Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 39 of 186
Found at i:11579871 original size:141 final size:141
Alignment explanation
Indices: 11579617--11579875 Score: 473
Period size: 141 Copynumber: 1.8 Consensus size: 141
11579607 TCAATTAAGA
* * * *
11579617 GAAGAGGAGGATGAGCATGAGGGATTCATTGATGAGGTTTCTGCTATAAGGCAAGCAACTCGAGA
1 GAAGAGGAGGATGAACACGAGGAATTCATTGATGAGGTTTCTGCTATAAGACAAGCAACTCGAGA
11579682 AAGTATCCAATCACAACACGAGTGGCATAGAAGGGAAGAATTCAGACGAAGTATATCTCAATTAA
66 AAGTATCCAATCACAACACGAGTGGCATAGAAGGGAAGAATTCAGACGAAGTATATCTCAATTAA
11579747 GAGAAGAGGAG
131 GAGAAGAGGAG
*
11579758 GAAGAGGAGGATGAACACGAGGAATTCATTGATGAGTTTTCTGCTATAAGACAAGCAACTCGAGA
1 GAAGAGGAGGATGAACACGAGGAATTCATTGATGAGGTTTCTGCTATAAGACAAGCAACTCGAGA
11579823 AAGTATCCAATCACAACACGAGTGGCATAGAAGGGAAGAATTCAGACGAAGTA
66 AAGTATCCAATCACAACACGAGTGGCATAGAAGGGAAGAATTCAGACGAAGTA
11579876 CTGGTGGTTG
Statistics
Matches: 113, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
141 113 1.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (141 bp):
GAAGAGGAGGATGAACACGAGGAATTCATTGATGAGGTTTCTGCTATAAGACAAGCAACTCGAGA
AAGTATCCAATCACAACACGAGTGGCATAGAAGGGAAGAATTCAGACGAAGTATATCTCAATTAA
GAGAAGAGGAG
Found at i:11582441 original size:46 final size:46
Alignment explanation
Indices: 11582389--11582561 Score: 231
Period size: 46 Copynumber: 3.8 Consensus size: 46
11582379 GAGAAGGAAN
* *
11582389 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
* * *
11582435 GTAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
* *
11582481 ATAAGACCATGGTTGAAAGATACCATGGCAAGATGATA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATGA
* * * *
11582527 GTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
11582562 TCAAAGATAA
Statistics
Matches: 111, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
45 1 0.01
46 110 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA
Found at i:11582863 original size:16 final size:17
Alignment explanation
Indices: 11582842--11582874 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11582832 ATGATGGAGC
11582842 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
11582858 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
11582875 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:11586409 original size:6 final size:6
Alignment explanation
Indices: 11586398--11586425 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11586388 GTGACTTTTT
11586398 TTATAA TTATAA TTATAA TTATAA TTAT
1 TTATAA TTATAA TTATAA TTATAA TTAT
11586426 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTATAA
Found at i:11586788 original size:34 final size:34
Alignment explanation
Indices: 11586750--11586819 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
11586740 TGGAGGGGTT
11586750 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
1 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
11586784 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
1 TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
11586818 TG
1 TG
11586820 CAAGCATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.23, C:0.06, G:0.36, T:0.36
Consensus pattern (34 bp):
TGAATGGAGTTTAGGGAAACTTTGAGGGTTGTTC
Found at i:11591421 original size:25 final size:26
Alignment explanation
Indices: 11591393--11591446 Score: 76
Period size: 25 Copynumber: 2.1 Consensus size: 26
11591383 CAATTAGTAT
*
11591393 AAAATATT-AATAATTCAATA-AATTG
1 AAAA-ATTAAATAATTAAATAGAATTG
11591418 AAAAATTAAATAATTAAATAGAATTG
1 AAAAATTAAATAATTAAATAGAATTG
11591444 AAA
1 AAA
11591447 TTTAGGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 3 0.12
25 15 0.58
26 8 0.31
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (26 bp):
AAAAATTAAATAATTAAATAGAATTG
Found at i:11592154 original size:16 final size:15
Alignment explanation
Indices: 11592129--11592162 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
11592119 AAAGTTGATA
*
11592129 ATAATTAATATACATT
1 ATAATAAATATA-ATT
11592145 ATAATAAATATAATT
1 ATAATAAATATAATT
11592160 ATA
1 ATA
11592163 TATTAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:11611505 original size:83 final size:83
Alignment explanation
Indices: 11611366--11611532 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
11611356 GATTCAGTTC
11611366 CTCTTAAAAAAGGTTTAGCATAATCATACATAGTGTGTGGAGCAGGATTTTGATTAATCGCAATT
1 CTCTTAAAAAAGGTTTAGCATAATCATACATAGTGTGTGGAGCAGGATTTTGATTAATCGCAATT
11611431 GCAGGAGGTAGCTGATTG
66 GCAGGAGGTAGCTGATTG
11611449 CTCTTAAAAAAGGTTTAGCATAATCATACATAGTGTGTGGAGCAGGATTTTGATTAATCGCAATT
1 CTCTTAAAAAAGGTTTAGCATAATCATACATAGTGTGTGGAGCAGGATTTTGATTAATCGCAATT
11611514 GCAGGAGGTAGCTGATTG
66 GCAGGAGGTAGCTGATTG
11611532 C
1 C
11611533 CTTGGTTTTC
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (83 bp):
CTCTTAAAAAAGGTTTAGCATAATCATACATAGTGTGTGGAGCAGGATTTTGATTAATCGCAATT
GCAGGAGGTAGCTGATTG
Found at i:11615213 original size:17 final size:17
Alignment explanation
Indices: 11615193--11615225 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11615183 ATTAAGAATG
11615193 TTATTAAATTATATTTT
1 TTATTAAATTATATTTT
11615210 TTATTAAATTATATTT
1 TTATTAAATTATATTT
11615226 AATACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTAAATTATATTTT
Found at i:11615276 original size:58 final size:54
Alignment explanation
Indices: 11615170--11615300 Score: 140
Period size: 58 Copynumber: 2.3 Consensus size: 54
11615160 TTAATTCATA
* *
11615170 TAATAATAATTATATTAAGAATGTTATTAAATTATATTTTTTATTAAATTATATT
1 TAATAATAATTATATTAAGAATATGATTAAATTATATTTTTTATTAAATTAT-TT
* *
11615225 TAATACTAATTATGTTAA-AATATGATTAAATTATTTATTATTTTTATTAAATTATTT
1 TAATAATAATTATATTAAGAATATGATTAAATTA--TA-T-TTTTTATTAAATTATTT
*
11615282 TCAATAGTAATCT-TATTAA
1 T-AATAATAAT-TATATTAA
11615301 AATTTAATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
54 13 0.20
55 16 0.25
56 2 0.03
57 4 0.06
58 28 0.44
59 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (54 bp):
TAATAATAATTATATTAAGAATATGATTAAATTATATTTTTTATTAAATTATTT
Found at i:11617604 original size:21 final size:21
Alignment explanation
Indices: 11617578--11617631 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
11617568 ACAGCAGTGA
*
11617578 CGGTGAGATTAGTTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
*
11617599 CGGTGAGATTGGGTACTGTAG
1 CGGTGAGATTAGGTACTGTAG
11617620 CGGTGAGATTAG
1 CGGTGAGATTAG
11617632 AAACAATGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.39, T:0.30
Consensus pattern (21 bp):
CGGTGAGATTAGGTACTGTAG
Found at i:11621442 original size:15 final size:15
Alignment explanation
Indices: 11621422--11621457 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11621412 TCTTCTTTTT
* *
11621422 TTCTTCATCCTCTTC
1 TTCTTCATCATCGTC
11621437 TTCTTCATCATCGTC
1 TTCTTCATCATCGTC
11621452 TTCTTC
1 TTCTTC
11621458 TTCTCCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.08, C:0.36, G:0.03, T:0.53
Consensus pattern (15 bp):
TTCTTCATCATCGTC
Found at i:11621453 original size:18 final size:18
Alignment explanation
Indices: 11621426--11621460 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
11621416 CTTTTTTTCT
11621426 TCATCCTCTTCTTCTTCA
1 TCATCCTCTTCTTCTTCA
*
11621444 TCATCGTCTTCTTCTTC
1 TCATCCTCTTCTTCTTC
11621461 TCCTTCTGGT
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:0.37, G:0.03, T:0.51
Consensus pattern (18 bp):
TCATCCTCTTCTTCTTCA
Found at i:11624841 original size:22 final size:21
Alignment explanation
Indices: 11624823--11624860 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11624813 TGTTTTCATA
11624823 ATATTTT-TA-AATTTATTTC
1 ATATTTTGTATAATTTATTTC
11624842 ATATTTTGTATAATTTATT
1 ATATTTTGTATAATTTATT
11624861 ATATTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.41
20 2 0.12
21 8 0.47
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (21 bp):
ATATTTTGTATAATTTATTTC
Found at i:11631897 original size:3 final size:3
Alignment explanation
Indices: 11631885--11632174 Score: 218
Period size: 3 Copynumber: 96.3 Consensus size: 3
11631875 GTTATTTTTC
* * *
11631885 TAT T-T TAT TAT TAA AAT TAAT TAAT TTAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT T-AT T-AT TAT TAT TAT TAT TAT TAT
* * * * * * *
11631932 TTT TAC TAT TAC TAT TAT TTT CTAT TAT TAC TGT TAT TGT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
11631977 TAT TAT T-T ATAT TAT TGT TGT TAT TAT TAT TAT TCTT TAT T-T TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT
* * * *
11632022 TAT TAT TAT TTT CTAT TAT TAT TAT TAC TAT TGT TAT TAT TGT CT-T
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
11632068 TAC TAT TAT TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
11632115 TAT T-T CTAT TAC TAT TAT CAT TAT CAT TAT TAT TAC TAT TAT T-T
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
11632159 TTT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
11632175 TCCTGTTTTT
Statistics
Matches: 226, Mismatches: 46, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
2 13 0.06
3 194 0.86
4 19 0.08
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11633520 original size:20 final size:21
Alignment explanation
Indices: 11633495--11633536 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
11633485 CGAACAGAAC
*
11633495 AGGGAAAGAAAGAAA-GAAAA
1 AGGGAAAGAAAAAAAGGAAAA
11633515 AGGGAAAGAAAAAAAGGAAAA
1 AGGGAAAGAAAAAAAGGAAAA
11633536 A
1 A
11633537 TAGGGTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AGGGAAAGAAAAAAAGGAAAA
Found at i:11638790 original size:20 final size:20
Alignment explanation
Indices: 11638747--11638790 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
11638737 TTAATAATTT
11638747 TTTTAATATTTAAAATATAA
1 TTTTAATATTTAAAATATAA
*
11638767 -TTTATATATTTAAATTA-AA
1 TTTTA-ATATTTAAAATATAA
11638786 TTTTA
1 TTTTA
11638791 CAAACAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTAATATTTAAAATATAA
Found at i:11639241 original size:18 final size:18
Alignment explanation
Indices: 11639218--11639273 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
11639208 AAAAAAGAGA
11639218 AATTGAAATTGTCCTAGT
1 AATTGAAATTGTCCTAGT
** *
11639236 AATTG--A--GTAATGGT
1 AATTGAAATTGTCCTAGT
11639250 AATTGAAATTGTCCTAGT
1 AATTGAAATTGTCCTAGT
11639268 AATTGA
1 AATTGA
11639274 GTAATGGTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 10 0.36
16 2 0.07
18 16 0.57
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (18 bp):
AATTGAAATTGTCCTAGT
Found at i:11639259 original size:32 final size:32
Alignment explanation
Indices: 11639218--11639281 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
11639208 AAAAAAGAGA
11639218 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
1 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
11639250 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
1 AATTGAAATTGTCCTAGTAATTGAGTAATGGT
11639282 GTATTTAGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (32 bp):
AATTGAAATTGTCCTAGTAATTGAGTAATGGT
Found at i:11645804 original size:31 final size:31
Alignment explanation
Indices: 11645767--11645882 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
11645757 TGTGTACAAT
11645767 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
*
11645798 GTGAAAAGTGGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
11645829 GTGAAAAGTGGTAGCTCCAGCTACCTGATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
* *
11645860 GTGAATAGTGATAGCTTCGGCTA
1 GTGAAAAGTGGTAGCTTCGGCTA
11645883 TCGAATGTGA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGATCA
Found at i:11645902 original size:29 final size:31
Alignment explanation
Indices: 11645767--11645896 Score: 160
Period size: 31 Copynumber: 4.3 Consensus size: 31
11645757 TGTGTACAAT
11645767 GTGAAAAGTGGTAGCTTCGGCTACCTG-ATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGAAT-A
*
11645798 GTGAAAAGTGGTAGCTTCGGCTACCTGATTA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGAATA
* *
11645829 GTGAAAAGTGGTAGCTCCAGCTACCTG-ATCA
1 GTGAAAAGTGGTAGCTTCGGCTACCTGAAT-A
* * *
11645860 GTGAATAGTGATAGCTTCGGCTATC-GAAT-
1 GTGAAAAGTGGTAGCTTCGGCTACCTGAATA
11645889 GTGAAAAG
1 GTGAAAAG
11645897 GGATAGTTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
29 7 0.08
30 2 0.02
31 76 0.88
32 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (31 bp):
GTGAAAAGTGGTAGCTTCGGCTACCTGAATA
Found at i:11645910 original size:29 final size:29
Alignment explanation
Indices: 11645860--11645955 Score: 120
Period size: 29 Copynumber: 3.3 Consensus size: 29
11645850 TACCTGATCA
* * *
11645860 GTGAATAGTGATAGCTTCGGCTATCGAAT
1 GTGAAAAGGGATAGCTTCGGCTATCAAAT
* *
11645889 GTGAAAAGGGATAGTTTTGGCTATCAAAT
1 GTGAAAAGGGATAGCTTCGGCTATCAAAT
*
11645918 GTAAAAAGGGATAGCTTCGGCTATCAAAT
1 GTGAAAAGGGATAGCTTCGGCTATCAAAT
* *
11645947 TTGGAAAGG
1 GTGAAAAGG
11645956 AAAGGTATAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (29 bp):
GTGAAAAGGGATAGCTTCGGCTATCAAAT
Found at i:11645982 original size:33 final size:33
Alignment explanation
Indices: 11645945--11646144 Score: 233
Period size: 33 Copynumber: 6.0 Consensus size: 33
11645935 CGGCTATCAA
* *
11645945 ATTTGGAAAGGAAAGGTATACTTTGTGTATACT
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* ** *
11645978 ATTTGAAAATGTTAGGTATACTCTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
*
11646011 ATTTGCAAAA-GAAATGTATACTTTGTGTATACC
1 ATTTG-AAAAGGAAAGGTATACTTTGTGTATACC
**
11646044 ATTTGAAAAGGTTAGGTATACTTTGTGTATACC
1 ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
* * *
11646077 ATATGAAAAAGGGAAGGTATACTTTGTGTATATC
1 ATTTG-AAAAGGAAAGGTATACTTTGTGTATACC
* *
11646111 ATATGAAAAGGAAA-GTGATACTTTGTGTGTACC
1 ATTTGAAAAGGAAAGGT-ATACTTTGTGTATACC
11646144 A
1 A
11646145 CTCGGAAAGA
Statistics
Matches: 143, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
32 6 0.04
33 103 0.72
34 34 0.24
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.35
Consensus pattern (33 bp):
ATTTGAAAAGGAAAGGTATACTTTGTGTATACC
Found at i:11649444 original size:17 final size:17
Alignment explanation
Indices: 11649422--11649456 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
11649412 CGAGATAAGA
11649422 TGACAACCCAAGCACCT
1 TGACAACCCAAGCACCT
11649439 TGACAACCCAAGCACCT
1 TGACAACCCAAGCACCT
11649456 T
1 T
11649457 ACCCCGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.40, G:0.11, T:0.14
Consensus pattern (17 bp):
TGACAACCCAAGCACCT
Found at i:11650367 original size:26 final size:26
Alignment explanation
Indices: 11650338--11650419 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
11650328 TGATACAAAT
11650338 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
11650364 TGATAATGAGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
11650390 TGATAATGGATTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
11650416 TGAT
1 TGAT
11650420 TGAAATTTCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:11656552 original size:5 final size:5
Alignment explanation
Indices: 11656544--11656581 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
11656534 TATAAAATCA
11656544 AAAAT AAAAT AAAAT AAAAAT AAAA- ATAAAT AAAAT AA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT A-AAAT AAAAT AA
11656582 GATTTTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
4 1 0.03
5 23 0.77
6 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11656552 original size:6 final size:6
Alignment explanation
Indices: 11656532--11656573 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
11656522 AAACTAATTT
11656532 AATATAA AATCAAA AAT-AA AAT-AA AATAAA AATAAA AATAAA
1 AATA-AA AAT-AAA AATAAA AATAAA AATAAA AATAAA AATAAA
11656574 TAAAATAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.30
6 14 0.42
7 8 0.24
8 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:11656557 original size:17 final size:17
Alignment explanation
Indices: 11656535--11656578 Score: 65
Period size: 16 Copynumber: 2.6 Consensus size: 17
11656525 CTAATTTAAT
11656535 ATAAAATCAAAAAT-AAA
1 ATAAAAT-AAAAATAAAA
11656552 ATAAAATAAAAATAAAA
1 ATAAAATAAAAATAAAA
11656569 AT-AAATAAAA
1 ATAAAATAAAA
11656579 TAAGATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.54
17 12 0.46
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (17 bp):
ATAAAATAAAAATAAAA
Found at i:11657285 original size:48 final size:48
Alignment explanation
Indices: 11657229--11657346 Score: 209
Period size: 48 Copynumber: 2.5 Consensus size: 48
11657219 AAAAACATAC
11657229 TTTATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTAT
1 TTTATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTAT
11657277 TTTATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTAT
1 TTTATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTAT
* **
11657325 TATATTCTATTTATTTTTAAAA
1 TTTATTCTATTTGCTTTTAAAA
11657347 TACTTTTAAA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.37, C:0.13, G:0.03, T:0.47
Consensus pattern (48 bp):
TTTATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTAT
Found at i:11657363 original size:48 final size:48
Alignment explanation
Indices: 11657231--11657364 Score: 162
Period size: 48 Copynumber: 2.8 Consensus size: 48
11657221 AAACATACTT
* * * *
11657231 TATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTATTT
1 TATTCTATTTACTTTTAAAAAACTAATTAAACCAAAATCAATTTATTA
* * *
11657279 TATTCTATTTGCTTTTAAAAAACTAATTCAGCCAAAATCAATTTATTA
1 TATTCTATTTACTTTTAAAAAACTAATTAAACCAAAATCAATTTATTA
* * *
11657327 TATTCTATTTATTTTTAAAATACT-TTTAAACTCAAAAT
1 TATTCTATTTACTTTTAAAAAACTAATTAAAC-CAAAAT
11657365 ACATATTTTT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
47 4 0.05
48 74 0.95
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (48 bp):
TATTCTATTTACTTTTAAAAAACTAATTAAACCAAAATCAATTTATTA
Found at i:11658569 original size:31 final size:31
Alignment explanation
Indices: 11658526--11658617 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
11658516 AATAAAGAAG
* *
11658526 ATAAAAGAGATAGCTAACAG-TAATTCAAAAC
1 ATAATAGAGATAGCTAA-AGCCAATTCAAAAC
*
11658557 ATAATAGAGATAGCT-AAGCCAATTCAAAAT
1 ATAATAGAGATAGCTAAAGCCAATTCAAAAC
* *
11658587 ACTAATAGAGATGGCT-AAGTCCAGTTCAAAA
1 A-TAATAGAGATAGCTAAAG-CCAATTCAAAA
11658618 TACCTAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 2 0.04
30 11 0.21
31 30 0.57
32 10 0.19
ACGTcount: A:0.49, C:0.14, G:0.15, T:0.22
Consensus pattern (31 bp):
ATAATAGAGATAGCTAAAGCCAATTCAAAAC
Found at i:11658620 original size:32 final size:31
Alignment explanation
Indices: 11658547--11658626 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 31
11658537 AGCTAACAGT
*
11658547 AATTCAAAACA-TAATAGAGATAGCTAAGCC
1 AATTCAAAATACTAATAGAGATAGCTAAGCC
*
11658577 AATTCAAAATACTAATAGAGATGGCTAAGTCC
1 AATTCAAAATACTAATAGAGATAGCTAAG-CC
*
11658609 AGTTCAAAATACCTAATA
1 AATTCAAAATA-CTAATA
11658627 AAATAACAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
30 10 0.23
31 16 0.36
32 12 0.27
33 6 0.14
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (31 bp):
AATTCAAAATACTAATAGAGATAGCTAAGCC
Found at i:11665868 original size:23 final size:23
Alignment explanation
Indices: 11665842--11665888 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11665832 TGATTATGTG
11665842 AATTATTTTACAAA-TTCTTAATT
1 AATTATTTTA-AAATTTCTTAATT
*
11665865 AATTTTTTTAAAATTTCTTAATT
1 AATTATTTTAAAATTTCTTAATT
11665888 A
1 A
11665889 TGAGGAGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.55
Consensus pattern (23 bp):
AATTATTTTAAAATTTCTTAATT
Found at i:11666462 original size:22 final size:21
Alignment explanation
Indices: 11666410--11666464 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
11666400 AAAGGAGTAG
* *
11666410 TAAATTTTTTTATTTTTTTTA
1 TAAATTTTTTTATATTTCTTA
* *
11666431 TAACTATTTTCTATATTTCTTA
1 TAAAT-TTTTTTATATTTCTTA
11666453 TAAATTTTTTTA
1 TAAATTTTTTTA
11666465 CAATTTTCTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
TAAATTTTTTTATATTTCTTA
Found at i:11666533 original size:11 final size:11
Alignment explanation
Indices: 11666519--11666617 Score: 50
Period size: 10 Copynumber: 9.5 Consensus size: 11
11666509 TTTTTTTTTC
*
11666519 TATTTTTATAA
1 TATTTTAATAA
11666530 TATTTTAATAA
1 TATTTTAATAA
*
11666541 -ATTTTAATCA
1 TATTTTAATAA
*
11666551 T-TTCTAATAA
1 TATTTTAATAA
* *
11666561 CT-TTTCAATCA
1 -TATTTTAATAA
11666572 T-TTTTAA-AA
1 TATTTTAATAA
*
11666581 T-TATTCAATAA
1 TAT-TTTAATAA
*
11666592 T-TGTTAATAA
1 TATTTTAATAA
* *
11666602 CATTTAAATAA
1 TATTTTAATAA
11666613 TATTT
1 TATTT
11666618 AATGTTTTTA
Statistics
Matches: 67, Mismatches: 16, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
9 3 0.04
10 32 0.48
11 32 0.48
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.52
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:11666572 original size:21 final size:19
Alignment explanation
Indices: 11666527--11666620 Score: 66
Period size: 21 Copynumber: 4.7 Consensus size: 19
11666517 TCTATTTTTA
11666527 TAAT-ATTTTAATAAATTT
1 TAATCATTTTAATAAATTT
*
11666545 TAATCATTTCTAATAACTTT
1 TAATCATTT-TAATAAATTT
*
11666565 TCAATCATTTTTA-AAATTAT
1 T-AATCATTTTAATAAATT-T
*
11666585 TCAATAATTGTTAATAACATTT
1 T-AATCATT-TTAATAA-ATTT
* *
11666607 AAATAATATTTAAT
1 TAATCAT-TTTAAT
11666621 GTTTTTATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.06
19 8 0.13
20 21 0.34
21 22 0.35
22 4 0.06
23 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.01, T:0.49
Consensus pattern (19 bp):
TAATCATTTTAATAAATTT
Found at i:11668785 original size:11 final size:11
Alignment explanation
Indices: 11668769--11668796 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
11668759 GTTTAGTGTC
11668769 ATTTAGGATCA
1 ATTTAGGATCA
11668780 ATTTAGGATCA
1 ATTTAGGATCA
11668791 ATTTAG
1 ATTTAG
11668797 TATTATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (11 bp):
ATTTAGGATCA
Found at i:11669741 original size:3 final size:3
Alignment explanation
Indices: 11669733--11669757 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11669723 CCCTTTACTT
11669733 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
11669758 CACATGTCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11673441 original size:19 final size:19
Alignment explanation
Indices: 11673395--11673442 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
11673385 GTATATATTT
11673395 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
11673413 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
11673432 TAAGTTTTATT
1 TAAATTTTATT
11673443 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:11677234 original size:19 final size:18
Alignment explanation
Indices: 11677205--11677254 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
11677195 GTATATATTT
*
11677205 TAAATTTATTTAGGTAGG
1 TAAATTTATTTAGGTAGA
11677223 TAAATCTTATTTAGGTAGA
1 TAAAT-TTATTTAGGTAGA
*
11677242 TAAGTTTTATTTA
1 TAA-ATTTATTTA
11677255 TATTCTAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 5 0.18
19 22 0.79
20 1 0.04
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (18 bp):
TAAATTTATTTAGGTAGA
Found at i:11682198 original size:23 final size:22
Alignment explanation
Indices: 11682163--11682205 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
11682153 ATTTAACCCC
* *
11682163 TTAAAAATGATAAAATTATAAA
1 TTAAAAATAATAAAACTATAAA
11682185 TTAATAAATAATAAAACTATA
1 TTAA-AAATAATAAAACTATA
11682206 TTTTGACTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (22 bp):
TTAAAAATAATAAAACTATAAA
Found at i:11689422 original size:21 final size:20
Alignment explanation
Indices: 11689398--11689439 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
11689388 TACGATGTTG
11689398 AAAGACAGTAAA-TGATATGTA
1 AAAGACA-TAAATTGA-ATGTA
*
11689419 AAAGATATAAATTGAATGTA
1 AAAGACATAAATTGAATGTA
11689439 A
1 A
11689440 GAGATGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.55, C:0.02, G:0.17, T:0.26
Consensus pattern (20 bp):
AAAGACATAAATTGAATGTA
Found at i:11690070 original size:20 final size:20
Alignment explanation
Indices: 11690045--11690085 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
11690035 GCCCCATGGC
11690045 CATGTCCCAAGCCACACGGG
1 CATGTCCCAAGCCACACGGG
*
11690065 CATGTCCCAGGCCACACGGG
1 CATGTCCCAAGCCACACGGG
11690085 C
1 C
11690086 GTGTGCCCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.22, C:0.41, G:0.27, T:0.10
Consensus pattern (20 bp):
CATGTCCCAAGCCACACGGG
Found at i:11694583 original size:22 final size:22
Alignment explanation
Indices: 11694555--11694607 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
11694545 TAATACCAAA
11694555 CCCCATACCCCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
11694577 CCCCATACCTCCACTACAACAG
1 CCCCATACCCCCACTACAACAG
*
11694599 TCCCATACC
1 CCCCATACC
11694608 GTCTGACACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.53, G:0.04, T:0.13
Consensus pattern (22 bp):
CCCCATACCCCCACTACAACAG
Found at i:11694917 original size:20 final size:19
Alignment explanation
Indices: 11694882--11694936 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
11694872 TTCTTGGTTC
11694882 TTTTTTTATTTTTATTTAG
1 TTTTTTTATTTTTATTTAG
* **
11694901 TTTTTTTCTTTTGTATTTTC
1 TTTTTTTATTTT-TATTTAG
*
11694921 TTTTATT-TTTTTATTT
1 TTTTTTTATTTTTATTT
11694937 CTCTTCGCGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 5 0.16
19 15 0.48
20 11 0.35
ACGTcount: A:0.11, C:0.04, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTTTTTATTTTTATTTAG
Found at i:11694917 original size:26 final size:25
Alignment explanation
Indices: 11694883--11694932 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
11694873 TCTTGGTTCT
*
11694883 TTTTTTATTTT-TATTTAGTTTTTTTC
1 TTTTGTATTTTCT-TTTA-TTTTTTTC
11694909 TTTTGTATTTTCTTTTATTTTTTT
1 TTTTGTATTTTCTTTTATTTTTTT
11694933 ATTTCTCTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 7 0.32
26 14 0.64
27 1 0.05
ACGTcount: A:0.10, C:0.04, G:0.04, T:0.82
Consensus pattern (25 bp):
TTTTGTATTTTCTTTTATTTTTTTC
Found at i:11695869 original size:3 final size:3
Alignment explanation
Indices: 11695847--11695997 Score: 239
Period size: 3 Copynumber: 49.3 Consensus size: 3
11695837 TTTTTATTTA
* * * *
11695847 TAT TAT TGT TAG TAT CAT TAT TAT TAT TAT TAT CTCCAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT
11695895 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11695943 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11695991 TAT TAT T
1 TAT TAT T
11695998 NNNNNNNNNN
Statistics
Matches: 137, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
3 133 0.97
4 1 0.01
5 1 0.01
6 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:11708228 original size:24 final size:24
Alignment explanation
Indices: 11708216--11708307 Score: 148
Period size: 24 Copynumber: 3.8 Consensus size: 24
11708206 TTGACATTCC
11708216 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
11708240 AATCCGCACACATAGTGCCATACA
1 AATCCGCACACATAGTGCCATACA
* * *
11708264 AATTCACACACATAGTGCCATTCA
1 AATCCGCACACATAGTGCCATACA
*
11708288 AATTCGCACACATAGTGCCA
1 AATCCGCACACATAGTGCCA
11708308 AAATCATTTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.20
Consensus pattern (24 bp):
AATCCGCACACATAGTGCCATACA
Found at i:11708253 original size:48 final size:48
Alignment explanation
Indices: 11708171--11708304 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
11708161 CCATGTTAAC
* ** * * * * *
11708171 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
* *
11708219 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGCCATACAAAT
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
* * *
11708267 TCACACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CCGCACACATAGTGCCATACAAATTCGCACACATAGTG
11708305 CCAAAATCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.35, C:0.30, G:0.12, T:0.23
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATTCGCACACATAGTGACATACAAAT
Found at i:11708271 original size:72 final size:72
Alignment explanation
Indices: 11708171--11708307 Score: 202
Period size: 72 Copynumber: 1.9 Consensus size: 72
11708161 CCATGTTAAC
* ** * * *
11708171 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCCAATCCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
11708236 TACAAAT
66 TACAAAT
* *
11708243 CCGCACACATAGTGCCATACAAATTCACACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
11708308 AAATCATTTC
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.35, C:0.31, G:0.12, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCATACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:11709503 original size:17 final size:17
Alignment explanation
Indices: 11709481--11709514 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11709471 CCCCACTTAA
*
11709481 TATATTATAACTTATTT
1 TATATTATAACATATTT
11709498 TATATTATAACATATTT
1 TATATTATAACATATTT
11709515 CAATTATATA
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:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATTATAACATATTT
Found at i:11710661 original size:18 final size:19
Alignment explanation
Indices: 11710630--11710671 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
11710620 GGCGCGACCC
11710630 ATTTTTTAATAATAATATAT
1 ATTTTTTAATAATAATAT-T
*
11710650 ATTTTTT-A-AATATTATT
1 ATTTTTTAATAATAATATT
11710667 ATTTT
1 ATTTT
11710672 ATTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 7 0.33
19 1 0.05
20 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTTTTTAATAATAATATT
Found at i:11710905 original size:25 final size:25
Alignment explanation
Indices: 11710864--11710925 Score: 74
Period size: 25 Copynumber: 2.4 Consensus size: 25
11710854 AGAAAAAATT
*
11710864 TTTATTAAGTTTAATAA--TTATTTAA
1 TTTATT-ATTTTAATAATGTTA-TTAA
11710889 TATTATTATTTTAATAATGTTATTAA
1 T-TTATTATTTTAATAATGTTATTAA
11710915 TTTATTATTTT
1 TTTATTATTTT
11710926 TTATACTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 20 0.61
26 10 0.30
27 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTATTATTTTAATAATGTTATTAA
Found at i:11710965 original size:21 final size:21
Alignment explanation
Indices: 11710932--11711069 Score: 88
Period size: 21 Copynumber: 6.4 Consensus size: 21
11710922 TTTTTTATAC
11710932 TTAAATT-T-TTTAATAATTT
1 TTAAATTATGTTTAATAATTT
*
11710951 TGAAATTATGTTTAATAATTTT
1 TTAAATTATGTTTAATAA-TTT
*
11710973 TTAATATTATTAATTTAATAATGTT
1 TTAA-ATTA-T-GTTTAATAAT-TT
* * * **
11710998 ATTAATTTATTGTTT-TTTATGC
1 -TTAAATTA-TGTTTAATAATTT
11711020 TTAAATT-T-TTTAATAATTT
1 TTAAATTATGTTTAATAATTT
* *
11711039 TGAAATTAAGTTTAATAATTT
1 TTAAATTATGTTTAATAATTT
11711060 TTAATATTAT
1 TTAA-ATTAT
11711070 TATTTTAATA
Statistics
Matches: 89, Mismatches: 18, Indels: 21
0.70 0.14 0.16
Matches are distributed among these distances:
18 3 0.03
19 16 0.18
20 1 0.01
21 28 0.31
22 10 0.11
23 7 0.08
24 5 0.06
25 15 0.17
26 4 0.04
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (21 bp):
TTAAATTATGTTTAATAATTT
Found at i:11710988 original size:17 final size:17
Alignment explanation
Indices: 11710974--11711006 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11710964 AATAATTTTT
11710974 TAATATTATTAATTTAA
1 TAATATTATTAATTTAA
*
11710991 TAATGTTATTAATTTA
1 TAATATTATTAATTTA
11711007 TTGTTTTTTA
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:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (17 bp):
TAATATTATTAATTTAA
Found at i:11710994 original size:25 final size:25
Alignment explanation
Indices: 11710961--11711008 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11710951 TGAAATTATG
*
11710961 TTTAATAAT-TTTTTAATATTATTAA
1 TTTAATAATGTTATTAAT-TTATTAA
11710986 TTTAATAATGTTATTAATTTATT
1 TTTAATAATGTTATTAATTTATT
11711009 GTTTTTTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (25 bp):
TTTAATAATGTTATTAATTTATTAA
Found at i:11711079 original size:87 final size:88
Alignment explanation
Indices: 11710867--11711168 Score: 457
Period size: 88 Copynumber: 3.4 Consensus size: 88
11710857 AAAAATTTTT
* * *
11710867 ATTAAGTTTAATAATTATTTAATATTATTATTTTAATAATGTTATTAATTTATTATTTTTTATAC
1 ATTAAGTTTAATAATTTTTTAATATTATTAATTTAATAATGTTATTAATTTATTATTTTTTATGC
11710932 TTAAATTTTTTAATAATTTTGAA
66 TTAAATTTTTTAATAATTTTGAA
* *
11710955 ATTATGTTTAATAATTTTTTAATATTATTAATTTAATAATGTTATTAATTTATTGTTTTTTATGC
1 ATTAAGTTTAATAATTTTTTAATATTATTAATTTAATAATGTTATTAATTTATTATTTTTTATGC
11711020 TTAAATTTTTTAATAATTTTGAA
66 TTAAATTTTTTAATAATTTTGAA
*
11711043 ATTAAGTTTAATAA-TTTTTAATATTATTATTTTAATAAT-TCTGA-TAATTTATTATTTTTTAT
1 ATTAAGTTTAATAATTTTTTAATATTATTAATTTAATAATGT-T-ATTAATTTATTATTTTTTAT
* * * *
11711105 GCTCAGATTTTTTAATATTTTTAAA
64 GCTTAAATTTTTTAATAATTTTGAA
* *
11711130 ATTAAGTCTAATAATTTTTTAGTATTATTAATTTAATAA
1 ATTAAGTTTAATAATTTTTTAATATTATTAATTTAATAA
11711169 ATTTTTATTG
Statistics
Matches: 196, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 76 0.39
88 119 0.61
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (88 bp):
ATTAAGTTTAATAATTTTTTAATATTATTAATTTAATAATGTTATTAATTTATTATTTTTTATGC
TTAAATTTTTTAATAATTTTGAA
Found at i:11714492 original size:6 final size:6
Alignment explanation
Indices: 11714451--11714555 Score: 122
Period size: 6 Copynumber: 17.3 Consensus size: 6
11714441 TAACATTTTT
* * * * *
11714451 TTCTTC TTCCTCC TTCTCC TTCTCC TTCTCC TTCTTC TTCTTC TTTTTC
1 TTCTTC TT-CTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
* *
11714500 TTCTTC TTCTTC TTTTTC TTCTTC TTCTTC ATCTTC TTCTTC TTCTT-
1 TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC TTCTTC
11714547 TTCTCTC TT
1 TTCT-TC TT
11714556 TGCTGCTGCC
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
5 4 0.05
6 77 0.88
7 7 0.08
ACGTcount: A:0.01, C:0.35, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCTTC
Found at i:11714555 original size:9 final size:10
Alignment explanation
Indices: 11714476--11714556 Score: 55
Period size: 9 Copynumber: 8.1 Consensus size: 10
11714466 CTCCTTCTCC
11714476 TTCTCCTTCTT
1 TTCT-CTTCTT
*
11714487 CT-TCTTCTT
1 TTCTCTTCTT
11714496 TT-TCTTCTT
1 TTCTCTTCTT
*
11714505 CT-TCTTCTT
1 TTCTCTTCTT
11714514 TT-TCTTCTT
1 TTCTCTTCTT
*
11714523 CTTCTTCATCTT
1 -TTC-TCTTCTT
11714535 CTTCTTCTTCTT
1 -TTC-TCTTCTT
11714547 TTCTC-TCTT
1 TTCTCTTCTT
11714556 T
1 T
11714557 GCTGCTGCCT
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
9 35 0.57
10 5 0.08
11 4 0.07
12 17 0.28
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (10 bp):
TTCTCTTCTT
Found at i:11715028 original size:7 final size:7
Alignment explanation
Indices: 11715016--11715048 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
11715006 ATAAAGTAAG
11715016 TTATATA
1 TTATATA
11715023 TTATAT-
1 TTATATA
11715029 TTATAATA
1 TTAT-ATA
11715037 TTATATA
1 TTATATA
11715044 TTATA
1 TTATA
11715049 ATTTTTATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 4 0.17
7 16 0.67
8 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TTATATA
Found at i:11715395 original size:16 final size:16
Alignment explanation
Indices: 11715374--11715427 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
11715364 TGAATTGCTG
*
11715374 ATTACAAGTTTATTTC
1 ATTACAACTTTATTTC
*
11715390 ATTACATCTTTA-TTC
1 ATTACAACTTTATTTC
* *
11715405 AATTACAACTCTATTCC
1 -ATTACAACTTTATTTC
11715422 ATTACA
1 ATTACA
11715428 GTTAACCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
15 3 0.10
16 26 0.84
17 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.02, T:0.44
Consensus pattern (16 bp):
ATTACAACTTTATTTC
Found at i:11724577 original size:17 final size:18
Alignment explanation
Indices: 11724555--11724593 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
11724545 ACTATTTTTC
11724555 TATTAT-ATATAAAAAAT
1 TATTATAATATAAAAAAT
*
11724572 TATTATACATATAAAACAT
1 TATTATA-ATATAAAAAAT
11724591 TAT
1 TAT
11724594 CAAGTCTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
TATTATAATATAAAAAAT
Found at i:11724743 original size:11 final size:11
Alignment explanation
Indices: 11724727--11724751 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11724717 TCTTTCTCCA
11724727 TAGTTCTTCAT
1 TAGTTCTTCAT
11724738 TAGTTCTTCAT
1 TAGTTCTTCAT
11724749 TAG
1 TAG
11724752 AGAGCTCACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (11 bp):
TAGTTCTTCAT
Found at i:11728859 original size:22 final size:24
Alignment explanation
Indices: 11728809--11728860 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 24
11728799 TTGCAATGCT
11728809 TTTATATTTTAATAATTGAGTATTA
1 TTTATATTTTAAT-ATTGAGTATTA
11728834 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATAT-TTTAATATTGAGTATTA
11728855 TTTATA
1 TTTATA
11728861 AATAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
21 3 0.12
22 6 0.24
23 4 0.16
24 6 0.24
25 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.60
Consensus pattern (24 bp):
TTTATATTTTAATATTGAGTATTA
Found at i:11729072 original size:34 final size:35
Alignment explanation
Indices: 11729013--11729079 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11729003 CAAACACCAG
*
11729013 AAAATATTTTCCAGTCAATCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
11729048 AAAATATTTTCTAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
11729080 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11729450 original size:30 final size:30
Alignment explanation
Indices: 11729416--11729478 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
11729406 CCGATGATCG
11729416 AAATTATGAAGAAAAAGAAACAACGATTTC
1 AAATTATGAAGAAAAAGAAACAACGATTTC
11729446 AAATTATGAAGAAAAAGAAACAACGATTTC
1 AAATTATGAAGAAAAAGAAACAACGATTTC
11729476 AAA
1 AAA
11729479 ACAGATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.59, C:0.10, G:0.13, T:0.19
Consensus pattern (30 bp):
AAATTATGAAGAAAAAGAAACAACGATTTC
Found at i:11729491 original size:30 final size:30
Alignment explanation
Indices: 11729421--11729491 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
11729411 GATCGAAATT
* **
11729421 ATGAAGAAAAAGAAACAACGATTTCAAATT
1 ATGAAAAAAAAGAAACAACGATTTCAAAAC
*
11729451 ATGAAGAAAAAGAAACAACGATTTCAAAAC
1 ATGAAAAAAAAGAAACAACGATTTCAAAAC
11729481 A-GATAAAAAAA
1 ATGA-AAAAAAA
11729492 TCATGTTAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 2 0.05
30 35 0.95
ACGTcount: A:0.62, C:0.10, G:0.13, T:0.15
Consensus pattern (30 bp):
ATGAAAAAAAAGAAACAACGATTTCAAAAC
Found at i:11733109 original size:40 final size:40
Alignment explanation
Indices: 11733065--11733145 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
11733055 TTAAAGATTG
*
11733065 AAGTCAATAAGAAAAGGTAAGAACATCAAGATTTCAATAT
1 AAGTCAATAAGAAAAGGTAAGAACACCAAGATTTCAATAT
*
11733105 AAGTCAATAAGAAAAGGTAAGAACACCAAGGTTTCAATAT
1 AAGTCAATAAGAAAAGGTAAGAACACCAAGATTTCAATAT
11733145 A
1 A
11733146 TTTTTAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (40 bp):
AAGTCAATAAGAAAAGGTAAGAACACCAAGATTTCAATAT
Found at i:11739159 original size:30 final size:31
Alignment explanation
Indices: 11739115--11739172 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
11739105 TAAAAAAAAT
*
11739115 ATTTTAATTTTTTAAAAATAATAAAAATTTA
1 ATTTTAATTCTTTAAAAATAATAAAAATTTA
*
11739146 ATTTT-ATTCTTTAAAAATTATAAAAAT
1 ATTTTAATTCTTTAAAAATAATAAAAAT
11739173 ATAAACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTTAATTCTTTAAAAATAATAAAAATTTA
Found at i:11742222 original size:17 final size:18
Alignment explanation
Indices: 11742186--11742235 Score: 75
Period size: 17 Copynumber: 2.8 Consensus size: 18
11742176 TATACATGGT
*
11742186 TTTATTAAAAATTATTTA
1 TTTATTTAAAATTATTTA
*
11742204 TTTATTTTAAATT-TTTA
1 TTTATTTAAAATTATTTA
11742221 TTTATTTAAAATTAT
1 TTTATTTAAAATTAT
11742236 CAGCCTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTATTTAAAATTATTTA
Found at i:11745334 original size:26 final size:28
Alignment explanation
Indices: 11745297--11745348 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
11745287 GTGCAAAACA
11745297 ATAAAAATCTTAAATA-TTAAAAATATT
1 ATAAAAATCTTAAATATTTAAAAATATT
11745324 ATAAAAA-CTTAAATATTTAAAAATA
1 ATAAAAATCTTAAATATTTAAAAATA
11745349 ATAGAAAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (28 bp):
ATAAAAATCTTAAATATTTAAAAATATT
Found at i:11745356 original size:26 final size:25
Alignment explanation
Indices: 11745291--11745356 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 25
11745281 GAATGAGTGC
*
11745291 AAAACAATAAAAATCTTAAATATTA
1 AAAATAATAAAAATCTTAAATATTA
11745316 AAAATATTATAAAAA-CTTAAATATTTA
1 AAAATA--ATAAAAATCTTAAATA-TTA
11745343 AAAATAATAGAAAA
1 AAAATAATA-AAAA
11745357 GGAACATCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
25 8 0.22
26 12 0.33
27 16 0.44
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAATAATAAAAATCTTAAATATTA
Found at i:11745881 original size:14 final size:15
Alignment explanation
Indices: 11745857--11745890 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
11745847 AACTATCAGA
11745857 GTTTATAAAACAGTT
1 GTTTATAAAACAGTT
*
11745872 GTTT-TAAAACATTT
1 GTTTATAAAACAGTT
11745886 GTTTA
1 GTTTA
11745891 GTTTAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (15 bp):
GTTTATAAAACAGTT
Found at i:11761457 original size:55 final size:55
Alignment explanation
Indices: 11761383--11761490 Score: 207
Period size: 55 Copynumber: 2.0 Consensus size: 55
11761373 CATAACCGTT
*
11761383 CTATCCACAGATCAATGTCTTAAAATGCTAGAATTGGCAAGTTAACATAAACTAC
1 CTATCCACAGATCAATGTCTTAAAATGCTAGAATTGACAAGTTAACATAAACTAC
11761438 CTATCCACAGATCAATGTCTTAAAATGCTAGAATTGACAAGTTAACATAAACT
1 CTATCCACAGATCAATGTCTTAAAATGCTAGAATTGACAAGTTAACATAAACT
11761491 GCATACGAAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (55 bp):
CTATCCACAGATCAATGTCTTAAAATGCTAGAATTGACAAGTTAACATAAACTAC
Found at i:11764931 original size:26 final size:26
Alignment explanation
Indices: 11764869--11764931 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 26
11764859 TTATCATTTT
11764869 AACTTTACCTTTACCTTTTATTTTGCTC
1 AACTTT-CC-TTACCTTTTATTTTGCTC
* *
11764897 -AGTTGTCCTTATCTTTTATTTTGCTC
1 AACTT-TCCTTACCTTTTATTTTGCTC
11764923 AACTTTCCT
1 AACTTTCCT
11764932 GCCTTTCTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
26 21 0.70
27 8 0.27
28 1 0.03
ACGTcount: A:0.16, C:0.24, G:0.06, T:0.54
Consensus pattern (26 bp):
AACTTTCCTTACCTTTTATTTTGCTC
Found at i:11765139 original size:25 final size:25
Alignment explanation
Indices: 11765106--11765154 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11765096 GGCCAAAATC
*
11765106 GAAGCTCTCTTTCATTTCTCTCGTT
1 GAAGCTCTCTCTCATTTCTCTCGTT
11765131 GAAGCTCTCTCTCATTTCTCTCGT
1 GAAGCTCTCTCTCATTTCTCTCGT
11765155 CTCTAGCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.31, G:0.12, T:0.45
Consensus pattern (25 bp):
GAAGCTCTCTCTCATTTCTCTCGTT
Found at i:11765386 original size:16 final size:16
Alignment explanation
Indices: 11765367--11765403 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11765357 TTCTTATTCT
*
11765367 GGTTTTTCTTCTATTG
1 GGTTTTTCTACTATTG
11765383 GGTTTTTCTACTATTG
1 GGTTTTTCTACTATTG
*
11765399 TGTTT
1 GGTTT
11765404 ATAGTTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.11, G:0.19, T:0.62
Consensus pattern (16 bp):
GGTTTTTCTACTATTG
Found at i:11768131 original size:35 final size:35
Alignment explanation
Indices: 11768069--11768199 Score: 106
Period size: 35 Copynumber: 3.6 Consensus size: 35
11768059 TTTCCTCATT
*
11768069 GAAATACCATACCTACATTTTACAACTCGGTATAG
1 GAAATACCATACCTACATTTTACAACTCAGTATAG
* *
11768104 GAAATGCCATACCTACATTTCT-TAACTCAGTATAG
1 GAAATACCATACCTACATTT-TACAACTCAGTATAG
*
11768139 ATTTGATAATACCATACCTACATTTCACAA-TGCAGTAT-G
1 ----GA-AATACCATACCTACATTTTACAACT-CAGTATAG
* *
11768178 GATGATACAAATACCTACATTT
1 GA-AATAC-CATACCTACATTT
11768200 CACACTTTGC
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
35 37 0.47
36 13 0.16
39 4 0.05
40 25 0.32
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTTACAACTCAGTATAG
Found at i:11768154 original size:40 final size:38
Alignment explanation
Indices: 11768067--11768176 Score: 115
Period size: 35 Copynumber: 2.9 Consensus size: 38
11768057 GTTTTCCTCA
*
11768067 TTGAAATACCATACCTACATTT-TACAACTCGGTATAG
1 TTGAAATACCATACCTACATTTCTACAACTCAGTATAG
* *
11768104 --GAAATGCCATACCTACATTTCT-TAACTCAGTATAG
1 TTGAAATACCATACCTACATTTCTACAACTCAGTATAG
11768139 ATTTGATAATACCATACCTACATTTC-ACAA-TGCAGTAT
1 --TTGA-AATACCATACCTACATTTCTACAACT-CAGTAT
11768177 GGATGATACA
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
35 30 0.50
36 1 0.02
39 3 0.05
40 26 0.43
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (38 bp):
TTGAAATACCATACCTACATTTCTACAACTCAGTATAG
Found at i:11770591 original size:3 final size:3
Alignment explanation
Indices: 11770577--11770632 Score: 60
Period size: 3 Copynumber: 18.7 Consensus size: 3
11770567 AAATATACAC
* * * *
11770577 TAA TAT TAA TAA TAA TAA TAG TAA TAA TAT TAA TAA TAT TAGA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
11770622 TAA TAA TAA TA
1 TAA TAA TAA TA
11770633 TTTAATAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
2 1 0.02
3 42 0.98
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:11770633 original size:18 final size:18
Alignment explanation
Indices: 11770583--11770640 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
11770573 ACACTAATAT
*
11770583 TAATAATAATAATAGTAA
1 TAATAATAATAATATTAA
*
11770601 TAATATTAATAATATTAGA
1 TAATAATAATAATATTA-A
11770620 -AATAATAATAATATTTAA
1 TAATAATAATAATA-TTAA
11770638 TAA
1 TAA
11770641 AGAAACAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 28 0.82
19 6 0.18
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAATAATAATAATATTAA
Found at i:11770644 original size:24 final size:24
Alignment explanation
Indices: 11770577--11770654 Score: 61
Period size: 27 Copynumber: 3.1 Consensus size: 24
11770567 AAATATACAC
*
11770577 TAATA-TTAATAATA-ATAATAGTAA
1 TAATATTTAATAA-AGA-AATAATAA
*
11770601 TAATATTAATAATATTAGAAATAATAA
1 TAATATT--TAATA-AAGAAATAATAA
* *
11770628 TAATATTTAATAAAGAAACAAAAA
1 TAATATTTAATAAAGAAATAATAA
11770652 TAA
1 TAA
11770655 ACAAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
24 17 0.39
25 6 0.14
27 20 0.45
28 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (24 bp):
TAATATTTAATAAAGAAATAATAA
Found at i:11771374 original size:13 final size:13
Alignment explanation
Indices: 11771356--11771383 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11771346 TTAGATCTTC
11771356 TGATTTGGTATTG
1 TGATTTGGTATTG
11771369 TGATTTGGTATTG
1 TGATTTGGTATTG
11771382 TG
1 TG
11771384 CTTCTGATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.32, T:0.54
Consensus pattern (13 bp):
TGATTTGGTATTG
Found at i:11771590 original size:13 final size:13
Alignment explanation
Indices: 11771572--11771606 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
11771562 TAGGGTATGG
11771572 CCGGTGGAGGTGA
1 CCGGTGGAGGTGA
11771585 CCGGTGGAGGTGA
1 CCGGTGGAGGTGA
11771598 CCGGTGGAG
1 CCGGTGGAG
11771607 CAGGTGGCGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.14, C:0.17, G:0.54, T:0.14
Consensus pattern (13 bp):
CCGGTGGAGGTGA
Found at i:11772584 original size:77 final size:76
Alignment explanation
Indices: 11772423--11772634 Score: 255
Period size: 77 Copynumber: 2.7 Consensus size: 76
11772413 AGAAACTAAA
* * * * *
11772423 AGGCTCAACTCACTTCTCGCAATATGAGTCAATTTTTTTGAAAAAAACATAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTG--AAAAATA-AAACTAAAAATACCT
*
11772488 CAGCATGTGTCCAG
63 CAGCATGTGACCAG
* *
11772502 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAATA-AAACTAAAAATACCTCA
** *
11772567 GTGTGTGACCCG
65 GCATGTGACCAG
* *
11772579 AGGCTCAACTCACCTCTCACAATATGAGTTAAATTTTTTTGAAACAT-AAACTAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTTTGAAAAATAAAACTAAAA
11772635 GGCTCAACTC
Statistics
Matches: 116, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
76 9 0.08
77 57 0.49
78 14 0.12
79 36 0.31
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTGAAAAATAAAACTAAAAATACCTCAG
CATGTGACCAG
Found at i:11772660 original size:132 final size:131
Alignment explanation
Indices: 11772502--11772749 Score: 370
Period size: 132 Copynumber: 1.9 Consensus size: 131
11772492 ATGTGTCCAG
* * *
11772502 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
**
11772567 GTGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTAAATTTTTTTGAAACATAAACTA
66 GCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTT-AATTTTTTTGAAACATAAACTA
11772632 AA
130 AA
* * * *
11772634 AGGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTTTGAAAAACATAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
* ** *
11772699 GCATGTGTCCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTT
66 GCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTTT
11772750 AAAAAAATAG
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
131 8 0.08
132 95 0.92
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (131 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCGATTTTTTTGAAAAACAGAAACTAAAAATACCTCA
GCATGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTAATTTTTTTGAAACATAAACTAA
A
Found at i:11773031 original size:77 final size:77
Alignment explanation
Indices: 11772634--11773077 Score: 599
Period size: 77 Copynumber: 5.8 Consensus size: 77
11772624 ATAAACTAAA
* * * * * *
11772634 AGGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTTTGAAAAACATAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
* *
11772699 GCATGTGTCCCG
66 GCGTGTGACCCG
* *
11772711 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTAAAAAAATAGAAACTAAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-GAAAAATAGAAACTAAAAATACCTC
11772776 AGCGTGTGACCCG
65 AGCGTGTGACCCG
* ** *
11772789 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTAAAAAAAAAAAGAAACTAAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT--TGAAAAATAGAAACTAAAAATACCT
*
11772854 TAGCGTGTGACCCG
64 CAGCGTGTGACCCG
* * *
11772868 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACAT--AAATTAAAAAAACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
* * * *
11772931 GTGCGTGATCTG
66 GCGTGTGACCCG
*
11772943 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGGAACTAAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
*
11773008 GCGTATGACCCG
66 GCGTGTGACCCG
* *
11773020 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-AAAAACAGAAA-TAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATA
11773078 TCAGAATACC
Statistics
Matches: 325, Mismatches: 37, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
75 75 0.23
76 9 0.03
77 99 0.30
78 69 0.21
79 73 0.22
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (77 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAACTAAAAATACCTCA
GCGTGTGACCCG
Found at i:11780679 original size:53 final size:53
Alignment explanation
Indices: 11780609--11780801 Score: 307
Period size: 53 Copynumber: 3.6 Consensus size: 53
11780599 CACATATCAT
* * * *
11780609 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAGTCACATTATCACATTAC
*
11780662 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTAC
*
11780715 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTAC
*
11780768 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
11780802 GCGCACTTAT
Statistics
Matches: 133, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
52 1 0.01
53 132 0.99
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTAC
Found at i:11788247 original size:53 final size:53
Alignment explanation
Indices: 11788166--11788316 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
11788156 CTTACACGGT
* *
11788166 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
11788221 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
11788274 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
11788317 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:11795277 original size:24 final size:22
Alignment explanation
Indices: 11795223--11795280 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
11795213 GAAAAATATT
*
11795223 AAAAT-ATAATATTAGAATAAA
1 AAAATAATAATATTACAATAAA
*
11795244 AATAACAATAATATTCACAATAAA
1 AA-AATAATAATATT-ACAATAAA
11795268 GAAAATAATAATA
1 -AAAATAATAATA
11795281 AAAAATAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 8 0.27
24 16 0.53
25 2 0.07
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (22 bp):
AAAATAATAATATTACAATAAA
Found at i:11795452 original size:3 final size:3
Alignment explanation
Indices: 11795439--11795571 Score: 57
Period size: 3 Copynumber: 43.0 Consensus size: 3
11795429 AAAAGCAAAT
* *
11795439 ATA AT- ATA ATA AT- ATCA A-A ATA A-A ATA ATTA AAA ATA ATA CT-
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA ATA
11795481 ATA TATAA ATA TATA TATA CATA TATA ATA ATA AT- ATA CACTA ATA ATA
1 ATA -AT-A ATA -ATA -ATA -ATA -ATA ATA ATA ATA ATA -A-TA ATA ATA
* * *
11795530 ATA ATA GTA ATA AT- ATAA ATA GTA TTA GA-A ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA
11795572 TTTAATAAAG
Statistics
Matches: 102, Mismatches: 11, Indels: 34
0.69 0.07 0.23
Matches are distributed among these distances:
2 14 0.14
3 60 0.59
4 25 0.25
5 3 0.03
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11795517 original size:19 final size:19
Alignment explanation
Indices: 11795472--11795535 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
11795462 AATAATTAAA
*
11795472 AATAATACTATATATA-AAT
1 AATAATA-TACATATATAAT
11795491 -ATATATATACATATATAAT
1 AATA-ATATACATATATAAT
11795510 AATAATATACACTA-ATAAT
1 AATAATATACA-TATATAAT
11795529 AATAATA
1 AATAATA
11795536 GTAATAATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
18 10 0.25
19 25 0.62
20 5 0.12
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AATAATATACATATATAAT
Found at i:11795540 original size:9 final size:8
Alignment explanation
Indices: 11795439--11795547 Score: 68
Period size: 8 Copynumber: 13.1 Consensus size: 8
11795429 AAAAGCAAAT
11795439 ATAATATA
1 ATAATATA
11795447 ATAATATCA
1 ATAATAT-A
*
11795456 A-AATAAA
1 ATAATATA
11795463 ATAAT-TA
1 ATAATATA
11795470 A-AA-ATA
1 ATAATATA
*
11795476 ATACTATA
1 ATAATATA
11795484 TATAA-AT-
1 -ATAATATA
11795491 ATATATATA
1 ATA-ATATA
11795500 CATATATAATA
1 -ATA-AT-ATA
11795511 ATAATATA
1 ATAATATA
11795519 CACTAATAATA
1 -A-TAAT-ATA
11795530 ATAATAGTA
1 ATAATA-TA
11795539 ATAATATA
1 ATAATATA
11795547 A
1 A
11795548 ATAGTATTAG
Statistics
Matches: 82, Mismatches: 4, Indels: 30
0.71 0.03 0.26
Matches are distributed among these distances:
6 8 0.10
7 6 0.07
8 28 0.34
9 20 0.24
10 14 0.17
11 6 0.07
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.34
Consensus pattern (8 bp):
ATAATATA
Found at i:11799406 original size:45 final size:45
Alignment explanation
Indices: 11799342--11799427 Score: 172
Period size: 45 Copynumber: 1.9 Consensus size: 45
11799332 ATTAAAATTG
11799342 TGGTTATACTTATCGGTTTACATGGATTTAGTTTCTTTTTAATAA
1 TGGTTATACTTATCGGTTTACATGGATTTAGTTTCTTTTTAATAA
11799387 TGGTTATACTTATCGGTTTACATGGATTTAGTTTCTTTTTA
1 TGGTTATACTTATCGGTTTACATGGATTTAGTTTCTTTTTA
11799428 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.52
Consensus pattern (45 bp):
TGGTTATACTTATCGGTTTACATGGATTTAGTTTCTTTTTAATAA
Found at i:11799411 original size:22 final size:22
Alignment explanation
Indices: 11799342--11799411 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
11799332 ATTAAAATTG
11799342 TGGTTATACTTATCGGTTTACA
1 TGGTTATACTTATCGGTTTACA
* ** *
11799364 TGGATT-TAGTT-TCTTTTTAATAA
1 TGG-TTATACTTATCGGTTT-A-CA
11799387 TGGTTATACTTATCGGTTTACA
1 TGGTTATACTTATCGGTTTACA
11799409 TGG
1 TGG
11799412 ATTTAGTTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 10
0.66 0.15 0.19
Matches are distributed among these distances:
21 5 0.14
22 14 0.40
23 11 0.31
24 5 0.14
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.49
Consensus pattern (22 bp):
TGGTTATACTTATCGGTTTACA
Found at i:11799427 original size:21 final size:21
Alignment explanation
Indices: 11799358--11799428 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
11799348 TACTTATCGG
11799358 TTTACATGGATTTAGTTTCTT
1 TTTACATGGATTTAGTTTCTT
* * **
11799379 TTTAATAATGG-TTATACTTATCGG
1 TTT-A-CATGGATT-TAGTT-TCTT
11799403 TTTACATGGATTTAGTTTCTT
1 TTTACATGGATTTAGTTTCTT
11799424 TTTAC
1 TTTAC
11799429 TTTTATTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
21 10 0.27
22 11 0.30
23 11 0.30
24 5 0.14
ACGTcount: A:0.23, C:0.10, G:0.14, T:0.54
Consensus pattern (21 bp):
TTTACATGGATTTAGTTTCTT
Found at i:11800397 original size:21 final size:21
Alignment explanation
Indices: 11800352--11800414 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
11800342 TGGAAAATAA
* * *
11800352 TAAAATAAATAATACATTAAAT
1 TAAAAAAAATAATTC-TTAATT
11800374 TAAAAAAAATAATTCTTAATT
1 TAAAAAAAATAATTCTTAATT
* *
11800395 TAAAGAAAATAAAT-TTAATT
1 TAAAAAAAATAATTCTTAATT
11800415 ATCTAAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 6 0.17
21 17 0.47
22 13 0.36
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (21 bp):
TAAAAAAAATAATTCTTAATT
Found at i:11802430 original size:6 final size:6
Alignment explanation
Indices: 11802421--11802448 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
11802411 TATATATCTA
11802421 TATATG TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATA
11802449 ATTTGTATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:11810381 original size:26 final size:24
Alignment explanation
Indices: 11810352--11810400 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
11810342 TAAATAAAAA
* *
11810352 ATTTTAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
11810378 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
11810401 TTAAAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:11813292 original size:29 final size:27
Alignment explanation
Indices: 11813213--11813307 Score: 88
Period size: 27 Copynumber: 3.4 Consensus size: 27
11813203 GAATATCCAA
* *
11813213 CCCAAACACACCCGGAATATATAAATCCT
1 CCCAAACACA-CCGGTATATATATA-CCT
* *
11813242 -CCATAACATACCAGTATA-ATATAGCCT
1 CCCA-AACACACCGGTATATATATA-CCT
11813269 CCCAAACACACCGGTATATCATAT-CCT
1 CCCAAACACACCGGTATAT-ATATACCT
11813296 CCCAAACACACC
1 CCCAAACACACC
11813308 AAAAAGTATT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 34 0.62
28 12 0.22
29 9 0.16
ACGTcount: A:0.39, C:0.36, G:0.06, T:0.19
Consensus pattern (27 bp):
CCCAAACACACCGGTATATATATACCT
Found at i:11814251 original size:3 final size:3
Alignment explanation
Indices: 11814245--11814283 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
11814235 TTTTAAATCA
* *
11814245 AAT AAT AAT AAT AAT AAT ATT AAC AAT AAT AATT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AA
11814284 AATCTAAGAA
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:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11819636 original size:18 final size:18
Alignment explanation
Indices: 11819605--11819655 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
11819595 TGTATTATAA
11819605 TATTAATTAATAAAATAT
1 TATTAATTAATAAAATAT
* *
11819623 TATTACTTATTAAAATAT
1 TATTAATTAATAAAATAT
*
11819641 TATTATTTAATAAAA
1 TATTAATTAATAAAA
11819656 ATATCATTTA
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:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAATTAATAAAATAT
Found at i:11824496 original size:13 final size:13
Alignment explanation
Indices: 11824460--11824502 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 13
11824450 TCATATTTGA
11824460 TTTTTTAAAATTAATT
1 TTTTTTAAAA-T-A-T
11824476 TTTATTTAAAATAT
1 TTT-TTTAAAATAT
11824490 TTTTTTAAAATAT
1 TTTTTTAAAATAT
11824503 AATACATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 10 0.38
14 4 0.15
15 1 0.04
16 4 0.15
17 7 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTAAAATAT
Found at i:11827784 original size:25 final size:25
Alignment explanation
Indices: 11827750--11827801 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11827740 GTTTCATTTA
11827750 AGCAAGAGGCATAGCTGCTGTTTGT
1 AGCAAGAGGCATAGCTGCTGTTTGT
11827775 AGCAAGAGGCATAGCTGCTGTTTGT
1 AGCAAGAGGCATAGCTGCTGTTTGT
11827800 AG
1 AG
11827802 TTTTTTTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (25 bp):
AGCAAGAGGCATAGCTGCTGTTTGT
Found at i:11831825 original size:22 final size:21
Alignment explanation
Indices: 11831777--11831827 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
11831767 TAAAAAAAAT
* *
11831777 TATTTTTTGTTGTTTTCTTAT
1 TATTTTTTGTTATTTTCTTAC
* *
11831798 TGTTTTGTTGTTATTTTTTTAC
1 TATTTT-TTGTTATTTTCTTAC
11831820 TATTTTTT
1 TATTTTTT
11831828 TAACTATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.10, C:0.04, G:0.10, T:0.76
Consensus pattern (21 bp):
TATTTTTTGTTATTTTCTTAC
Found at i:11831826 original size:12 final size:12
Alignment explanation
Indices: 11831809--11831837 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
11831799 GTTTTGTTGT
11831809 TATTTTTTT-AC
1 TATTTTTTTAAC
11831820 TATTTTTTTAAC
1 TATTTTTTTAAC
11831832 TATTTT
1 TATTTT
11831838 GCTACAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTTTTAAC
Found at i:11832031 original size:18 final size:18
Alignment explanation
Indices: 11832010--11832047 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11832000 AGTATTTTTG
*
11832010 ATATATTATATTTAAAAA
1 ATATATTATATATAAAAA
*
11832028 ATATATTTTATATAAAAA
1 ATATATTATATATAAAAA
11832046 AT
1 AT
11832048 TTAATACGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATATATTATATATAAAAA
Found at i:11836771 original size:38 final size:38
Alignment explanation
Indices: 11836729--11836805 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
11836719 AAACTTCACT
11836729 AGGAAATCTCTTACTTTTTTATGTGGGATCTAAGTCTC
1 AGGAAATCTCTTACTTTTTTATGTGGGATCTAAGTCTC
11836767 AGGAAATCTCTTACTTTTTTATGTGGGATCTAAGTCTC
1 AGGAAATCTCTTACTTTTTTATGTGGGATCTAAGTCTC
11836805 A
1 A
11836806 TGCCTTTGGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.42
Consensus pattern (38 bp):
AGGAAATCTCTTACTTTTTTATGTGGGATCTAAGTCTC
Found at i:11836941 original size:30 final size:30
Alignment explanation
Indices: 11836905--11836966 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
11836895 TATTCATCTC
**
11836905 TAATTTTTCAATAAATC-TGAACTTTTAATT
1 TAATTTTTCAATAAA-CAAAAACTTTTAATT
11836935 TAATTTTTCAATAAACAAAAACTTTTAATT
1 TAATTTTTCAATAAACAAAAACTTTTAATT
11836965 TA
1 TA
11836967 TTTCATTTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (30 bp):
TAATTTTTCAATAAACAAAAACTTTTAATT
Found at i:11842076 original size:120 final size:120
Alignment explanation
Indices: 11841861--11842811 Score: 1008
Period size: 120 Copynumber: 7.9 Consensus size: 120
11841851 CAGATTCCTC
* * * * * *
11841861 AACATTGGCTCCAGAGACAGTGGCCTTAGCACTATCATTAGGTAAACCATCTCCGTCGTAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * *
11841926 CATCAGCAGCTACAGTCATTTCAGAGCCCTCTTTCTCTTCTGACCAGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * *
11841981 AACATTAGTTTCAGAGACAATGGCGTTTGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * * * *
11842046 CATCAGCAGCTACGGCCACTCCAGAACCCTCTTTCTCTTCTGACCTGGAATCAAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * *
11842101 AACATTGGCTTCGGAGACAGTGGCCTCAGCACTATCATTAGATAAACCAT-TGGCATTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCT-CCATTGCAATCA
* * *
11842165 CCACCATCAGCTACAGCCATTTCAGAGCCCGCATTCTCTTTTGACCAGGAATCAAT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
** * * * *** *
11842221 AACGCTGGCTTCAGAGACTGTGGTCTTAGCACTATCATTAGCTAAATTGTCTCCATTGCTATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
** ** **
11842286 CATCATCAGCTACAGTTATTTTGGAGCCCTCATTCTCTTTTGACCTGGAATTGAT
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * *
11842341 AACGTTGGCTTCAGAGACAGTGGCCTTAGCATTATCATTAGCTAAACCATCTCCATTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * *
11842406 CATCATCGGCTACAGCCATTTCAGAGCCCTCATTATCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * * * * *
11842461 AACAGTATCTTCAGAAACAGTTGCCTCAACACTGTCATT-GACAAAACCATCTCCATTGAAATCT
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAG-CTAAACCATCTCCATTGCAATCA
* ** * * ** *
11842525 CCATCACCAGCTACAGCCATTTCATTGCCCCCATTCTCTTTTGACCTGAAATTGAG
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * ** *
11842581 CACATTAGCTTCAGAAACAGCGGCCTCAACACTATCATTAATTAAACCATCTCCACTGCAATCAC
1 AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
* * * * * * *
11842646 CATCATCAGCTACTGTCATTTCGGAGCACTCACTCTCTTTTGACCTGAAATCAAG
66 CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
* * * * * * *
11842701 AACATCAGTTTCAGAAACAG-GGGCTTCAACACTATCATTAACTAAACCATCTCCACTGCAATCA
1 AACATTAGCTTCAGAGACAGTGGCCTT-AGCACTATCATTAGCTAAACCATCTCCATTGCAATCA
* *
11842765 CCATCATCAGCTACAGCTATTTCGGAGCCCTCATTCTCTTTTGACCT
65 CCATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCT
11842812 AAAATCAAGG
Statistics
Matches: 697, Mismatches: 129, Indels: 10
0.83 0.15 0.01
Matches are distributed among these distances:
119 6 0.01
120 690 0.99
121 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (120 bp):
AACATTAGCTTCAGAGACAGTGGCCTTAGCACTATCATTAGCTAAACCATCTCCATTGCAATCAC
CATCATCAGCTACAGCCATTTCAGAGCCCTCATTCTCTTTTGACCTGGAATCAAT
Found at i:11843865 original size:7 final size:7
Alignment explanation
Indices: 11843853--11843891 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
11843843 GTAAAATTCC
11843853 TTTCCTT
1 TTTCCTT
11843860 TTTCCTT
1 TTTCCTT
11843867 TTTCCTT
1 TTTCCTT
11843874 TTTCCTT
1 TTTCCTT
11843881 TTTCCTT
1 TTTCCTT
11843888 TTTC
1 TTTC
11843892 GTAATTTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTCCTT
Found at i:11845933 original size:23 final size:21
Alignment explanation
Indices: 11845893--11845943 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
11845883 GACATTTAGT
11845893 AATTTT-ATTTTTATTTTTAA
1 AATTTTAATTTTTATTTTTAA
*
11845913 AATTTTAATTTCTCTATTTTTTA
1 AATTTTAATTT-T-TATTTTTAA
*
11845936 TATTTTAA
1 AATTTTAA
11845944 AATTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 4 0.15
22 1 0.04
23 15 0.58
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTTTAATTTTTATTTTTAA
Found at i:11847530 original size:18 final size:18
Alignment explanation
Indices: 11847507--11847549 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
11847497 GAATAGGTAT
11847507 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
11847525 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
11847543 TTAATTA
1 TTAATTA
11847550 TACTTTGAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:11850307 original size:872 final size:872
Alignment explanation
Indices: 11848623--11850367 Score: 3490
Period size: 872 Copynumber: 2.0 Consensus size: 872
11848613 TTCAAAAAAA
11848623 AATCATTATTCATTAACCATAAATGGAGGAAAAAAGTTCCATATTTTTTTTGTCCAAATCTACCC
1 AATCATTATTCATTAACCATAAATGGAGGAAAAAAGTTCCATATTTTTTTTGTCCAAATCTACCC
11848688 TTTTTTTCCCGGTATATTTGCCTTTTTTTTTTAAAAGATTATTCTTATCATTCCATTCAGAGAAC
66 TTTTTTTCCCGGTATATTTGCCTTTTTTTTTTAAAAGATTATTCTTATCATTCCATTCAGAGAAC
11848753 TTTTTTTATTAAATTCAAACAAATCCTTAATTTTTAAAATATATTTAAATTATGTCAGTATTCAA
131 TTTTTTTATTAAATTCAAACAAATCCTTAATTTTTAAAATATATTTAAATTATGTCAGTATTCAA
11848818 AAAATGAGAAATAGGAGTGAGAAATAAGCAAAAGTAATAGGAAAATAATAAAAATGTATAGCAAG
196 AAAATGAGAAATAGGAGTGAGAAATAAGCAAAAGTAATAGGAAAATAATAAAAATGTATAGCAAG
11848883 TAGCCAGATTCATCTCATGACACATGTTTCTTATATTAAATTTAAAGGCTCCCTTTGACAAATAA
261 TAGCCAGATTCATCTCATGACACATGTTTCTTATATTAAATTTAAAGGCTCCCTTTGACAAATAA
11848948 AAGAAAATGTTTGGTATTGAAGCAATCTACCTTGTTTGGTAAAAATATAAAGTAAAGCTTTTGAT
326 AAGAAAATGTTTGGTATTGAAGCAATCTACCTTGTTTGGTAAAAATATAAAGTAAAGCTTTTGAT
11849013 TTTCTTTTCTTTCTTTTTTTTCTTGAAAGATAAACAAATAATTATATTAAACTACTATGAAAAAG
391 TTTCTTTTCTTTCTTTTTTTTCTTGAAAGATAAACAAATAATTATATTAAACTACTATGAAAAAG
11849078 TTTCACTTGCTGTACCAAATTTTAAAATAACAATAAGCTCTCCAAGAACTTTGTTAAAAACTCGA
456 TTTCACTTGCTGTACCAAATTTTAAAATAACAATAAGCTCTCCAAGAACTTTGTTAAAAACTCGA
11849143 ACACCTTCTTTTCTATTGCAGTTTTATTTTTTTTCCCTAAGAACATACCTTAATCTCTATTGTCC
521 ACACCTTCTTTTCTATTGCAGTTTTATTTTTTTTCCCTAAGAACATACCTTAATCTCTATTGTCC
11849208 AATAAGTCTAAAACTTGAAGAATCCTCCTTATCAAGGTTGAATTTGAAACTATCAATTGCTCATC
586 AATAAGTCTAAAACTTGAAGAATCCTCCTTATCAAGGTTGAATTTGAAACTATCAATTGCTCATC
11849273 ATAAATAGCTTTGACCACCTCAAAGCTAGCAATGTAGATCATCACTTTGTTAAGTCCTTGCCTGT
651 ATAAATAGCTTTGACCACCTCAAAGCTAGCAATGTAGATCATCACTTTGTTAAGTCCTTGCCTGT
11849338 GAAAGAGAACCAGATCATCCAAAACCCCTCATAGTTTAACATCAAACACTAACACTCCTCAAATA
716 GAAAGAGAACCAGATCATCCAAAACCCCTCATAGTTTAACATCAAACACTAACACTCCTCAAATA
11849403 ATGATTGTATCCAAGGACCCGCTCTCCTTTATGATCTTGCAAAACTCCCCTTGTAGAAACAAGGC
781 ATGATTGTATCCAAGGACCCGCTCTCCTTTATGATCTTGCAAAACTCCCCTTGTAGAAACAAGGC
11849468 CTACACTCGACTTGATGCCCCATTAGT
846 CTACACTCGACTTGATGCCCCATTAGT
11849495 AATCATTATTCATTAACCATAAATGGAGGAAAAAAGTTCCATATTTTTTTTGTCCAAATCTACCC
1 AATCATTATTCATTAACCATAAATGGAGGAAAAAAGTTCCATATTTTTTTTGTCCAAATCTACCC
11849560 TTTTTTTCCCGGTATATTTGCCTTTTTTTTTTAAAAGATTATTCTTATCATTCCATTCAGAGAAC
66 TTTTTTTCCCGGTATATTTGCCTTTTTTTTTTAAAAGATTATTCTTATCATTCCATTCAGAGAAC
11849625 TTTTTTTATTAAATTCAAACAAATCCTTAATTTTTAAAATATATTTAAATTATGTCAGTATTCAA
131 TTTTTTTATTAAATTCAAACAAATCCTTAATTTTTAAAATATATTTAAATTATGTCAGTATTCAA
11849690 AAAATGAGAAATAGGAGTGAGAAATAAGCAAAAGTAATAGGAAAATAATAAAAATGTATAGCAAG
196 AAAATGAGAAATAGGAGTGAGAAATAAGCAAAAGTAATAGGAAAATAATAAAAATGTATAGCAAG
11849755 TAGCCAGATTCATCTCATGACACATGTTTCTTATATTAAATTTAAAGGCTCCCTTTGACAAATAA
261 TAGCCAGATTCATCTCATGACACATGTTTCTTATATTAAATTTAAAGGCTCCCTTTGACAAATAA
11849820 AAGAAAATGTTTGGTATTGAAGCAATCTACCTTGTTTGGTAAAAATATAAAGTAAAGCTTTTGAT
326 AAGAAAATGTTTGGTATTGAAGCAATCTACCTTGTTTGGTAAAAATATAAAGTAAAGCTTTTGAT
11849885 TTTCTTTTCTTTCTTTTTTTTCTTGAAAGATAAACAAATAATTATATTAAACTACTATGAAAAAG
391 TTTCTTTTCTTTCTTTTTTTTCTTGAAAGATAAACAAATAATTATATTAAACTACTATGAAAAAG
11849950 TTTCACTTGCTGTACCAAATTTTAAAATAACAATAAGCTCTCCAAGAACTTTGTTAAAAACTCGA
456 TTTCACTTGCTGTACCAAATTTTAAAATAACAATAAGCTCTCCAAGAACTTTGTTAAAAACTCGA
11850015 ACACCTTCTTTTCTATTGCAGTTTTATTTTTTTTCCCTAAGAACATACCTTAATCTCTATTGTCC
521 ACACCTTCTTTTCTATTGCAGTTTTATTTTTTTTCCCTAAGAACATACCTTAATCTCTATTGTCC
11850080 AATAAGTCTAAAACTTGAAGAATCCTCCTTATCAAGGTTGAATTTGAAACTATCAATTGCTCATC
586 AATAAGTCTAAAACTTGAAGAATCCTCCTTATCAAGGTTGAATTTGAAACTATCAATTGCTCATC
11850145 ATAAATAGCTTTGACCACCTCAAAGCTAGCAATGTAGATCATCACTTTGTTAAGTCCTTGCCTGT
651 ATAAATAGCTTTGACCACCTCAAAGCTAGCAATGTAGATCATCACTTTGTTAAGTCCTTGCCTGT
11850210 GAAAGAGAACCAGATCATCCAAAACCCCTCATAGTTTAACATCAAACACTAACACTCCTCAAATA
716 GAAAGAGAACCAGATCATCCAAAACCCCTCATAGTTTAACATCAAACACTAACACTCCTCAAATA
11850275 ATGATTGTATCCAAGGACCCGCTCTCCTTTATGATCTTGCAAAACTCCCCTTGTAGAAACAAGGC
781 ATGATTGTATCCAAGGACCCGCTCTCCTTTATGATCTTGCAAAACTCCCCTTGTAGAAACAAGGC
11850340 CTACACTCGACTTGATGCCCCATTAGT
846 CTACACTCGACTTGATGCCCCATTAGT
11850367 A
1 A
11850368 TGTAAGAGGC
Statistics
Matches: 873, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
872 873 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (872 bp):
AATCATTATTCATTAACCATAAATGGAGGAAAAAAGTTCCATATTTTTTTTGTCCAAATCTACCC
TTTTTTTCCCGGTATATTTGCCTTTTTTTTTTAAAAGATTATTCTTATCATTCCATTCAGAGAAC
TTTTTTTATTAAATTCAAACAAATCCTTAATTTTTAAAATATATTTAAATTATGTCAGTATTCAA
AAAATGAGAAATAGGAGTGAGAAATAAGCAAAAGTAATAGGAAAATAATAAAAATGTATAGCAAG
TAGCCAGATTCATCTCATGACACATGTTTCTTATATTAAATTTAAAGGCTCCCTTTGACAAATAA
AAGAAAATGTTTGGTATTGAAGCAATCTACCTTGTTTGGTAAAAATATAAAGTAAAGCTTTTGAT
TTTCTTTTCTTTCTTTTTTTTCTTGAAAGATAAACAAATAATTATATTAAACTACTATGAAAAAG
TTTCACTTGCTGTACCAAATTTTAAAATAACAATAAGCTCTCCAAGAACTTTGTTAAAAACTCGA
ACACCTTCTTTTCTATTGCAGTTTTATTTTTTTTCCCTAAGAACATACCTTAATCTCTATTGTCC
AATAAGTCTAAAACTTGAAGAATCCTCCTTATCAAGGTTGAATTTGAAACTATCAATTGCTCATC
ATAAATAGCTTTGACCACCTCAAAGCTAGCAATGTAGATCATCACTTTGTTAAGTCCTTGCCTGT
GAAAGAGAACCAGATCATCCAAAACCCCTCATAGTTTAACATCAAACACTAACACTCCTCAAATA
ATGATTGTATCCAAGGACCCGCTCTCCTTTATGATCTTGCAAAACTCCCCTTGTAGAAACAAGGC
CTACACTCGACTTGATGCCCCATTAGT
Found at i:11854820 original size:24 final size:23
Alignment explanation
Indices: 11854777--11854831 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
11854767 ATCTTCCATT
11854777 TTATTT-TTTTAATATCTATTTC
1 TTATTTATTTTAATATCTATTTC
* * *
11854799 TTATTTATTTATAATTTTTATTTG
1 TTATTTATTT-TAATATCTATTTC
*
11854823 TTCTTTATT
1 TTATTTATT
11854832 CTCAAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 6 0.22
23 3 0.11
24 18 0.67
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTTATTTTAATATCTATTTC
Found at i:11856670 original size:8 final size:8
Alignment explanation
Indices: 11856633--11856673 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
11856623 TAATTTTTTA
11856633 AAAATTAT
1 AAAATTAT
11856641 AAAGA-TAT
1 AAA-ATTAT
11856649 AAAA-TATT
1 AAAATTA-T
11856657 AAAATTAT
1 AAAATTAT
11856665 AAAATTAT
1 AAAATTAT
11856673 A
1 A
11856674 TTTTTACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 3 0.10
8 24 0.80
9 3 0.10
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (8 bp):
AAAATTAT
Found at i:11859025 original size:9 final size:9
Alignment explanation
Indices: 11859007--11859035 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11858997 CTTTTTTCCC
11859007 AAAAAA-AA
1 AAAAAAGAA
11859015 AAAAAAGAA
1 AAAAAAGAA
11859024 AAAAAAGAA
1 AAAAAAGAA
11859033 AAA
1 AAA
11859036 GGCAAGACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:11859027 original size:15 final size:15
Alignment explanation
Indices: 11859007--11859036 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11858997 CTTTTTTCCC
11859007 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
11859022 AAAAAAAAGAAAAAG
1 AAAAAAAAAAAAAAG
11859037 GCAAGACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:11863266 original size:20 final size:21
Alignment explanation
Indices: 11863228--11863269 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
11863218 TTTAATATTC
11863228 GATAAAAAAAGGTAATATTGTA
1 GATAAAAAAA-GTAATATTGTA
*
11863250 GATAAAAAAA-TAGTATTGTA
1 GATAAAAAAAGTAATATTGTA
11863270 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
22 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.29
Consensus pattern (21 bp):
GATAAAAAAAGTAATATTGTA
Found at i:11865961 original size:13 final size:13
Alignment explanation
Indices: 11865943--11865969 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11865933 GAAAACGTGC
11865943 TGAAATTTAAATA
1 TGAAATTTAAATA
11865956 TGAAATTTAAATA
1 TGAAATTTAAATA
11865969 T
1 T
11865970 AATAGTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (13 bp):
TGAAATTTAAATA
Done.