTAAAATT-TTAAAATTCAAAAAGTACAA
1 AAGACTAAAATTGAT-AAATTCAAAAAGTACAA
*
99418790 AAGACTAAAATTGATAAATTCGAAAAGTACA
1 AAGACTAAAATTGATAAATTCAAAAAGTACA
99418821 GGGACTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (32 bp):
AAGACTAAAATTGATAAATTCAAAAAGTACAA
Found at i:99419347 original size:33 final size:33
Alignment explanation
Indices: 99419305--99419368 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
99419295 ACAAGCTAAC
*
99419305 ATAATATTAGACATATGATAATATGTTTGCCCT
1 ATAACATTAGACATATGATAATATGTTTGCCCT
*
99419338 ATAACATTAGACATATGATGATATGTTTGCC
1 ATAACATTAGACATATGATAATATGTTTGCC
99419369 TTATCATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (33 bp):
ATAACATTAGACATATGATAATATGTTTGCCCT
Found at i:99432292 original size:15 final size:16
Alignment explanation
Indices: 99432272--99432317 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
99432262 TTGATGATAA
99432272 TAAAAATATATTAAT-
1 TAAAAATATATTAATC
99432287 TAAAAAT-TAATTAATC
1 TAAAAATAT-ATTAATC
* *
99432303 TGATAATATATTAAT
1 TAAAAATATATTAAT
99432318 GGAAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
14 1 0.04
15 13 0.50
16 11 0.42
17 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (16 bp):
TAAAAATATATTAATC
Found at i:99433181 original size:18 final size:19
Alignment explanation
Indices: 99433158--99433194 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
99433148 GGTTAGATAG
*
99433158 TTAAATG-TTAGTGATTTT
1 TTAAATGTTTAGTAATTTT
99433176 TTAAATGTTTAGTAATTTT
1 TTAAATGTTTAGTAATTTT
99433195 GAACTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (19 bp):
TTAAATGTTTAGTAATTTT
Found at i:99433634 original size:24 final size:24
Alignment explanation
Indices: 99433602--99433647 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
99433592 GACTATGAGC
99433602 CATTGTAAGTCTCATGTTCATAGT
1 CATTGTAAGTCTCATGTTCATAGT
99433626 CATTGTAAGTCTCATGTTCATA
1 CATTGTAAGTCTCATGTTCATA
99433648 AGTGAATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.17, G:0.15, T:0.41
Consensus pattern (24 bp):
CATTGTAAGTCTCATGTTCATAGT
Found at i:99434680 original size:39 final size:39
Alignment explanation
Indices: 99434637--99434713 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
99434627 TCTTGAGTGG
99434637 ATGATGGACTATATATGTGTGACTCCTATACTTTGATGA
1 ATGATGGACTATATATGTGTGACTCCTATACTTTGATGA
99434676 ATGATGGACTATATATGTGTGACTCCTATACTTTGATG
1 ATGATGGACTATATATGTGTGACTCCTATACTTTGATG
99434714 CAAGTAAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (39 bp):
ATGATGGACTATATATGTGTGACTCCTATACTTTGATGA
Found at i:99435400 original size:23 final size:23
Alignment explanation
Indices: 99435374--99435419 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
99435364 CATTTGAGTG
99435374 ACAAAACACTTTAGGAAATTATA
1 ACAAAACACTTTAGGAAATTATA
99435397 ACAAAACACTTTAGGAAATTATA
1 ACAAAACACTTTAGGAAATTATA
99435420 CTTAGTCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.09, T:0.26
Consensus pattern (23 bp):
ACAAAACACTTTAGGAAATTATA
Found at i:99436121 original size:7 final size:7
Alignment explanation
Indices: 99436102--99436144 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
99436092 AACACAAATG
99436102 TATCATA
1 TATCATA
99436109 -ATCATA
1 TATCATA
99436115 TATCATA
1 TATCATA
*
99436122 TATACATG
1 TAT-CATA
99436130 TATCATA
1 TATCATA
*
99436137 AATCATA
1 TATCATA
99436144 T
1 T
99436145 GGCATACATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
6 6 0.20
7 18 0.60
8 6 0.20
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (7 bp):
TATCATA
Found at i:99436135 original size:15 final size:13
Alignment explanation
Indices: 99436099--99436142 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 13
99436089 CAGAACACAA
99436099 ATGTATCATAATC
1 ATGTATCATAATC
*
99436112 ATATATCATATATAC
1 ATGTATCATA-AT-C
99436127 ATGTATCATAAATC
1 ATGTATCAT-AATC
99436141 AT
1 AT
99436143 ATGGCATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.35
14 5 0.19
15 11 0.42
16 1 0.04
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.39
Consensus pattern (13 bp):
ATGTATCATAATC
Found at i:99440218 original size:18 final size:17
Alignment explanation
Indices: 99440185--99440220 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
99440175 CATTATGATA
99440185 AACCTAAAACTTTTTTT
1 AACCTAAAACTTTTTTT
99440202 AACCTAAAACTTTTTTT
1 AACCTAAAACTTTTTTT
99440219 AA
1 AA
99440221 AATAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (17 bp):
AACCTAAAACTTTTTTT
Found at i:99440228 original size:18 final size:17
Alignment explanation
Indices: 99440189--99440227 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
99440179 ATGATAAACC
**
99440189 TAAAACTTTTTTTAACC
1 TAAAACTTTTTTTAAAA
99440206 TAAAACTTTTTTTAAAA
1 TAAAACTTTTTTTAAAA
99440223 TAAAA
1 TAAAA
99440228 ATAAGTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAACTTTTTTTAAAA
Found at i:99451119 original size:14 final size:14
Alignment explanation
Indices: 99451100--99451129 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
99451090 TAAAAATTAT
99451100 AAATAATAATAGTA
1 AAATAATAATAGTA
*
99451114 AAATAATAGTAGTA
1 AAATAATAATAGTA
99451128 AA
1 AA
99451130 CGGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (14 bp):
AAATAATAATAGTA
Found at i:99451445 original size:14 final size:14
Alignment explanation
Indices: 99451442--99451487 Score: 60
Period size: 14 Copynumber: 3.3 Consensus size: 14
99451432 AAAATGATAT
99451442 AATAAGTATAA-A-A
1 AATAA-TATAATAAA
99451455 AATAATATAATAAA
1 AATAATATAATAAA
99451469 AATAATATAATAAA
1 AATAATATAATAAA
99451483 TAATA
1 -AATA
99451488 GGAAAATAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.17
13 6 0.20
14 15 0.50
15 4 0.13
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (14 bp):
AATAATATAATAAA
Found at i:99451452 original size:30 final size:28
Alignment explanation
Indices: 99451405--99451487 Score: 98
Period size: 30 Copynumber: 3.0 Consensus size: 28
99451395 TGATTAAATT
99451405 AAATGAAAATAAATATAAAAAATAATAA
1 AAATGAAAATAAATATAAAAAATAATAA
*
99451433 AAATGATATAATAAGTATAAAAAATAAT-A
1 AAATGA-A-AATAAATATAAAAAATAATAA
* * *
99451462 TAATAAAAAT-AATATAATAAATAATA
1 AAATGAAAATAAATATAAAAAATAATA
99451488 GGAAAATAGC
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
26 13 0.28
27 3 0.06
28 7 0.15
29 6 0.13
30 18 0.38
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.27
Consensus pattern (28 bp):
AAATGAAAATAAATATAAAAAATAATAA
Found at i:99451485 original size:21 final size:21
Alignment explanation
Indices: 99451410--99451487 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 21
99451400 AAATTAAATG
99451410 AAAATAAAT-ATAAAAAATAAT
1 AAAATAAATAAT-AAAAATAAT
* **
99451431 AAAAATGATATAATAAGTATAA-
1 -AAAAT-AAATAATAAAAATAAT
99451453 AAAATAATATAATAAAAATAAT
1 AAAATAA-ATAATAAAAATAAT
*
99451475 ATAATAAATAATA
1 AAAATAAATAATA
99451488 GGAAAATAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.02
21 22 0.49
22 11 0.24
23 9 0.20
24 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.27
Consensus pattern (21 bp):
AAAATAAATAATAAAAATAAT
Found at i:99458626 original size:3 final size:3
Alignment explanation
Indices: 99458613--99458648 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
99458603 GTCATGTTAT
*
99458613 TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
99458649 ACTACATAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:99459664 original size:15 final size:15
Alignment explanation
Indices: 99459646--99459688 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
99459636 TCATCCTCCG
99459646 GCTCATTGACCTCTT
1 GCTCATTGACCTCTT
**
99459661 GCTCATTGACCGGTT
1 GCTCATTGACCTCTT
*
99459676 GCTCATCGACCTC
1 GCTCATTGACCTC
99459689 GCAAGATCAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.14, C:0.35, G:0.19, T:0.33
Consensus pattern (15 bp):
GCTCATTGACCTCTT
Found at i:99463842 original size:16 final size:18
Alignment explanation
Indices: 99463821--99463858 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
99463811 TTAGGGGAGA
*
99463821 GAATAAAA-AGTTGG-AT
1 GAATAAAATACTTGGAAT
99463837 GAATAAAATACTTGGAAT
1 GAATAAAATACTTGGAAT
99463855 GAAT
1 GAAT
99463859 TATCAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 5 0.26
18 6 0.32
ACGTcount: A:0.50, C:0.03, G:0.21, T:0.26
Consensus pattern (18 bp):
GAATAAAATACTTGGAAT
Found at i:99488370 original size:146 final size:146
Alignment explanation
Indices: 99488106--99488398 Score: 514
Period size: 146 Copynumber: 2.0 Consensus size: 146
99488096 TGGTCAGCTT
*
99488106 TAACATATTTACTATTTTTAGACTTCATTGAAACTTACACCGCTTGACATTGCAACTTGCAAATC
1 TAACATATTTACTATTTTTAGACTTCATTGAAACTTACACCGCTTAACATTGCAACTTGCAAATC
* **
99488171 ACAACTTGCACAATTAGGTAAGCTGATTTATCGATCTTATCAACATCGAATGCATTAAATATGCT
66 ACAACTTGCACAATTAGGTAAGCTGATCTATCGATCTTATCAACATCGAATGCATTAAATACACT
99488236 ACCTACTTAGTTATAA
131 ACCTACTTAGTTATAA
* *
99488252 TAACATATTTACTATTTTTAGACTTCATTGTAACTTGCACCGCTTAACATTGCAACTTGCAAATC
1 TAACATATTTACTATTTTTAGACTTCATTGAAACTTACACCGCTTAACATTGCAACTTGCAAATC
*
99488317 ACAACTTGCACAATTAGGTAAGTTGATCTATCGATCTTATCAACATCGAATGCATTAAATACACT
66 ACAACTTGCACAATTAGGTAAGCTGATCTATCGATCTTATCAACATCGAATGCATTAAATACACT
*
99488382 ACCTACTTAGTTCTAA
131 ACCTACTTAGTTATAA
99488398 T
1 T
99488399 TTAACTAAGT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 139 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (146 bp):
TAACATATTTACTATTTTTAGACTTCATTGAAACTTACACCGCTTAACATTGCAACTTGCAAATC
ACAACTTGCACAATTAGGTAAGCTGATCTATCGATCTTATCAACATCGAATGCATTAAATACACT
ACCTACTTAGTTATAA
Found at i:99488431 original size:146 final size:145
Alignment explanation
Indices: 99488137--99488431 Score: 407
Period size: 146 Copynumber: 2.0 Consensus size: 145
99488127 ACTTCATTGA
* *
99488137 AACTTACACCGCTTGACATTGCAACTTGCAAATCACAACTTGCACAATTAGGTAAGCTGATTTAT
1 AACTTACACCGCTTAACATTGCAACTTGCAAATCACAACTTGCACAATTAGGTAAGCTGATCTAT
** * * *
99488202 CGATCTTATCAACATCGAATGCATTAAATATGCTACCTACTTAGTTATAATAACATATTTACTAT
66 CGATCTTATCAACATCGAATGCATTAAATACACTACCTACTTAGTTATAATAACATAGTTACAAA
* **
99488267 TTTTAGACTTCATTGT
131 TATTA-ACTTCAAAGT
* *
99488283 AACTTGCACCGCTTAACATTGCAACTTGCAAATCACAACTTGCACAATTAGGTAAGTTGATCTAT
1 AACTTACACCGCTTAACATTGCAACTTGCAAATCACAACTTGCACAATTAGGTAAGCTGATCTAT
*
99488348 CGATCTTATCAACATCGAATGCATTAAATACACTACCTACTTAGTTCTAATTTAAC-TAAGTTAC
66 CGATCTTATCAACATCGAATGCATTAAATACACTACCTACTTAGTTATAA--TAACAT-AGTTAC
99488412 AAAATATT-ACTT-AAAGT
128 -AAATATTAACTTCAAAGT
99488429 AAC
1 AAC
99488432 AAAATGAAAC
Statistics
Matches: 132, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
146 114 0.86
147 5 0.04
148 9 0.07
149 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (145 bp):
AACTTACACCGCTTAACATTGCAACTTGCAAATCACAACTTGCACAATTAGGTAAGCTGATCTAT
CGATCTTATCAACATCGAATGCATTAAATACACTACCTACTTAGTTATAATAACATAGTTACAAA
TATTAACTTCAAAGT
Found at i:99489242 original size:12 final size:12
Alignment explanation
Indices: 99489221--99489256 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
99489211 AAACCCCGAA
99489221 CCCATGTATGCG
1 CCCATGTATGCG
*
99489233 CCCATATATGCG
1 CCCATGTATGCG
99489245 CCCATGTATGCG
1 CCCATGTATGCG
99489257 AACCCTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.19, C:0.33, G:0.22, T:0.25
Consensus pattern (12 bp):
CCCATGTATGCG
Found at i:99489269 original size:16 final size:16
Alignment explanation
Indices: 99489248--99489278 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
99489238 ATATGCGCCC
*
99489248 ATGTATGCGAACCCTT
1 ATGTATGCAAACCCTT
99489264 ATGTATGCAAACCCT
1 ATGTATGCAAACCCT
99489279 AGGTGAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (16 bp):
ATGTATGCAAACCCTT
Found at i:99489495 original size:22 final size:22
Alignment explanation
Indices: 99489470--99489561 Score: 85
Period size: 22 Copynumber: 4.1 Consensus size: 22
99489460 ATGTGTAAAT
*
99489470 CCTAGATGAAATATTATACGAA
1 CCTAGATGAATTATTATACGAA
* * *
99489492 CCTATATGAATTATTATGCAAA
1 CCTAGATGAATTATTATACGAA
* * *
99489514 CCCTAGATGAAGTACTATATGAA
1 -CCTAGATGAATTATTATACGAA
* * *
99489537 CCTATATGAATTGTTATGCGAA
1 CCTAGATGAATTATTATACGAA
99489559 CCT
1 CCT
99489562 TTATGCTAAC
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
22 37 0.70
23 16 0.30
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (22 bp):
CCTAGATGAATTATTATACGAA
Found at i:99489521 original size:45 final size:45
Alignment explanation
Indices: 99489470--99489560 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
99489460 ATGTGTAAAT
*
99489470 CCTAGATGAAATATTATACGAACCTATATGAATTATTATGCAAAC
1 CCTAGATGAAATACTATACGAACCTATATGAATTATTATGCAAAC
* * * *
99489515 CCTAGATGAAGTACTATATGAACCTATATGAATTGTTATGCGAAC
1 CCTAGATGAAATACTATACGAACCTATATGAATTATTATGCAAAC
99489560 C
1 C
99489561 TTTATGCTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (45 bp):
CCTAGATGAAATACTATACGAACCTATATGAATTATTATGCAAAC
Found at i:99489879 original size:15 final size:15
Alignment explanation
Indices: 99489855--99489929 Score: 60
Period size: 15 Copynumber: 4.9 Consensus size: 15
99489845 AATATTATGC
* *
99489855 GAACCCTATATGTAT
1 GAACCTTATATGTGT
*
99489870 GAACCTTATATGTGC
1 GAACCTTATATGTGT
* *
99489885 AAACCTTGTATGTGT
1 GAACCTTATATGTGT
**
99489900 GAACCCTCTATACATGT
1 GAA-CCT-TATATGTGT
*
99489917 GAACCTAATATGT
1 GAACCTTATATGT
99489930 ATGTGGTAGT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
15 30 0.67
16 6 0.13
17 9 0.20
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (15 bp):
GAACCTTATATGTGT
Found at i:99492878 original size:12 final size:11
Alignment explanation
Indices: 99492859--99492896 Score: 58
Period size: 11 Copynumber: 3.4 Consensus size: 11
99492849 AAGGTGATTA
99492859 TTTTTTTTTCT
1 TTTTTTTTTCT
*
99492870 TTCTTTTTTCT
1 TTTTTTTTTCT
99492881 TATTTTTTTTCT
1 T-TTTTTTTTCT
99492893 TTTT
1 TTTT
99492897 CAAATCATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (11 bp):
TTTTTTTTTCT
Found at i:99493880 original size:13 final size:14
Alignment explanation
Indices: 99493855--99493884 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
99493845 ATACGCATAC
99493855 ATTTATATATTATT
1 ATTTATATATTATT
99493869 ATTTAT-TATTATT
1 ATTTATATATTATT
99493882 ATT
1 ATT
99493885 AGTTTTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTATATATTATT
Found at i:99493897 original size:16 final size:15
Alignment explanation
Indices: 99493860--99493905 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
99493850 CATACATTTA
99493860 TATATTATTA-TTTAT
1 TATATTATTAGTTT-T
99493875 TATTATTATTAGTTTT
1 TA-TATTATTAGTTTT
99493891 TGATATTATT-GTTTT
1 T-ATATTATTAGTTTT
99493906 GTTAAATACA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 7 0.25
16 17 0.61
17 4 0.14
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
TATATTATTAGTTTT
Found at i:99495814 original size:38 final size:39
Alignment explanation
Indices: 99495767--99495842 Score: 109
Period size: 38 Copynumber: 1.9 Consensus size: 39
99495757 TAATACAACC
* *
99495767 AAACGTTTATTATATTTAT-TCGTATTTTTAATATAATA
1 AAACATTTATTATATTTATGTAGTATTTTTAATATAATA
*
99495805 AAACATTTATTATATTTATGGTAGTGTTTTTAATATAA
1 AAACATTTATTATATTTAT-GTAGTATTTTTAATATAA
99495843 ATACTTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 18 0.55
40 15 0.45
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (39 bp):
AAACATTTATTATATTTATGTAGTATTTTTAATATAATA
Found at i:99500049 original size:22 final size:22
Alignment explanation
Indices: 99500021--99500072 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
99500011 ACTCATCCTA
99500021 ATTAAAATAATAACTTTTTCTT
1 ATTAAAATAATAACTTTTTCTT
*
99500043 ATTAAAATGATAACTTTTTCTT
1 ATTAAAATAATAACTTTTTCTT
*
99500065 AGTAAAAT
1 ATTAAAAT
99500073 GTTGGGGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTAAAATAATAACTTTTTCTT
Found at i:99512281 original size:4 final size:4
Alignment explanation
Indices: 99512272--99512312 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
99512262 ACAATGATAA
99512272 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
99512313 AACAGTAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:99512643 original size:13 final size:14
Alignment explanation
Indices: 99512620--99512649 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
99512610 TTGTATTTTT
99512620 AAAAAACACACAAC
1 AAAAAACACACAAC
99512634 AAAAAA-ACACAAC
1 AAAAAACACACAAC
99512647 AAA
1 AAA
99512650 GATGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.77, C:0.23, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAACACACAAC
Found at i:99524653 original size:7 final size:7
Alignment explanation
Indices: 99524640--99524669 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
99524630 TTAATAAATA
99524640 ATATTAT
1 ATATTAT
*
99524647 ATGTTAT
1 ATATTAT
99524654 ATATTAT
1 ATATTAT
99524661 ATATTAT
1 ATATTAT
99524668 AT
1 AT
99524670 GTATTAGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (7 bp):
ATATTAT
Found at i:99527488 original size:18 final size:18
Alignment explanation
Indices: 99527465--99527507 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
99527455 TTAAGGTATT
99527465 TTTCATATCCGTTTTATA
1 TTTCATATCCGTTTTATA
99527483 TTTCATATCCGTTTTATA
1 TTTCATATCCGTTTTATA
*
99527501 ATTCATA
1 TTTCATA
99527508 AAGATTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.26, C:0.16, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTCATATCCGTTTTATA
Found at i:99529985 original size:21 final size:24
Alignment explanation
Indices: 99529961--99530005 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
99529951 AATAGAAGAT
99529961 AAAAG-AGAAA-GTAG-GTGAAAA
1 AAAAGAAGAAAGGTAGAGTGAAAA
99529982 AAAAGATAGAAAGGTAGAGTGAAA
1 AAAAGA-AGAAAGGTAGAGTGAAA
99530006 GTCTTTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 5 0.25
23 5 0.25
24 4 0.20
25 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.29, T:0.11
Consensus pattern (24 bp):
AAAAGAAGAAAGGTAGAGTGAAAA
Found at i:99532543 original size:325 final size:326
Alignment explanation
Indices: 99531948--99532594 Score: 1127
Period size: 325 Copynumber: 2.0 Consensus size: 326
99531938 TTACATAAGT
* * *
99531948 ATGGATATGGGCTGGGACACGGCCGTGTGCCTCACATCGAATGTCCACACGGCCTGGGACATGGG
1 ATGGATATGGGCTGGGACACGGCCGTGTGCCTCACATCAAATGTCCACACGACCTAGGACATGGG
* * *
99532013 TGTATCGCTTGACTGTGTGGATGGCCACACGGGCGTGTGTCCCCTGCATCTTTGAAAAATTTCTA
66 CGTATCGCTTGACCGTGTGGATGGCCACACGGGCGTGTGTCCCCTGCATATTTGAAAAATTTCTA
* *
99532078 TGTTTTTTGAAAAAAATTATTGAGTACCTGGTTTAGCCCCAACTAATTTTAATGATTATTTTGGA
131 TATTTTTTGAAAAAAATTATTGAGTACCTGGTTTAGCCCCAACTAATTTTAATGATTATTTTAGA
*
99532143 CTTCGAGGGCTTATATTAAGGACCATATGAATGTTTATGAATAATTTGTGAATTGAATGAAATAT
196 CTTCGAGGGCTTATATTAAGGACCATATAAATGTTTATGAATAATTTGTGAATTGAATGAAATAT
* * *
99532208 GTGTATGAAATGTTGATTGATTGAGTTATAAGTCCGGTAATACTCTGTAACCCTGTTCCGGCGAT
261 GTGCATGAAATGTTAATTGATTGAGTTATAAGTCCAGTAATACTCTGTAACCCTGTTCCGGCGAT
99532273 G
326 G
99532274 ATGGATATGGGCTGGGACACGGCCGTGTGCCTCACATCAAATGTCCACACGACCTAGGACAT-GG
1 ATGGATATGGGCTGGGACACGGCCGTGTGCCTCACATCAAATGTCCACACGACCTAGGACATGGG
*
99532338 CGTATCGCTTGGCCGTGTGGATGGCCACACGGGCGTGTGTCCCCTGCATATTTGAAAAATTTCTA
66 CGTATCGCTTGACCGTGTGGATGGCCACACGGGCGTGTGTCCCCTGCATATTTGAAAAATTTCTA
*
99532403 TATTTTTT-AAAAAAATTTCTTGAGTACCTGGTTTAGCCCCAACTAATTTTAATGATTATTTTAG
131 TATTTTTTGAAAAAAA-TTATTGAGTACCTGGTTTAGCCCCAACTAATTTTAATGATTATTTTAG
*
99532467 ACTTCGAGGGCTTATATTAAGGACCATATAAATGTTTTTGAATAATTTGTGAATTGAATGAAATA
195 ACTTCGAGGGCTTATATTAAGGACCATATAAATGTTTATGAATAATTTGTGAATTGAATGAAATA
*
99532532 TGTGCATGAAATGTTAATTGATTGAGTTATAAGTCCAGTAATATTCTGTAACCCTGTTCCGGC
260 TGTGCATGAAATGTTAATTGATTGAGTTATAAGTCCAGTAATACTCTGTAACCCTGTTCCGGC
99532595 AACGGATATG
Statistics
Matches: 304, Mismatches: 16, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
324 7 0.02
325 238 0.78
326 59 0.19
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (326 bp):
ATGGATATGGGCTGGGACACGGCCGTGTGCCTCACATCAAATGTCCACACGACCTAGGACATGGG
CGTATCGCTTGACCGTGTGGATGGCCACACGGGCGTGTGTCCCCTGCATATTTGAAAAATTTCTA
TATTTTTTGAAAAAAATTATTGAGTACCTGGTTTAGCCCCAACTAATTTTAATGATTATTTTAGA
CTTCGAGGGCTTATATTAAGGACCATATAAATGTTTATGAATAATTTGTGAATTGAATGAAATAT
GTGCATGAAATGTTAATTGATTGAGTTATAAGTCCAGTAATACTCTGTAACCCTGTTCCGGCGAT
G
Found at i:99534810 original size:27 final size:26
Alignment explanation
Indices: 99534737--99534830 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
99534727 TATGTCGTTC
* * * **
99534737 TTTAATTTGCTTTGTGTATTATAGAT
1 TTTAAATTGTTTTATGTATTATTCAT
* * ** *
99534763 TTTAAAATGCTTTATACATTATTTAT
1 TTTAAATTGTTTTATGTATTATTCAT
99534789 TTTAAACTTGTTTTATGTATTATTCAT
1 TTTAAA-TTGTTTTATGTATTATTCAT
99534816 TTTAAATTGTTTTAT
1 TTTAAATTGTTTTAT
99534831 TGTTTACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 34 0.62
27 21 0.38
ACGTcount: A:0.28, C:0.05, G:0.09, T:0.59
Consensus pattern (26 bp):
TTTAAATTGTTTTATGTATTATTCAT
Found at i:99546077 original size:33 final size:33
Alignment explanation
Indices: 99546035--99546158 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
99546025 TTTCTTCTTG
*
99546035 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
99546068 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
99546101 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
99546134 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
99546159 TGAAACAGAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:99548862 original size:19 final size:20
Alignment explanation
Indices: 99548821--99548872 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 20
99548811 TATTAATTCT
*
99548821 TTTTACAAATAAATAATAAAA
1 TTTTA-AAATTAATAATAAAA
*
99548842 TTTTAAAATTAA-AATATAA
1 TTTTAAAATTAATAATAAAA
99548861 -TTTAAAATTAAT
1 TTTTAAAATTAAT
99548873 TTTTTTGGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.39
19 6 0.21
20 6 0.21
21 5 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTTTAAAATTAATAATAAAA
Found at i:99552166 original size:56 final size:54
Alignment explanation
Indices: 99552071--99552192 Score: 154
Period size: 56 Copynumber: 2.2 Consensus size: 54
99552061 GTGTATACTC
** * * *
99552071 TACAGAGTATATGCAACAATTGACATAGCCAAAATTTTATAATAGAGGTACATATA
1 TACAGAGTATACCCAACAATTGACATAGACAAAAGTTTATAATAGA--TACACATA
* * *
99552127 TACAGAGTATACCCAACAATTGACATAGATAAAAGTTTATGATAGATACACATG
1 TACAGAGTATACCCAACAATTGACATAGACAAAAGTTTATAATAGATACACATA
99552181 TACAGAGTATAC
1 TACAGAGTATAC
99552193 ACATAAAAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 18 0.31
56 40 0.69
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (54 bp):
TACAGAGTATACCCAACAATTGACATAGACAAAAGTTTATAATAGATACACATA
Found at i:99553525 original size:28 final size:28
Alignment explanation
Indices: 99553485--99553541 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
99553475 TTTCAATCAA
*
99553485 ACACTATTCAGAAACAGGTATAACTGTC
1 ACACTATTCAGAAACAGGTACAACTGTC
99553513 ACACTATTCAGAAACAGGTACAACTGTC
1 ACACTATTCAGAAACAGGTACAACTGTC
99553541 A
1 A
99553542 AAATAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (28 bp):
ACACTATTCAGAAACAGGTACAACTGTC
Found at i:99554906 original size:65 final size:65
Alignment explanation
Indices: 99554802--99554936 Score: 252
Period size: 65 Copynumber: 2.1 Consensus size: 65
99554792 GACATGTTCT
99554802 TAAATAATTATACAAAAGCCCAATAAGGAATTGCAAGAAGAAGACGAAGAAGAAACCCCATATGA
1 TAAATAATTATACAAAAGCCCAATAAGGAATTGCAAGAAGAAGACGAAGAAGAAACCCCATATGA
*
99554867 TAAATAATTATACAAAAGCCCAATAAGGAATTGCAAGAAGAAGAGGAAGAAGAAACCCCATATGA
1 TAAATAATTATACAAAAGCCCAATAAGGAATTGCAAGAAGAAGACGAAGAAGAAACCCCATATGA
*
99554932 AAAAT
1 TAAAT
99554937 TTTGACAATA
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.53, C:0.14, G:0.17, T:0.16
Consensus pattern (65 bp):
TAAATAATTATACAAAAGCCCAATAAGGAATTGCAAGAAGAAGACGAAGAAGAAACCCCATATGA
Found at i:99564173 original size:110 final size:110
Alignment explanation
Indices: 99563979--99564199 Score: 307
Period size: 110 Copynumber: 2.0 Consensus size: 110
99563969 TTGAGACCAT
* * * * * * * *
99563979 GCTCATAGTGTGCAGTTTTAAAGGAGCTGATTATGAATTCAGTGGGGACCGCGATCTCTGTTCCA
1 GCTCATAGTATGCAGTTTTAAAAGAGATGATTAGGAATTCAGTGGAGACCACGACCTCTCTTCCA
* *
99564044 AATATTAGATCAAAAGGAGTTTCCATTGTTCCAGTATGTGAAGTG
66 AACATTAGATCAAAAGGAGTTTCCACTGTTCCAGTATGTGAAGTG
*
99564089 GCTCATAGTATGCAGTTTTAAAAGAGATGATTAGGATTTCAGTGGAGACCACGACCTCTCTTCCA
1 GCTCATAGTATGCAGTTTTAAAAGAGATGATTAGGAATTCAGTGGAGACCACGACCTCTCTTCCA
* * * *
99564154 AACATTAGATTAAAGGGAGTTTCCCCTGTTCTAGTATGTGAAGTG
66 AACATTAGATCAAAAGGAGTTTCCACTGTTCCAGTATGTGAAGTG
99564199 G
1 G
99564200 TTCAAAAGGC
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 96 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (110 bp):
GCTCATAGTATGCAGTTTTAAAAGAGATGATTAGGAATTCAGTGGAGACCACGACCTCTCTTCCA
AACATTAGATCAAAAGGAGTTTCCACTGTTCCAGTATGTGAAGTG
Found at i:99567822 original size:9 final size:9
Alignment explanation
Indices: 99567794--99567842 Score: 62
Period size: 9 Copynumber: 5.2 Consensus size: 9
99567784 TCTGTTTTTT
*
99567794 ATTAAATAA
1 ATTAAAAAA
99567803 ATTATTAAAAA
1 ATTA--AAAAA
*
99567814 ATTATAAAA
1 ATTAAAAAA
99567823 ATTAAAAAA
1 ATTAAAAAA
99567832 ATTAAAAAA
1 ATTAAAAAA
99567841 AT
1 AT
99567843 AGAGAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 27 0.77
11 8 0.23
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
ATTAAAAAA
Found at i:99568728 original size:22 final size:22
Alignment explanation
Indices: 99568700--99568741 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
99568690 GAGTGGCAAC
99568700 AATAATTAATACCTCAATTTGG
1 AATAATTAATACCTCAATTTGG
99568722 AATAATTAATACCTCAATTT
1 AATAATTAATACCTCAATTT
99568742 TAGCTTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (22 bp):
AATAATTAATACCTCAATTTGG
Found at i:99569087 original size:17 final size:17
Alignment explanation
Indices: 99569065--99569099 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
99569055 ATGTAAGATA
*
99569065 CTCAATTGATACGAGTT
1 CTCAATTAATACGAGTT
99569082 CTCAATTAATACGAGTT
1 CTCAATTAATACGAGTT
99569099 C
1 C
99569100 AAACCGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.34
Consensus pattern (17 bp):
CTCAATTAATACGAGTT
Found at i:99580101 original size:123 final size:123
Alignment explanation
Indices: 99579873--99580119 Score: 359
Period size: 123 Copynumber: 2.0 Consensus size: 123
99579863 CCACCCCGTC
* * *
99579873 CACCACCTCTGCCTCTTCCACTAGCTGATCCTGTTGATGCACCCCTACCACCACGACCCCTTCCA
1 CACCACCTCTGCCTCTTCCACCAGCTGAGCCTGTTGATGCACCCCTACCACCACGAACCCTTCCA
* * * *
99579938 CCAGACTTCACAGGAGACTCCAAATCTTTAATATCCTCTTCATCACTTTCGTCAATAT
66 CCAGACTTCACAGGAGACTCCAAATCTTTAACATCATCTTCATCACTTCCATCAATAT
* * * * *
99579996 CACCACCTCTGCCTCTTCCGCCAGCTGGGCCTTTTGATGCACCCCTGCCACCACGAACCTTTCCA
1 CACCACCTCTGCCTCTTCCACCAGCTGAGCCTGTTGATGCACCCCTACCACCACGAACCCTTCCA
* * *
99580061 CCTGACTTTACAGGAGACTTCAAATCTTTAACATCATCTTCATCACTTCCATCAATAT
66 CCAGACTTCACAGGAGACTCCAAATCTTTAACATCATCTTCATCACTTCCATCAATAT
99580119 C
1 C
99580120 TACAGATTTT
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
123 109 1.00
ACGTcount: A:0.23, C:0.38, G:0.11, T:0.28
Consensus pattern (123 bp):
CACCACCTCTGCCTCTTCCACCAGCTGAGCCTGTTGATGCACCCCTACCACCACGAACCCTTCCA
CCAGACTTCACAGGAGACTCCAAATCTTTAACATCATCTTCATCACTTCCATCAATAT
Found at i:99582905 original size:7 final size:7
Alignment explanation
Indices: 99582895--99582920 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
99582885 AAATAAAACA
99582895 AAATTCT
1 AAATTCT
99582902 AAATTCT
1 AAATTCT
99582909 AAATTCT
1 AAATTCT
99582916 AAATT
1 AAATT
99582921 GAAATCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTCT
Found at i:99589491 original size:18 final size:18
Alignment explanation
Indices: 99589456--99589493 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
99589446 TTTTACTCAA
*
99589456 TTGTTTTTTTCATAAAAT
1 TTGTTTTTTTCAAAAAAT
99589474 TTGTTTTTTT-AAACAAAT
1 TTGTTTTTTTCAAA-AAAT
99589492 TT
1 TT
99589494 AATTCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
TTGTTTTTTTCAAAAAAT
Found at i:99591734 original size:105 final size:105
Alignment explanation
Indices: 99591552--99591845 Score: 552
Period size: 105 Copynumber: 2.8 Consensus size: 105
99591542 AGGAAGGTTG
* *
99591552 CAGATTGTTTTGGGGCATGGATGACGTGGACGAATATTCCTTGCCATTCTTATTGCTTTCATCTG
1 CAGATTGTTTTGGGGCATGGATGGCGTGGACGAATATTCCTTGCCATTCTCATTGCTTTCATCTG
99591617 CTGCTCTCTTGTTGGCATCATCAGTCTGATTTTTCTTTTC
66 CTGCTCTCTTGTTGGCATCATCAGTCTGATTTTTCTTTTC
*
99591657 CAGATTGTTTTGGGGCATGGATGGCGTGGACGAATATTTCTTGCCATTCTCATTGCTTTCATCTG
1 CAGATTGTTTTGGGGCATGGATGGCGTGGACGAATATTCCTTGCCATTCTCATTGCTTTCATCTG
99591722 CTGCTCTCTTGTTGGCATCATCAGTCTGATTTTTCTTTTC
66 CTGCTCTCTTGTTGGCATCATCAGTCTGATTTTTCTTTTC
99591762 CAGATTGTTTTGGGGCATGGATGGCGTGGACGAATATTCCTTGCCATTCTCATTGCTTTCATCTG
1 CAGATTGTTTTGGGGCATGGATGGCGTGGACGAATATTCCTTGCCATTCTCATTGCTTTCATCTG
*
99591827 CTGCTTTCTTGTTGGCATC
66 CTGCTCTCTTGTTGGCATC
99591846 CTTGCCATTC
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
105 184 1.00
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.42
Consensus pattern (105 bp):
CAGATTGTTTTGGGGCATGGATGGCGTGGACGAATATTCCTTGCCATTCTCATTGCTTTCATCTG
CTGCTCTCTTGTTGGCATCATCAGTCTGATTTTTCTTTTC
Found at i:99591845 original size:21 final size:21
Alignment explanation
Indices: 99591821--99591890 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
99591811 TCATTGCTTT
99591821 CATCTGCTGCTTTCTTGTTGG
1 CATCTGCTGCTTTCTTGTTGG
*
99591842 CATC--CTTGCCATTCTCATTGCTT-T
1 CATCTGC-TG-C-TT-TC-TTG-TTGG
99591866 CATCTGCTGCTTTCTTGTTGG
1 CATCTGCTGCTTTCTTGTTGG
99591887 CATC
1 CATC
99591891 ATCAGTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 18
0.66 0.03 0.31
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 12 0.32
22 4 0.11
23 4 0.11
24 8 0.21
25 4 0.11
26 1 0.03
ACGTcount: A:0.09, C:0.29, G:0.17, T:0.46
Consensus pattern (21 bp):
CATCTGCTGCTTTCTTGTTGG
Found at i:99591863 original size:45 final size:45
Alignment explanation
Indices: 99591799--99591890 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
99591789 GGACGAATAT
99591799 TCCTTGCCATTCTCATTGCTTTCATCTGCTGCTTTCTTGTTGGCA
1 TCCTTGCCATTCTCATTGCTTTCATCTGCTGCTTTCTTGTTGGCA
99591844 TCCTTGCCATTCTCATTGCTTTCATCTGCTGCTTTCTTGTTGGCA
1 TCCTTGCCATTCTCATTGCTTTCATCTGCTGCTTTCTTGTTGGCA
99591889 TC
1 TC
99591891 ATCAGTTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.09, C:0.29, G:0.15, T:0.47
Consensus pattern (45 bp):
TCCTTGCCATTCTCATTGCTTTCATCTGCTGCTTTCTTGTTGGCA
Found at i:99591869 original size:24 final size:24
Alignment explanation
Indices: 99591799--99591869 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
99591789 GGACGAATAT
99591799 TCCTTGCCATTCTCATTGCTTTCA
1 TCCTTGCCATTCTCATTGCTTTCA
*
99591823 T-C-TGCTGC-TT-TC-TTG-TTGGCA
1 TCCTTGC--CATTCTCATTGCTT-TCA
99591844 TCCTTGCCATTCTCATTGCTTTCA
1 TCCTTGCCATTCTCATTGCTTTCA
99591868 TC
1 TC
99591870 TGCTGCTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
20 2 0.06
21 7 0.19
22 8 0.22
23 8 0.22
24 9 0.25
25 2 0.06
ACGTcount: A:0.10, C:0.31, G:0.13, T:0.46
Consensus pattern (24 bp):
TCCTTGCCATTCTCATTGCTTTCA
Found at i:99591880 original size:24 final size:24
Alignment explanation
Indices: 99591808--99591880 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
99591798 TTCCTTGCCA
99591808 TTCTCATTGCTTTCATCTGCTGCT
1 TTCTCATTGCTTTCATCTGCTGCT
** * * *
99591832 TTCTTGTTGGC-ATCCT-TGC--CA
1 TTCTCATT-GCTTTCATCTGCTGCT
99591853 TTCTCATTGCTTTCATCTGCTGCT
1 TTCTCATTGCTTTCATCTGCTGCT
99591877 TTCT
1 TTCT
99591881 TGTTGGCATC
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 3 0.09
23 3 0.09
24 14 0.41
25 2 0.06
ACGTcount: A:0.08, C:0.29, G:0.14, T:0.49
Consensus pattern (24 bp):
TTCTCATTGCTTTCATCTGCTGCT
Found at i:99591892 original size:24 final size:24
Alignment explanation
Indices: 99591820--99591893 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
99591810 CTCATTGCTT
99591820 TCATCTGCTGCTTTCTTGTTGGCA
1 TCATCTGCTGCTTTCTTGTTGGCA
* * ** *
99591844 TCCT-TGC--CATTCTCATT-GCTT
1 TCATCTGCTGCTTTCTTGTTGGC-A
99591865 TCATCTGCTGCTTTCTTGTTGGCA
1 TCATCTGCTGCTTTCTTGTTGGCA
99591889 TCATC
1 TCATC
99591894 AGTTTGATCT
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 2 0.06
21 10 0.29
22 3 0.09
23 3 0.09
24 15 0.43
25 2 0.06
ACGTcount: A:0.09, C:0.28, G:0.16, T:0.46
Consensus pattern (24 bp):
TCATCTGCTGCTTTCTTGTTGGCA
Found at i:99597436 original size:259 final size:259
Alignment explanation
Indices: 99596977--99597495 Score: 966
Period size: 259 Copynumber: 2.0 Consensus size: 259
99596967 CATCTCAGGG
* * *
99596977 TGCTTGGGAGCAAAAGAGAATTTCTGGCTCTACACAAGGGTTACTTATTCATGATCTTTGTATTT
1 TGCTTGGGACCAAAACAGAATTTCTGGCTCTACACAAGGGTTACTTATTCAGGATCTTTGTATTT
99597042 CTCCCTTTGAGGGTGTTTTTTCCTCTTTCTGTCTAGAGAGTACCATTCAGTGGATATTTTCTTTT
66 CTCCCTTTGAGGGTGTTTTTTCCTCTTTCTGTCTAGAGAGTACCATTCAGTGGATATTTTCTTTT
99597107 CTTAGCAGGTTTTAAAGCGCAGGAGTTCAGTATTAGACAATGATATAGGATCAGTTGATCAGCAT
131 CTTAGCAGGTTTTAAAGCGCAGGAGTTCAGTATTAGACAATGATATAGGATCAGTTGATCAGCAT
*
99597172 GATATAGGTTTTAAAGCGCATGATATTGGATAGAGGAGGGATATCCATAAGCTTTACTTTTGGA
196 GATATAGGTTTTAAAGCGCATGATATTGGATAGAGGAGGGATATCCATAAGCTTCACTTTTGGA
*
99597236 TGCTTGGGACCAAAACAGAATTTCTGGCTCTTCACAAGGGTTACTTATTCAGGATCTTTGTATTT
1 TGCTTGGGACCAAAACAGAATTTCTGGCTCTACACAAGGGTTACTTATTCAGGATCTTTGTATTT
*
99597301 CTTCCTTTGAGGGTGTTTTTTCCTCTTTCTGTCTAGAGAGTACCATTCAGTGGATATTTTCTTTT
66 CTCCCTTTGAGGGTGTTTTTTCCTCTTTCTGTCTAGAGAGTACCATTCAGTGGATATTTTCTTTT
*
99597366 CTTTGCAGGTTTTAAAGCGCAGGAGTTCAGTATTAGACAATGATATAGGATCAGTTGATCAGCAT
131 CTTAGCAGGTTTTAAAGCGCAGGAGTTCAGTATTAGACAATGATATAGGATCAGTTGATCAGCAT
*
99597431 GATATAGGTTTTAAAGCGCATGATATTGGATTGAGGAGGGATATCCATAAGCTTCACTTTTGGA
196 GATATAGGTTTTAAAGCGCATGATATTGGATAGAGGAGGGATATCCATAAGCTTCACTTTTGGA
99597495 T
1 T
99597496 CAGTTGGTTG
Statistics
Matches: 252, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
259 252 1.00
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.37
Consensus pattern (259 bp):
TGCTTGGGACCAAAACAGAATTTCTGGCTCTACACAAGGGTTACTTATTCAGGATCTTTGTATTT
CTCCCTTTGAGGGTGTTTTTTCCTCTTTCTGTCTAGAGAGTACCATTCAGTGGATATTTTCTTTT
CTTAGCAGGTTTTAAAGCGCAGGAGTTCAGTATTAGACAATGATATAGGATCAGTTGATCAGCAT
GATATAGGTTTTAAAGCGCATGATATTGGATAGAGGAGGGATATCCATAAGCTTCACTTTTGGA
Found at i:99597609 original size:4 final size:4
Alignment explanation
Indices: 99597600--99597624 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
99597590 AACATTCCCC
99597600 CTTT CTTT CTTT CTTT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT C
99597625 AGCTGTTCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:99598387 original size:42 final size:42
Alignment explanation
Indices: 99598328--99598493 Score: 185
Period size: 42 Copynumber: 4.0 Consensus size: 42
99598318 TTCCCCAGTG
* * **
99598328 ACAAGCACAAGCAATGGTATCTTCGGTGGTACATCTGTAGGT
1 ACAAGCACAGGCAATGGTATCTTCGGTGGTACATCTGCAACT
*
99598370 ACAAGCACAGGCAATGGTATCTTTGGTGGTACATCTGCAACT
1 ACAAGCACAGGCAATGGTATCTTCGGTGGTACATCTGCAACT
* * * * *
99598412 ACAAGCAC-GGCCACTGGTTTATTTGGCGGTACATCTGCAACT
1 ACAAGCACAGG-CAATGGTATCTTCGGTGGTACATCTGCAACT
* *
99598454 ACAAGCACTGGC-ATGGCATC-TCTGGTGGTACATCTGCAAC
1 ACAAGCACAGGCAATGGTATCTTC-GGTGGTACATCTGCAAC
99598494 AAGCACAGGT
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.01
41 22 0.21
42 81 0.76
43 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (42 bp):
ACAAGCACAGGCAATGGTATCTTCGGTGGTACATCTGCAACT
Found at i:99602460 original size:42 final size:42
Alignment explanation
Indices: 99602369--99602565 Score: 231
Period size: 42 Copynumber: 4.8 Consensus size: 42
99602359 TGGCAAAGAC
* * * *
99602369 GTACCACCAAAAATACTACTACCTGTGCTTGT---TGCAGAT
1 GTACCACCAAAGATACCATTGCCTGTGCTTGTAGCTGCAGAT
* * *
99602408 GTACCACCAAAGATGCCATTGCCTGTGCTTGTAGCTGCTGAC
1 GTACCACCAAAGATACCATTGCCTGTGCTTGTAGCTGCAGAT
* * * *
99602450 GTACCACCAAATAAACCAGTGGCC-GTGCTTGTAGTTGCAGAT
1 GTACCACCAAAGATACCA-TTGCCTGTGCTTGTAGCTGCAGAT
*
99602492 GTACCACCAAAGATACCATTGCCTGTGCTTGTACCTGCAGAT
1 GTACCACCAAAGATACCATTGCCTGTGCTTGTAGCTGCAGAT
* *
99602534 GTACCACCGAAGATACCATTGCTTGTGCTTGT
1 GTACCACCAAAGATACCATTGCCTGTGCTTGT
99602566 CACTGGGGAA
Statistics
Matches: 132, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
39 27 0.20
41 4 0.03
42 97 0.73
43 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (42 bp):
GTACCACCAAAGATACCATTGCCTGTGCTTGTAGCTGCAGAT
Found at i:99609694 original size:14 final size:14
Alignment explanation
Indices: 99609675--99609718 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
99609665 CATAACTTAT
99609675 ATTATATACATATA
1 ATTATATACATATA
* *
99609689 ATTATATACATTTT
1 ATTATATACATATA
99609703 ATTATTATAACATATA
1 ATTA-TAT-ACATATA
99609719 TATATTGTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 16 0.67
15 3 0.12
16 5 0.21
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTATATACATATA
Found at i:99617756 original size:6 final size:6
Alignment explanation
Indices: 99617745--99617769 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
99617735 TGACGGAGTG
99617745 GCAGCT GCAGCT GCAGCT GCAGCT G
1 GCAGCT GCAGCT GCAGCT GCAGCT G
99617770 AAGTGAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (6 bp):
GCAGCT
Found at i:99618430 original size:42 final size:42
Alignment explanation
Indices: 99618339--99618475 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 42
99618329 AATATTACTA
* * * * *
99618339 CCTGTGCTTGTAGCTGCTGATGTACCACCAAATAAACCAGTG
1 CCTGTGCTTGTAGTTGCAGATGTACCACCAAAGATACCATTG
* * *
99618381 CCCGTGCTTGTAGTTGCAGATGTAACACCAAAGATAGCATTG
1 CCTGTGCTTGTAGTTGCAGATGTACCACCAAAGATACCATTG
* * * * *
99618423 CCTGTGCTTGCACTTGCAGAGGTACCACCGAAGGTACCATTG
1 CCTGTGCTTGTAGTTGCAGATGTACCACCAAAGATACCATTG
*
99618465 CTTGTGCTTGT
1 CCTGTGCTTGT
99618476 CACTGGGGAA
Statistics
Matches: 77, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (42 bp):
CCTGTGCTTGTAGTTGCAGATGTACCACCAAAGATACCATTG
Found at i:99620455 original size:116 final size:116
Alignment explanation
Indices: 99620251--99620485 Score: 461
Period size: 116 Copynumber: 2.0 Consensus size: 116
99620241 TATAAGAACT
99620251 CCTGACCAGGTATCCTTTTACACCCTGCCAATTAACTAACTACTAGCCTACTCCATTCAACCAGA
1 CCTGACCAGGTATCCTTTTACACCCTGCCAATTAACTAACTACTAGCCTACTCCATTCAACCAGA
99620316 TATTAGTGACCCTATGCACAAGGGTTAGATTCACCACCAAAATCCCCAACC
66 TATTAGTGACCCTATGCACAAGGGTTAGATTCACCACCAAAATCCCCAACC
99620367 CCTGACCAGGTATCCTTTTACACCCTGCCAATTAACTAACTACTAGCCTACTCCATTCAACCAGA
1 CCTGACCAGGTATCCTTTTACACCCTGCCAATTAACTAACTACTAGCCTACTCCATTCAACCAGA
*
99620432 TATTAGTGACCCTATGCACAAGGGTTAGATTCACCTCCAAAATCCCCAACC
66 TATTAGTGACCCTATGCACAAGGGTTAGATTCACCACCAAAATCCCCAACC
99620483 CCT
1 CCT
99620486 TCCATCCTTT
Statistics
Matches: 118, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 118 1.00
ACGTcount: A:0.30, C:0.34, G:0.11, T:0.25
Consensus pattern (116 bp):
CCTGACCAGGTATCCTTTTACACCCTGCCAATTAACTAACTACTAGCCTACTCCATTCAACCAGA
TATTAGTGACCCTATGCACAAGGGTTAGATTCACCACCAAAATCCCCAACC
Found at i:99630565 original size:22 final size:22
Alignment explanation
Indices: 99630527--99630593 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 22
99630517 TCAAAAATAT
99630527 AATAAATAAAAAATATTTAAAA-A
1 AATAAA-AAAAAATA-TTAAAACA
* *
99630550 CATAAAAACAAATATTAAAACA
1 AATAAAAAAAAATATTAAAACA
* *
99630572 AAT-AAAAATAATACTAAAACA
1 AATAAAAAAAAATATTAAAACA
99630593 A
1 A
99630594 TTCTTAAAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 22 0.59
22 10 0.27
23 5 0.14
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (22 bp):
AATAAAAAAAAATATTAAAACA
Found at i:99633622 original size:30 final size:30
Alignment explanation
Indices: 99633586--99633646 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
99633576 TAAAATGTGC
99633586 TTCATTTCTATGAGTGATGATCGGATTTTG
1 TTCATTTCTATGAGTGATGATCGGATTTTG
99633616 TTCATTTCTATGAGTGATGATCGGATTTTG
1 TTCATTTCTATGAGTGATGATCGGATTTTG
99633646 T
1 T
99633647 GCTCGAGTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.10, G:0.23, T:0.48
Consensus pattern (30 bp):
TTCATTTCTATGAGTGATGATCGGATTTTG
Found at i:99636996 original size:4 final size:4
Alignment explanation
Indices: 99636987--99637016 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
99636977 TTGGAGGTAT
99636987 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
99637017 GGGAAGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:99643365 original size:33 final size:33
Alignment explanation
Indices: 99643328--99643449 Score: 212
Period size: 33 Copynumber: 3.8 Consensus size: 33
99643318 CTTTGTTTCA
99643328 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
99643361 GGTTGCTGGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
99643394 GGTTGCTGGACAGGAGCTGGAATGT--GTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
99643425 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
99643450 CAAGAAGAAA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 30 0.35
33 56 0.65
ACGTcount: A:0.17, C:0.10, G:0.43, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:99643447 original size:64 final size:65
Alignment explanation
Indices: 99643328--99643449 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 65
99643318 CTTTGTTTCA
*
99643328 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTTGGTTGCTGGACGGGAGCTGGAATGTGAGTGTT
1 GGTTGCTGGACAGGAGCTGGAATGT-AGTGTTTGGTTGCTGGACAGGAGCTGGAATGTGAGTGTT
99643393 T
65 T
*
99643394 GGTTGCTGGACAGGAGCTGGAATGT-GTGTTTGGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGTAGTGTTTGGTTGCTGGACAGGAGCTGGAATGT
99643450 CAAGAAGAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
64 29 0.54
66 25 0.46
ACGTcount: A:0.17, C:0.10, G:0.43, T:0.30
Consensus pattern (65 bp):
GGTTGCTGGACAGGAGCTGGAATGTAGTGTTTGGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:99647438 original size:26 final size:25
Alignment explanation
Indices: 99647409--99647464 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
99647399 GCTATGCTCA
*
99647409 AATTTAAAAT-TTAATTTCTATATTTT
1 AATTTAAAATATT-ATTT-GATATTTT
**
99647435 AATTTTTAATATTATTTGATATTTT
1 AATTTAAAATATTATTTGATATTTT
99647460 AATTT
1 AATTT
99647465 TTTAATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
25 12 0.46
26 12 0.46
27 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (25 bp):
AATTTAAAATATTATTTGATATTTT
Found at i:99647459 original size:18 final size:16
Alignment explanation
Indices: 99647431--99647480 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
99647421 AATTTCTATA
99647431 TTTTAAT-TTTTAATAT
1 TTTTAATATTTTAAT-T
*
99647447 TATTTGATATTTTAATT
1 T-TTTAATATTTTAATT
99647464 TTTTAATATATTTAATT
1 TTTTAATAT-TTTAATT
99647481 AATATTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 8 0.28
17 14 0.48
18 7 0.24
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (16 bp):
TTTTAATATTTTAATT
Found at i:99647461 original size:25 final size:25
Alignment explanation
Indices: 99647428--99647476 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
99647418 TTTAATTTCT
99647428 ATATTTTAA-TTTTTAATATTATTTG
1 ATATTTTAATTTTTTAATA-TATTTG
99647453 ATATTTTAATTTTTTAATATATTT
1 ATATTTTAATTTTTTAATATATTT
99647477 AATTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATATTTTAATTTTTTAATATATTTG
Found at i:99647488 original size:21 final size:20
Alignment explanation
Indices: 99647428--99647502 Score: 56
Period size: 17 Copynumber: 4.0 Consensus size: 20
99647418 TTTAATTTCT
99647428 ATATTTTAAT-TTTTAA-TA
1 ATATTTTAATATTTTAATTA
* *
99647446 TTA-TTTGATATTTTAA-T-
1 ATATTTTAATATTTTAATTA
99647463 -T-TTTTAATATATTTAATTA
1 ATATTTTAATAT-TTTAATTA
**
99647482 ATATTTTTTTATTTTAATTA
1 ATATTTTAATATTTTAATTA
99647502 A
1 A
99647503 AATATTGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 8 0.18
17 10 0.22
18 10 0.22
20 10 0.22
21 7 0.16
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (20 bp):
ATATTTTAATATTTTAATTA
Found at i:99647773 original size:20 final size:20
Alignment explanation
Indices: 99647748--99647800 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
99647738 ATTTTAAATA
99647748 TTTTATATTTAAATATTATT
1 TTTTATATTTAAATATTATT
**
99647768 TTTTATA-GGAAATATTATT
1 TTTTATATTTAAATATTATT
*
99647787 CTTTA-ATATTAAAT
1 TTTTATAT-TTAAAT
99647801 TAATGTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.54
20 11 0.42
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (20 bp):
TTTTATATTTAAATATTATT
Found at i:99651854 original size:6 final size:6
Alignment explanation
Indices: 99651845--99651870 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
99651835 CAGCATCGGA
99651845 ATGACC ATGACC ATGACC ATGACC AT
1 ATGACC ATGACC ATGACC ATGACC AT
99651871 AATCAGGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.31, G:0.15, T:0.19
Consensus pattern (6 bp):
ATGACC
Found at i:99663657 original size:10 final size:10
Alignment explanation
Indices: 99663615--99663659 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
99663605 AAATTCAAAG
99663615 AAATATATAA
1 AAATATATAA
*
99663625 AATTATATAA
1 AAATATATAA
* * *
99663635 ATATTTTTAA
1 AAATATATAA
99663645 AAATATATAA
1 AAATATATAA
99663655 AAATA
1 AAATA
99663660 AAAAATATTG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAATATATAA
Found at i:99670423 original size:20 final size:20
Alignment explanation
Indices: 99670398--99670447 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
99670388 TGGCTTAAAA
99670398 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
99670418 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
99670435 GTGGTAGTGGATT
1 TTGGTAGTGGATT
99670448 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:99675051 original size:20 final size:20
Alignment explanation
Indices: 99675026--99675075 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
99675016 TGGCTTAAAA
99675026 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
99675046 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
99675063 GTGGTAGTGGATT
1 TTGGTAGTGGATT
99675076 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:99678529 original size:117 final size:117
Alignment explanation
Indices: 99678398--99678641 Score: 443
Period size: 117 Copynumber: 2.1 Consensus size: 117
99678388 GGTGGAAATA
*
99678398 ATGCAGGTGATCGTGGTAGAGGACGTGGACGTGGGTGTAGTAGAAGTCAAAGTTGGGGTGGCAAG
1 ATGCAGGTGGTCGTGGTAGAGGACGTGGACGTGGGTGTAGTAGAAGTCAAAGTTGGGGTGGCAAG
*
99678463 GAAGAGAGTGGTAGTGGTGGTAATGATGGAGCTTGGAATTCCAGTAGAAACG
66 GAAGAGAGTGGTAGTGGTAGTAATGATGGAGCTTGGAATTCCAGTAGAAACG
*
99678515 ATGCAGGTGGTCGTGGTAGAGGACGTGGACGTGGGTGTAGTAGAAGTCACAGTTGGGGTGGCAAG
1 ATGCAGGTGGTCGTGGTAGAGGACGTGGACGTGGGTGTAGTAGAAGTCAAAGTTGGGGTGGCAAG
* *
99678580 GAAGAGAGTGGTAGTGGTAGTAATGATGGAGCTTGGAATTCCAGTGGAAACT
66 GAAGAGAGTGGTAGTGGTAGTAATGATGGAGCTTGGAATTCCAGTAGAAACG
99678632 ATGCAGGTGG
1 ATGCAGGTGG
99678642 ATATGGCCAC
Statistics
Matches: 122, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 122 1.00
ACGTcount: A:0.26, C:0.09, G:0.42, T:0.23
Consensus pattern (117 bp):
ATGCAGGTGGTCGTGGTAGAGGACGTGGACGTGGGTGTAGTAGAAGTCAAAGTTGGGGTGGCAAG
GAAGAGAGTGGTAGTGGTAGTAATGATGGAGCTTGGAATTCCAGTAGAAACG
Found at i:99679476 original size:27 final size:27
Alignment explanation
Indices: 99679414--99679477 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
99679404 CTCTTTAATT
* *
99679414 ATTTTAAAAATTTTAAAAAACCTTTAA
1 ATTTTAAAAATATTAAAAAACCTTAAA
*
99679441 ATTTAAAAAATATTAAAAAA-C-TAAA
1 ATTTTAAAAATATTAAAAAACCTTAAA
99679466 TATTTTTAAAAA
1 -A-TTTTAAAAA
99679478 AAATATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 3 0.10
26 2 0.06
27 26 0.84
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (27 bp):
ATTTTAAAAATATTAAAAAACCTTAAA
Found at i:99679491 original size:15 final size:15
Alignment explanation
Indices: 99679445--99679491 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
99679435 CTTTAAATTT
99679445 AAAAAATATTA-AAA
1 AAAAAATATTATAAA
* * *
99679459 AACTAAATATTTTTAA
1 AA-AAAATATTATAAA
99679475 AAAAAATATTATAAA
1 AAAAAATATTATAAA
99679490 AA
1 AA
99679492 TGCATAAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
14 2 0.08
15 19 0.76
16 4 0.16
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATATTATAAA
Found at i:99680160 original size:17 final size:19
Alignment explanation
Indices: 99680127--99680263 Score: 69
Period size: 17 Copynumber: 7.3 Consensus size: 19
99680117 TATATTATTA
99680127 TATTAAATTATTTAAATAT
1 TATTAAATTATTTAAATAT
99680146 TATTAAA-TA-TTAAATAT
1 TATTAAATTATTTAAATAT
*
99680163 TATT--A-TATTT-AATTT
1 TATTAAATTATTTAAATAT
* * *
99680178 TA-AAAAATATTTATATAT
1 TATTAAATTATTTAAATAT
99680196 TA-TAAATT-TTATAAATAAT
1 TATTAAATTATT-TAAAT-AT
* *
99680215 T-TGTATTAATTACTTAAAAAATT
1 TAT-TA--AATTA-TTTAAATA-T
99680238 ATATTAAATTATTTAAATAT
1 -TATTAAATTATTTAAATAT
*
99680258 AATTAA
1 TATTAA
99680264 TTTAACTAAT
Statistics
Matches: 90, Mismatches: 12, Indels: 32
0.67 0.09 0.24
Matches are distributed among these distances:
15 9 0.10
16 3 0.03
17 19 0.21
18 15 0.17
19 15 0.17
20 3 0.03
21 6 0.07
22 10 0.11
23 4 0.04
24 5 0.06
25 1 0.01
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.50
Consensus pattern (19 bp):
TATTAAATTATTTAAATAT
Found at i:99680185 original size:25 final size:27
Alignment explanation
Indices: 99680157--99680206 Score: 70
Period size: 25 Copynumber: 1.9 Consensus size: 27
99680147 ATTAAATATT
99680157 AAATA-TTATTATATT-T-AATTTTAAA
1 AAATATTTA-TATATTATAAATTTTAAA
99680182 AAATATTTATATATTATAAATTTTA
1 AAATATTTATATATTATAAATTTTA
99680207 TAAATAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 11 0.50
26 4 0.18
27 7 0.32
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
AAATATTTATATATTATAAATTTTAAA
Found at i:99680232 original size:22 final size:23
Alignment explanation
Indices: 99680207--99680262 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
99680197 ATAAATTTTA
* *
99680207 TAAATAATTTGTATT-AATTACT
1 TAAATAAATTATATTAAATTACT
*
99680229 TAAA-AAATTATATTAAATTATT
1 TAAATAAATTATATTAAATTACT
99680251 TAAATATAATTA
1 TAAATA-AATTA
99680263 ATTTAACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 8 0.29
22 14 0.50
23 1 0.04
24 5 0.18
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TAAATAAATTATATTAAATTACT
Found at i:99683825 original size:48 final size:48
Alignment explanation
Indices: 99683753--99683847 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
99683743 GAGAATTATG
* *
99683753 AAGACATCTTATTAAATCATAATAAACATATAAAACAAAATATATTGT
1 AAGACATCTTATTAAATCAAAATAAACAGATAAAACAAAATATATTGT
* * *
99683801 AAGACATCTTATTAAATCAAAATAAATAGGTAAAACAGAATATATTG
1 AAGACATCTTATTAAATCAAAATAAACAGATAAAACAAAATATATTG
99683848 CCTCGACTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.29
Consensus pattern (48 bp):
AAGACATCTTATTAAATCAAAATAAACAGATAAAACAAAATATATTGT
Found at i:99688492 original size:6 final size:6
Alignment explanation
Indices: 99688483--99688517 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
99688473 AAACAAAAAC
99688483 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAAT
99688518 ACTAATAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAAATT
Found at i:99688498 original size:18 final size:18
Alignment explanation
Indices: 99688466--99688516 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
99688456 ATATTTTGAT
**
99688466 AAATTAAAAACAAAAACA
1 AAATTAAAATTAAAAACA
**
99688484 AAATTAAAATTAAAATTA
1 AAATTAAAATTAAAAACA
99688502 AAATTAAAATTAAAA
1 AAATTAAAATTAAAA
99688517 TACTAATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATTAAAATTAAAAACA
Found at i:99692316 original size:19 final size:20
Alignment explanation
Indices: 99692294--99692332 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
99692284 CTACAGGCAG
*
99692294 ATTTTGATTCTTTTT-TTAA
1 ATTTAGATTCTTTTTATTAA
*
99692313 ATTTAGCTTCTTTTTATTAA
1 ATTTAGATTCTTTTTATTAA
99692333 TGTATTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTAGATTCTTTTTATTAA
Found at i:99694150 original size:16 final size:16
Alignment explanation
Indices: 99694131--99694172 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
99694121 GATTAGAGGG
99694131 GTAATGAAATAGA-GTT
1 GTAATGAAATAGATG-T
99694147 GTAATGAAATAGATGT
1 GTAATGAAATAGATGT
99694163 GTAATAGAAA
1 GTAAT-GAAA
99694173 ATCAACTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.29
Consensus pattern (16 bp):
GTAATGAAATAGATGT
Found at i:99694423 original size:18 final size:18
Alignment explanation
Indices: 99694400--99694533 Score: 81
Period size: 18 Copynumber: 7.9 Consensus size: 18
99694390 TTATTATTAA
99694400 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
99694418 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
99694435 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
99694453 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
99694469 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
99694488 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
*
99694500 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
*
99694518 ATATATTTTAATAAAA
1 ATATAATTTAATAAAA
99694534 TTCTAAGTAT
Statistics
Matches: 87, Mismatches: 18, Indels: 22
0.69 0.14 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 22 0.25
18 41 0.47
19 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:99694471 original size:15 final size:15
Alignment explanation
Indices: 99694451--99694506 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
99694441 ATTTACTAAA
*
99694451 ATTATAATATATAAT
1 ATTATAAAATATAAT
99694466 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
99694479 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
99694492 ATTATTAAATATAAT
1 ATTATAAAATATAAT
99694507 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:99694501 original size:26 final size:25
Alignment explanation
Indices: 99694461--99694519 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
99694451 ATTATAATAT
99694461 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
99694486 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
99694513 AAAATAT
1 ATAATAT
99694520 ATATTTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:99694519 original size:59 final size:60
Alignment explanation
Indices: 99694456--99694654 Score: 218
Period size: 59 Copynumber: 3.4 Consensus size: 60
99694446 CTAAAATTAT
99694456 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAATATTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
* * * *
99694515 AATATAT-ATTTTAATAAAATTCTAAGTATT-AAAT-ATTCTTATATAAAT-TTA-TTAA-AATC
1 AATATATAATATTAATAAAA-TATAA-T-TTAAAATAATTATTAT-TAAATATAATTTAACAA--
99694574 A
60 A
* *
99694575 TAATATATAATACT-ATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAACAAA
1 -AATATATAATATTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
99694635 AATATATAAT-TTAATAAAAT
1 AATATATAATATTAATAAAAT
99694655 TCTTAGTATT
Statistics
Matches: 114, Mismatches: 11, Indels: 30
0.74 0.07 0.19
Matches are distributed among these distances:
58 9 0.08
59 44 0.39
60 27 0.24
61 27 0.24
62 7 0.06
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (60 bp):
AATATATAATATTAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
Found at i:99694586 original size:120 final size:120
Alignment explanation
Indices: 99694434--99694676 Score: 423
Period size: 120 Copynumber: 2.0 Consensus size: 120
99694424 TTTAATAAAA
* * * *
99694434 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATTA
1 TATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTA
*
99694499 AATATAATTTAACAAAAATATATATTTTAATAAAATTCTAAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTAAGTATTAAATATTCT
*
99694554 TATATAAATTTATTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTA
1 TATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTA
*
99694619 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTAAGTATTAAATATTCT
99694674 TAT
1 TAT
99694677 GATTGTATCA
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (120 bp):
TATATAAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATAATTATTA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTAAGTATTAAATATTCT
Found at i:99694614 original size:13 final size:12
Alignment explanation
Indices: 99694590--99694630 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
99694580 TATAATACTA
99694590 TAAAATATAATT
1 TAAAATATAATT
99694602 TAAAATAATAATT
1 TAAAAT-ATAATT
*
99694615 ATTAAATATAATT
1 -TAAAATATAATT
99694628 TAA
1 TAA
99694631 CAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:99697643 original size:17 final size:17
Alignment explanation
Indices: 99697621--99697654 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99697611 ATCCACTAAT
*
99697621 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
99697638 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
99697655 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:99702272 original size:17 final size:17
Alignment explanation
Indices: 99702250--99702283 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
99702240 ATCCACTAAT
*
99702250 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
99702267 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
99702284 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:99704326 original size:15 final size:16
Alignment explanation
Indices: 99704297--99704327 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
99704287 TTACCATCTA
99704297 AATATAAATTTGAAAG
1 AATATAAATTTGAAAG
99704313 AATATAAA-TTGAAAG
1 AATATAAATTTGAAAG
99704328 TCGATTCGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (16 bp):
AATATAAATTTGAAAG
Found at i:99709085 original size:210 final size:210
Alignment explanation
Indices: 99708658--99710141 Score: 2506
Period size: 210 Copynumber: 7.1 Consensus size: 210
99708648 AATATTTGGA
*
99708658 GTTGTCCTAATTTAAGTTCAATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
* ** * * *
99708723 GAAAGCTGCGCTCAGTTGGAAGTTATTTCGATAACC-GGGGATGTTCATCTCTTGAAAAGCTTAG
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
*** * *
99708787 CATTCTTTTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTAGCTGCACTTGTCTCAAAG
131 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
*
99708852 AATTAGGTCTATATG
196 AATTAGATCTATATG
99708867 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
* *
99708932 GGAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGACGTTCATCTCTTGAAAAGCTTAA
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
*
99708997 CATTCACCTTTGCGAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
131 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
99709062 AATTAGATCTATATG
196 AATTAGATCTATATG
99709077 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
* * *
99709142 GGAAGGTGCAATGAGTTGGAAGTTTTTCCGATGACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
*
99709207 CATTCACCTTTGCGAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
131 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
99709272 AATTAGATCTATATG
196 AATTAGATCTATATG
99709287 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
* *
99709352 GAAAGGTGCAATGAGTTGGAAGTTTTTCCGATAACCGGGGGATGTTTATCTCTTGAAAAGCTTAA
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
*
99709417 CATTCACCTTTGCGAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
131 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
*
99709482 AATTAGATCTATATA
196 AATTAGATCTATATG
* *
99709497 GTTGTCCTAATTTAAGTTCGATTCCAGATTTGAAAAGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
* *
99709562 GAAATGTGCAATGAGTTGGAAGTTATTCCGATAACCAGGGGATGTTCATCTCTTGAAAAGCTTAA
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
99709627 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
131 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
99709692 AATTAGATCTATATG
196 AATTAGATCTATATG
99709707 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
** *
99709772 GAAAGGTGCGCTGAGTTGGAAGTTATTTCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
* * *
99709837 GATTCACCTTTGCAGGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTGAAAG
131 CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
99709902 AATTAGATCTATATG
196 AATTAGATCTATATG
99709917 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
1 GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
* * * ** *
99709982 GAAACGTGCAATGAGTTGGAAGTTTTTCCGATTACCGGAAGATGTTCATCTCTTAAAAAAG-TTA
66 GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTT-GAAAAGCTTA
* * *
99710046 ACATTTC-CCGTTGCAAAAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTATCTCAA
130 ACA-TTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAA
* * *
99710110 ATATTTACATCTATATG
194 AGAATTAGATCTATATG
*
99710127 ATTGTCCTAATTTAA
1 GTTGTCCTAATTTAA
99710142 AGCCCATTCC
Statistics
Matches: 1212, Mismatches: 60, Indels: 5
0.95 0.05 0.00
Matches are distributed among these distances:
209 94 0.08
210 1110 0.92
211 8 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (210 bp):
GTTGTCCTAATTTAAGTTCGATTCCAGAGTTGAAAGGATTTTCCTCTCTTCAAAATCTATCAATT
GAAAGGTGCAATGAGTTGGAAGTTATTCCGATAACCGGGGGATGTTCATCTCTTGAAAAGCTTAA
CATTCACCTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTACCTCCACTTGTCTCAAAG
AATTAGATCTATATG
Found at i:99710625 original size:144 final size:144
Alignment explanation
Indices: 99710418--99710704 Score: 371
Period size: 144 Copynumber: 2.0 Consensus size: 144
99710408 TCCCTTCGAG
* * * *
99710418 TTCTAAAGTTGATTGGTTGGGAAAAGCTAAAGAGTCTTTCCCCCCAACTTCAATTCCTCACTGCC
1 TTCTAAAGTTGAGTGGTTGGGAAAAGCTAAAGAGTCCTTCCCACCAACTTCAACTCCTCACTGCC
* * *
99710483 CTTGAAGCTTTGACGATAAAAGAGTTTCA-AGGAATAGAAGCCTTACCGGAGTGGTTGGGAAATC
66 CTTAAAGCTTTGACGATAAAAGAGTTTCATA-AAATAGAAGCCTTACCGGAGCGGTTGGGAAATC
99710547 TCTCTTCTCTAAGGT
130 TCTCTTCTCTAAGGT
* **
99710562 TTCTAAATTTGAGTGGTTTTGAAAAGCTAAAGAG-CCTTCCTCACCAACTTCAACTCCTCACTGC
1 TTCTAAAGTTGAGTGGTTGGGAAAAGCTAAAGAGTCCTTCC-CACCAACTTCAACTCCTCACTGC
* ** **** * *
99710626 CCTTAAAGTTTTGATTATGTCGGGGTTTCATAAAATAGAAGCCTTGCCGGAGCGGTTGGGAAATC
65 CCTTAAAGCTTTGACGATAAAAGAGTTTCATAAAATAGAAGCCTTACCGGAGCGGTTGGGAAATC
99710691 TCTCTTCTCTAAGG
130 TCTCTTCTCTAAGG
99710705 CGCCTGCATA
Statistics
Matches: 122, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 5 0.04
144 116 0.95
145 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (144 bp):
TTCTAAAGTTGAGTGGTTGGGAAAAGCTAAAGAGTCCTTCCCACCAACTTCAACTCCTCACTGCC
CTTAAAGCTTTGACGATAAAAGAGTTTCATAAAATAGAAGCCTTACCGGAGCGGTTGGGAAATCT
CTCTTCTCTAAGGT
Found at i:99714374 original size:19 final size:20
Alignment explanation
Indices: 99714352--99714390 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
99714342 CTACAGGCAG
*
99714352 ATTTTGATTCTTTTT-TTAA
1 ATTTAGATTCTTTTTATTAA
*
99714371 ATTTAGCTTCTTTTTATTAA
1 ATTTAGATTCTTTTTATTAA
99714391 TGTATTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.23, C:0.08, G:0.05, T:0.64
Consensus pattern (20 bp):
ATTTAGATTCTTTTTATTAA
Found at i:99716084 original size:18 final size:17
Alignment explanation
Indices: 99716061--99716095 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
99716051 GTTTGGAGAG
*
99716061 AGAAAATAGAAATAGAAA
1 AGAAAATACAAA-AGAAA
99716079 AGAAAATACAAAAGAAA
1 AGAAAATACAAAAGAAA
99716096 GGGGAAGAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.74, C:0.03, G:0.14, T:0.09
Consensus pattern (17 bp):
AGAAAATACAAAAGAAA
Found at i:99725816 original size:17 final size:16
Alignment explanation
Indices: 99725786--99725830 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
99725776 TATATTATGT
* *
99725786 TTTTTTTTAATTTTAA
1 TTTTTTTAAATTTTTA
99725802 TTTTTTTAAATTTTTA
1 TTTTTTTAAATTTTTA
*
99725818 TAATTTTTAAATT
1 T-TTTTTTAAATT
99725831 ATTGATTGAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTTAAATTTTTA
Found at i:99726691 original size:29 final size:29
Alignment explanation
Indices: 99726657--99726712 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
99726647 GAAAACGACT
99726657 TTTAACAACAATGACTAAAATAAAAATAG
1 TTTAACAACAATGACTAAAATAAAAATAG
* * *
99726686 TTTAACGACAATGCCTAAAATTAAAAT
1 TTTAACAACAATGACTAAAATAAAAAT
99726713 TTTTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (29 bp):
TTTAACAACAATGACTAAAATAAAAATAG
Found at i:99731695 original size:210 final size:207
Alignment explanation
Indices: 99731278--99731788 Score: 649
Period size: 210 Copynumber: 2.5 Consensus size: 207
99731268 GACAATATTT
* **
99731278 ATCTCTTGAAAGTCTTGGAATTTCCGGTTGC-AGAACATTAAGCAAGATTGGAGACGGATTATCT
1 ATCTCTTGAAAGTCTTGGCATTT-CAATTGCAAGAA-ATTAAGCAAGATTGGAGACGGATTATCT
* * * *
99731342 ACAC-CCACTTGTCTCAAAGA-ATTAGATCTAACTCATCTTAATATAAATTCGATTCCAGATTTG
64 AC-CTCCACTTATCTCAAAGATATTAGATCTAAATCATCTTAATATAAATTCGATTCCAAAATTG
*
99731405 AAAGTATTTTCCTCTCTTCAAAACCTATCAATTCAAAGCTGCAATGAGTTGGAAGTTATTCCGAT
128 AAAGGATTTTCCTCTCTTCAAAACCTATCAATTCAAAGCTGCAATGAGTTGGAAGTTATTCCGAT
*
99731470 AACTGGGAAATGTTC
193 AACTCGGAAATGTTC
**
99731485 ATCTCTTGAAAGTCTTGGCATTCTCTTTTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTA
1 ATCTCTTGAAAGTCTTGGCATT-TCAATTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTA
* * * * *
99731550 CCTCCACTTCTCTCAAA-ATATTAGATCTAAGAT-ACTGTTTAAATTTAAGTTTGATTCCAAAAT
65 CCTCCACTTATCTCAAAGATATTAGATCTAA-ATCA-T-CTT-AATATAAATTCGATTCCAAAAT
* * * * *
99731613 TGGAAGGATTTTCCTCTCTTCAATATCTATCAATTCAAGGCTGCAATGAGTTGGAAGTTCTTCCG
126 TGAAAGGATTTTCCTCTCTTCAAAACCTATCAATTCAAAGCTGCAATGAGTTGGAAGTTATTCCG
99731678 ATAAC-CGGAAGATGTTC
191 ATAACTCGGAA-ATGTTC
* * * *
99731695 ATCTCTTGAAAATCTTTGCATTTTCAAGTGCAAAAAATTAAGCAAGATTGGAGACGGATTATCTA
1 ATCTCTTGAAAGTCTTGGCA-TTTCAATTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTA
*
99731760 CCTTCACTTATCTCAAAGAT-TTAGATCTA
65 CCTCCACTTATCTCAAAGATATTAGATCTA
99731789 CATAATTGTC
Statistics
Matches: 267, Mismatches: 26, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
206 2 0.01
207 81 0.30
208 7 0.03
209 6 0.02
210 167 0.63
211 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (207 bp):
ATCTCTTGAAAGTCTTGGCATTTCAATTGCAAGAAATTAAGCAAGATTGGAGACGGATTATCTAC
CTCCACTTATCTCAAAGATATTAGATCTAAATCATCTTAATATAAATTCGATTCCAAAATTGAAA
GGATTTTCCTCTCTTCAAAACCTATCAATTCAAAGCTGCAATGAGTTGGAAGTTATTCCGATAAC
TCGGAAATGTTC
Found at i:99739280 original size:20 final size:21
Alignment explanation
Indices: 99739230--99739288 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
99739220 ATACATTTGT
*
99739230 AATATATGTATTTAATTATTAA
1 AATATATTTA-TTAATTATTAA
* *
99739252 TAGATATTTATTAATTA-TAA
1 AATATATTTATTAATTATTAA
99739272 AATATATTTATTAATTA
1 AATATATTTATTAATTA
99739289 AATAATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 18 0.56
21 7 0.22
22 7 0.22
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (21 bp):
AATATATTTATTAATTATTAA
Found at i:99739322 original size:31 final size:32
Alignment explanation
Indices: 99739261--99739329 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
99739251 ATAGATATTT
99739261 ATTAATTATAAAATATATTTATTAATTAAATA
1 ATTAATTATAAAATATATTTATTAATTAAATA
*
99739293 ATTATATTATAAGAT-T-TTTATGTAA-TAAATAA
1 ATTA-ATTATAAAATATATTTAT-TAATTAAAT-A
99739325 ATTAA
1 ATTAA
99739330 AACATGACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
31 11 0.33
32 13 0.39
33 9 0.27
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (32 bp):
ATTAATTATAAAATATATTTATTAATTAAATA
Found at i:99740360 original size:23 final size:23
Alignment explanation
Indices: 99740334--99740383 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
99740324 GATTATTGAG
99740334 AAGTTTGAATATTTATTAATGTA
1 AAGTTTGAATATTTATTAATGTA
99740357 AAGTTTGAATATTTATTAATGTA
1 AAGTTTGAATATTTATTAATGTA
99740380 AAGT
1 AAGT
99740384 GAACTGAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (23 bp):
AAGTTTGAATATTTATTAATGTA
Found at i:99740405 original size:17 final size:18
Alignment explanation
Indices: 99740383--99740417 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
99740373 TAATGTAAAG
*
99740383 TGAACTG-AGATATATAT
1 TGAACTGAAAATATATAT
99740400 TGAACTGAAAATATATAT
1 TGAACTGAAAATATATAT
99740418 ATGATTAGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (18 bp):
TGAACTGAAAATATATAT
Found at i:99740659 original size:51 final size:53
Alignment explanation
Indices: 99740574--99740689 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 53
99740564 AAGTGTCGCC
* * * *
99740574 TTACTGTTACTGTTTCAGATTCGTTCTGAAGAGGTACTC-CGTACC-TTATTG
1 TTACTGTTACTGTTCCAGATTCATTCCGAAGAGGTACTCGCGTACCGTTACTG
* * * *
99740625 TTACTGTTATTGTTCCAGATTTATTCCGATGAGGTACTCTGTGTACCGTTACTG
1 TTACTGTTACTGTTCCAGATTCATTCCGAAGAGGTACTC-GCGTACCGTTACTG
99740679 TTACTGTTACT
1 TTACTGTTACT
99740690 ATTACCGTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
51 33 0.62
53 5 0.09
54 15 0.28
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (53 bp):
TTACTGTTACTGTTCCAGATTCATTCCGAAGAGGTACTCGCGTACCGTTACTG
Found at i:99740831 original size:18 final size:18
Alignment explanation
Indices: 99740808--99740911 Score: 136
Period size: 18 Copynumber: 5.8 Consensus size: 18
99740798 CACATAAAGG
99740808 TACTGAATAATTGACTGT
1 TACTGAATAATTGACTGT
*
99740826 TACTGAATAAATGACTGT
1 TACTGAATAATTGACTGT
* *
99740844 TACTGAATAAATGACTGC
1 TACTGAATAATTGACTGT
* * *
99740862 TACTGAATAATTAATTGC
1 TACTGAATAATTGACTGT
* *
99740880 TACTGAATGATTGAATGT
1 TACTGAATAATTGACTGT
99740898 TACTGAATAATTGA
1 TACTGAATAATTGA
99740912 ATATTTATTA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 76 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (18 bp):
TACTGAATAATTGACTGT
Found at i:99742979 original size:20 final size:21
Alignment explanation
Indices: 99742954--99742992 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
99742944 AGTTAGTGCA
99742954 CTAACTAATT-TTAGTTGTAC
1 CTAACTAATTGTTAGTTGTAC
*
99742974 CTAACTGATTGTTAGTTGT
1 CTAACTAATTGTTAGTTGT
99742993 GATTAGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (21 bp):
CTAACTAATTGTTAGTTGTAC
Found at i:99748472 original size:24 final size:24
Alignment explanation
Indices: 99748409--99748460 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
99748399 TTTCTAGAAG
* * *
99748409 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
99748433 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
99748457 ATTT
1 ATTT
99748461 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:99749161 original size:23 final size:24
Alignment explanation
Indices: 99749135--99749183 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
99749125 GTTGAACAAG
99749135 TTTAATAAATTTTTAATT-TTTAT
1 TTTAATAAATTTTTAATTATTTAT
99749158 TTTAATAAATTTTTAATTATTTAT
1 TTTAATAAATTTTTAATTATTTAT
99749182 TT
1 TT
99749184 AATTATTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTAATAAATTTTTAATTATTTAT
Found at i:99752527 original size:5 final size:5
Alignment explanation
Indices: 99752517--99752614 Score: 51
Period size: 5 Copynumber: 18.4 Consensus size: 5
99752507 TAAGTCTGAA
*
99752517 AAAAT AAAAT AAAAAC AAAAT GAATAAT AGAAA- AAAAT AAAAAT AAAAT
1 AAAAT AAAAT -AAAAT AAAAT -AA-AAT A-AAAT AAAAT -AAAAT AAAAT
* *
99752566 -AAAT AAAACAT AAAACT -AAAT AAAAT CTAAAT -AATT CAAAAT AAAAT
1 AAAAT -AAA-AT AAAA-T AAAAT AAAAT -AAAAT AAAAT -AAAAT AAAAT
99752613 AA
1 AA
99752615 CACAAAATCT
Statistics
Matches: 74, Mismatches: 5, Indels: 28
0.69 0.05 0.26
Matches are distributed among these distances:
4 11 0.15
5 30 0.41
6 27 0.36
7 6 0.08
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Done.